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Q5TAT6

- CODA1_HUMAN

UniProt

Q5TAT6 - CODA1_HUMAN

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Protein

Collagen alpha-1(XIII) chain

Gene

COL13A1

Organism
Homo sapiens (Human)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli

Functioni

Involved in cell-matrix and cell-cell adhesion interactions that are required for normal development. May participate in the linkage between muscle fiber and basement membrane. May play a role in endochondral ossification of bone and branching morphogenesis of lung. Binds heparin.By similarity2 Publications

GO - Molecular functioni

  1. heparin binding Source: UniProtKB

GO - Biological processi

  1. cell differentiation Source: UniProtKB-KW
  2. cell-matrix adhesion Source: UniProtKB
  3. collagen catabolic process Source: Reactome
  4. endochondral ossification Source: UniProtKB
  5. extracellular matrix disassembly Source: Reactome
  6. extracellular matrix organization Source: Reactome
  7. morphogenesis of a branching structure Source: UniProtKB
  8. single organismal cell-cell adhesion Source: UniProtKB
Complete GO annotation...

Keywords - Molecular functioni

Developmental protein

Keywords - Biological processi

Cell adhesion, Differentiation, Osteogenesis

Keywords - Ligandi

Heparin-binding

Enzyme and pathway databases

ReactomeiREACT_121139. Collagen biosynthesis and modifying enzymes.
REACT_13552. Integrin cell surface interactions.
REACT_150401. Collagen degradation.

Names & Taxonomyi

Protein namesi
Recommended name:
Collagen alpha-1(XIII) chain
Alternative name(s):
COLXIIIA1
Gene namesi
Name:COL13A1Imported
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
ProteomesiUP000005640: Chromosome 10

Organism-specific databases

HGNCiHGNC:2190. COL13A1.

Subcellular locationi

Cell membrane 1 Publication; Single-pass type II membrane protein By similarity1 Publication

GO - Cellular componenti

  1. cell-cell junction Source: Ensembl
  2. collagen type XIII trimer Source: UniProtKB
  3. endoplasmic reticulum lumen Source: Reactome
  4. extracellular region Source: Reactome
  5. plasma membrane Source: Reactome
Complete GO annotation...

Keywords - Cellular componenti

Cell membrane, Membrane

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA26706.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 717717Collagen alpha-1(XIII) chainPRO_0000284679Add
BLAST

Keywords - PTMi

Disulfide bond

Proteomic databases

PaxDbiQ5TAT6.
PRIDEiQ5TAT6.

PTM databases

PhosphoSiteiQ5TAT6.

Expressioni

Tissue specificityi

Widely expressed in both fetal and adult ocular tissues (at protein level). In the eye, expression is accentuated in the ciliary muscle, optic nerve and the neural retina. In early placenta, localized to fibroblastoid stromal cells of the placental villi, to endothelial cells of developing capillaries and to cells of the cytotrophoblastic columns. Also detected in large decidual cells of the decidual membrane and to stromal cells of the gestational endometrium, but not in the epithelial cells in the endometrial glands.2 Publications

Gene expression databases

BgeeiQ5TAT6.
ExpressionAtlasiQ5TAT6. baseline and differential.
GenevestigatoriQ5TAT6.

Organism-specific databases

HPAiHPA050392.

Interactioni

Subunit structurei

Homotrimer; disulfide-linked. Nucleation of the type XIII collagen triple helix is likely to occur at the N-terminal region with triple helix formation proceeding from the N- to the C-terminus. Interacts with FN1, perlecan/HSPG2 and NID2.2 Publications

Structurei

3D structure databases

ProteinModelPortaliQ5TAT6.
ModBaseiSearch...
MobiDBiSearch...

Topological domain

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini1 – 4444CytoplasmicSequence AnalysisAdd
BLAST
Topological domaini62 – 717656ExtracellularSequence AnalysisAdd
BLAST

Transmembrane

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Transmembranei45 – 6117Helical; Signal-anchor for type II membrane proteinSequence AnalysisAdd
BLAST

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni1 – 121121Nonhelical region 1 (NC1)Sequence AnalysisAdd
BLAST
Regioni122 – 21695Triple-helical region 1 (COL1)Sequence AnalysisAdd
BLAST
Regioni217 – 26953Nonhelical region 2 (NC2)Sequence AnalysisAdd
BLAST
Regioni270 – 441172Triple-helical region 2 (COL2)Sequence AnalysisAdd
BLAST
Regioni442 – 46322Nonhelical region 3 (NC3)Sequence AnalysisAdd
BLAST
Regioni464 – 699236Triple-helical region 3 (COL3)Sequence AnalysisAdd
BLAST
Regioni700 – 71718Nonhelical region 4 (NC4)Sequence AnalysisAdd
BLAST

Keywords - Domaini

Collagen, Signal-anchor, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiNOG254293.
GeneTreeiENSGT00760000118927.
HOGENOMiHOG000085653.
HOVERGENiHBG004933.
InParanoidiQ5TAT6.
KOiK16617.
PhylomeDBiQ5TAT6.
TreeFamiTF338175.

Family and domain databases

InterProiIPR008160. Collagen.
[Graphical view]
PfamiPF01391. Collagen. 10 hits.
[Graphical view]

Sequences (11)i

Sequence statusi: Complete.

This entry describes 11 isoformsi produced by alternative splicing. Align

Note: Additional isoforms seem to exist.Curated

Isoform 11 Publication (identifier: Q5TAT6-1) [UniParc]FASTAAdd to Basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MVAERTHKAA ATGARGPGEL GAPGTVALVA ARAERGARLP SPGSCGLLTL
60 70 80 90 100
ALCSLALSLL AHFRTAELQA RVLRLEAERG EQQMETAILG RVNQLLDEKW
110 120 130 140 150
KLHSRRRREA PKTSPGCNCP PGPPGPTGRP GLPGDKGAIG MPGRVGSPGD
160 170 180 190 200
AGLSIIGPRG PPGQPGTRGF PGFPGPIGLD GKPGHPGPKG DMGLTGPPGQ
210 220 230 240 250
PGPQGQKGEK GQCGEYPHRE CLSSMPAALR SSQIIALKLL PLLNSVRLAP
260 270 280 290 300
PPVIKRRTFQ GEQSQASIQG PPGPPGPPGP SGPLGHPGLP GPMGPPGLPG
310 320 330 340 350
PPGPKGDPGI QGYHGRKGER GMPGMPGKHG AKGAPGIAVA GMKGEPGIPG
360 370 380 390 400
TKGEKGAEGS PGLPGLLGQK GEKGDAGNSI GGGRGEPGPP GLPGPPGPKG
410 420 430 440 450
EAGVDGQVGP PGQPGDKGER GAAGEQGPDG PKGSKGEPGK GEMVDYNGNI
460 470 480 490 500
NEALQEIRTL ALMGPPGLPG QIGPPGAPGI PGQKGEIGLP GPPGHDGEKG
510 520 530 540 550
PRGKPGDMGP PGPQGPPGKD GPPGVKGENG HPGSPGEKGE KGETGQAGSP
560 570 580 590 600
GEKGEAGEKG NPGAEVPGLP GPEGPPGPPG LQGVPGPKGE AGLDGAKGEK
610 620 630 640 650
GFQGEKGDRG PLGLPGASGL DGRPGPPGTP GPIGVPGPAG PKGERGSKGD
660 670 680 690 700
PGMTGPTGAA GLPGLHGPPG DKGNRGERGK KGSRGPKGDK GDQGAPGLDA
710
PCPLGEDGLP VQGCWNK
Length:717
Mass (Da):69,950
Last modified:December 21, 2004 - v1
Checksum:iFD12CA80CC93540F
GO
Isoform 21 Publication (identifier: Q5TAT6-2) [UniParc]FASTAAdd to Basket

The sequence of this isoform differs from the canonical sequence as follows:
     239-260: Missing.

Note: Gene prediction based on EST data.Curated

Show »
Length:695
Mass (Da):67,439
Checksum:i9816F7BCDD8C108B
GO
Isoform 31 Publication (identifier: Q5TAT6-3) [UniParc]FASTAAdd to Basket

The sequence of this isoform differs from the canonical sequence as follows:
     239-260: Missing.
     617-628: Missing.

Note: Gene prediction based on EST data.Curated

Show »
Length:683
Mass (Da):66,377
Checksum:i3BB550FD03062C30
GO
Isoform 41 Publication (identifier: Q5TAT6-4) [UniParc]FASTAAdd to Basket

The sequence of this isoform differs from the canonical sequence as follows:
     239-260: Missing.
     551-565: Missing.
     617-628: Missing.

Show »
Length:668
Mass (Da):64,965
Checksum:iAAC18C9E4B45DA4E
GO
Isoform 51 Publication (identifier: Q5TAT6-5) [UniParc]FASTAAdd to Basket

The sequence of this isoform differs from the canonical sequence as follows:
     551-565: Missing.

Show »
Length:702
Mass (Da):68,538
Checksum:i66FC08083E0D4A91
GO
Isoform 61 Publication (identifier: Q5TAT6-6) [UniParc]FASTAAdd to Basket

The sequence of this isoform differs from the canonical sequence as follows:
     566-579: Missing.

Show »
Length:703
Mass (Da):68,700
Checksum:i62947B1FEEBF6268
GO
Isoform 71 Publication (identifier: Q5TAT6-7) [UniParc]FASTAAdd to Basket

The sequence of this isoform differs from the canonical sequence as follows:
     566-579: Missing.
     617-628: Missing.

Show »
Length:691
Mass (Da):67,638
Checksum:iEEC688B6A5364877
GO
Isoform 81 Publication (identifier: Q5TAT6-8) [UniParc]FASTAAdd to Basket

The sequence of this isoform differs from the canonical sequence as follows:
     220-238: Missing.
     617-628: Missing.

Show »
Length:686
Mass (Da):66,887
Checksum:i0256074DDF33E752
GO
Isoform 91 Publication (identifier: Q5TAT6-9) [UniParc]FASTAAdd to Basket

The sequence of this isoform differs from the canonical sequence as follows:
     239-260: Missing.
     551-565: Missing.
     617-628: Missing.
     676-705: Missing.

Show »
Length:638
Mass (Da):62,077
Checksum:iE172A8ADA30B84DC
GO
Isoform 10 (identifier: Q5TAT6-10) [UniParc]FASTAAdd to Basket

The sequence of this isoform differs from the canonical sequence as follows:
     122-159: Missing.
     220-238: Missing.
     551-565: Missing.

Note: No experimental confirmation available.

Show »
Length:645
Mass (Da):63,036
Checksum:i2BD4AF1794648BDA
GO
Isoform 11 (identifier: Q5TAT6-11) [UniParc]FASTAAdd to Basket

The sequence of this isoform differs from the canonical sequence as follows:
     135-163: Missing.
     239-260: Missing.
     551-565: Missing.
     617-628: Missing.
     678-706: Missing.

Note: Gene prediction based on EST data.

Show »
Length:610
Mass (Da):59,465
Checksum:iDDDD4D432DD45849
GO

Sequence cautioni

The sequence AAA51685.1 differs from that shown. Reason: Erroneous initiation.

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti182 – 1821K → F in AAA51685. (PubMed:1698771)Curated
Sequence conflicti394 – 3941G → A in CAC00688. (PubMed:11013208)Curated
Sequence conflicti394 – 3941G → A in AAA51685. (PubMed:1698771)Curated
Sequence conflicti466 – 4661P → L in AAA51685. (PubMed:1698771)Curated
Sequence conflicti466 – 4661P → L in AAA52047. (PubMed:3547403)Curated
Sequence conflicti469 – 4691P → L in AAA51685. (PubMed:1698771)Curated
Sequence conflicti469 – 4691P → L in AAA52047. (PubMed:3547403)Curated
Sequence conflicti475 – 4751P → L in AAA51685. (PubMed:1698771)Curated
Sequence conflicti475 – 4751P → L in AAA52047. (PubMed:3547403)Curated
Sequence conflicti478 – 4781P → L in AAA51685. (PubMed:1698771)Curated
Sequence conflicti478 – 4781P → L in AAA52047. (PubMed:3547403)Curated
Sequence conflicti480 – 4812IP → ML in AAA51685. (PubMed:1698771)Curated
Sequence conflicti480 – 4812IP → ML in AAA52047. (PubMed:3547403)Curated
Sequence conflicti490 – 4901P → L in AAA51685. (PubMed:1698771)Curated
Sequence conflicti490 – 4901P → L in AAA52047. (PubMed:3547403)Curated
Sequence conflicti493 – 4931P → L in AAA51685. (PubMed:1698771)Curated
Sequence conflicti493 – 4931P → L in AAA52047. (PubMed:3547403)Curated
Sequence conflicti498 – 4981Missing in AAA51685. (PubMed:1698771)Curated
Sequence conflicti498 – 4981Missing in AAA52047. (PubMed:3547403)Curated
Sequence conflicti505 – 5051P → L in AAA51685. (PubMed:1698771)Curated
Sequence conflicti505 – 5051P → L in AAA52047. (PubMed:3547403)Curated
Sequence conflicti511 – 5111P → L in AAA51685. (PubMed:1698771)Curated
Sequence conflicti511 – 5111P → L in AAA52047. (PubMed:3547403)Curated
Sequence conflicti517 – 5171P → L in AAA51685. (PubMed:1698771)Curated
Sequence conflicti517 – 5171P → L in AAA52047. (PubMed:3547403)Curated
Sequence conflicti570 – 5701P → L in AAA52047. (PubMed:3547403)Curated
Sequence conflicti570 – 5701P → L in AAA51987. (PubMed:2459707)Curated
Sequence conflicti570 – 5701P → L in AAA51990. (PubMed:2459707)Curated
Sequence conflicti570 – 5701P → L in AAA51991. (PubMed:2459707)Curated
Sequence conflicti706 – 7061E → Q in AAA52047. (PubMed:3547403)Curated
Sequence conflicti706 – 7061E → Q in AAA52048. (PubMed:3547403)Curated
Sequence conflicti706 – 7061E → Q in AAA51987. (PubMed:2459707)Curated
Sequence conflicti706 – 7061E → Q in AAA51988. (PubMed:2459707)Curated
Sequence conflicti706 – 7061E → Q in AAA51989. (PubMed:2459707)Curated
Sequence conflicti706 – 7061E → Q in AAA51990. (PubMed:2459707)Curated
Sequence conflicti706 – 7061E → Q in AAA51991. (PubMed:2459707)Curated
Sequence conflicti709 – 7091L → Y in AAA51987. (PubMed:2459707)Curated
Sequence conflicti709 – 7091L → Y in AAA51988. (PubMed:2459707)Curated
Sequence conflicti709 – 7091L → Y in AAA51989. (PubMed:2459707)Curated
Sequence conflicti709 – 7091L → Y in AAA51990. (PubMed:2459707)Curated
Sequence conflicti709 – 7091L → Y in AAA51991. (PubMed:2459707)Curated

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti531 – 5311H → Q.
Corresponds to variant rs1061954 [ dbSNP | Ensembl ].
VAR_055670

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei122 – 15938Missing in isoform 10. 1 PublicationVSP_043361Add
BLAST
Alternative sequencei135 – 16329Missing in isoform 11. CuratedVSP_047230Add
BLAST
Alternative sequencei220 – 23819Missing in isoform 8 and isoform 10. 2 PublicationsVSP_052382Add
BLAST
Alternative sequencei239 – 26022Missing in isoform 2, isoform 3, isoform 4, isoform 9 and isoform 11. 1 PublicationVSP_052383Add
BLAST
Alternative sequencei551 – 56515Missing in isoform 4, isoform 5, isoform 9, isoform 10 and isoform 11. 3 PublicationsVSP_052384Add
BLAST
Alternative sequencei566 – 57914Missing in isoform 6 and isoform 7. 1 PublicationVSP_052385Add
BLAST
Alternative sequencei617 – 62812Missing in isoform 3, isoform 4, isoform 7, isoform 8, isoform 9 and isoform 11. 1 PublicationVSP_052386Add
BLAST
Alternative sequencei676 – 70530Missing in isoform 9. 1 PublicationVSP_052387Add
BLAST
Alternative sequencei678 – 70629Missing in isoform 11. CuratedVSP_047231Add
BLAST

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AJ293624 mRNA. Translation: CAC00688.1.
AC024601 Genomic DNA. No translation available.
AC025426 Genomic DNA. No translation available.
AL138925 Genomic DNA. No translation available.
BC136385 mRNA. Translation: AAI36386.1.
M59217 mRNA. Translation: AAA51685.1. Different initiation.
M33653 mRNA. Translation: AAA52047.1.
M15524 mRNA. Translation: AAA52048.1.
M20803
, M20795, M20796, M20797, M20798, M20799, M20800, M20801, M20802, M20804, M20805 Genomic DNA. Translation: AAA51987.1.
M20803
, M20795, M20796, M20797, M20798, M20799, M20800, M20801, M20802, M20804 Genomic DNA. Translation: AAA51988.1.
M20803
, M20795, M20796, M20797, M20798, M20799, M20801, M20802, M20804 Genomic DNA. Translation: AAA51989.1.
M20803
, M20796, M20797, M20798, M20799, M20800, M20801, M20802, M20804, M20805 Genomic DNA. Translation: AAA51990.1.
M20803
, M20796, M20797, M20798, M20799, M20801, M20802, M20804, M20805 Genomic DNA. Translation: AAA51991.1.
CCDSiCCDS44419.1. [Q5TAT6-1]
CCDS44423.2. [Q5TAT6-4]
CCDS44424.2. [Q5TAT6-2]
CCDS44425.2. [Q5TAT6-8]
CCDS44427.2. [Q5TAT6-10]
CCDS44428.2. [Q5TAT6-11]
PIRiB40983.
RefSeqiNP_001123575.1. NM_001130103.1. [Q5TAT6-1]
NP_542988.3. NM_080798.3. [Q5TAT6-10]
NP_542990.3. NM_080800.3. [Q5TAT6-8]
NP_542991.3. NM_080801.3. [Q5TAT6-2]
NP_542992.3. NM_080802.3. [Q5TAT6-4]
NP_542995.3. NM_080805.3. [Q5TAT6-11]
UniGeneiHs.695934.

Genome annotation databases

EnsembliENST00000354547; ENSP00000346553; ENSG00000197467. [Q5TAT6-2]
ENST00000357811; ENSP00000350463; ENSG00000197467. [Q5TAT6-3]
ENST00000398978; ENSP00000381949; ENSG00000197467. [Q5TAT6-1]
ENST00000517713; ENSP00000430061; ENSG00000197467. [Q5TAT6-4]
ENST00000520133; ENSP00000430173; ENSG00000197467. [Q5TAT6-11]
ENST00000520267; ENSP00000428057; ENSG00000197467. [Q5TAT6-10]
ENST00000522165; ENSP00000428342; ENSG00000197467. [Q5TAT6-8]
GeneIDi1305.
KEGGihsa:1305.
UCSCiuc001jqk.2. human. [Q5TAT6-2]
uc001jql.3. human. [Q5TAT6-1]
uc010qjf.2. human. [Q5TAT6-10]
uc021prz.1. human. [Q5TAT6-4]
uc021psc.1. human. [Q5TAT6-8]

Polymorphism databases

DMDMi74745860.

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AJ293624 mRNA. Translation: CAC00688.1 .
AC024601 Genomic DNA. No translation available.
AC025426 Genomic DNA. No translation available.
AL138925 Genomic DNA. No translation available.
BC136385 mRNA. Translation: AAI36386.1 .
M59217 mRNA. Translation: AAA51685.1 . Different initiation.
M33653 mRNA. Translation: AAA52047.1 .
M15524 mRNA. Translation: AAA52048.1 .
M20803
, M20795 , M20796 , M20797 , M20798 , M20799 , M20800 , M20801 , M20802 , M20804 , M20805 Genomic DNA. Translation: AAA51987.1 .
M20803
, M20795 , M20796 , M20797 , M20798 , M20799 , M20800 , M20801 , M20802 , M20804 Genomic DNA. Translation: AAA51988.1 .
M20803
, M20795 , M20796 , M20797 , M20798 , M20799 , M20801 , M20802 , M20804 Genomic DNA. Translation: AAA51989.1 .
M20803
, M20796 , M20797 , M20798 , M20799 , M20800 , M20801 , M20802 , M20804 , M20805 Genomic DNA. Translation: AAA51990.1 .
M20803
, M20796 , M20797 , M20798 , M20799 , M20801 , M20802 , M20804 , M20805 Genomic DNA. Translation: AAA51991.1 .
CCDSi CCDS44419.1. [Q5TAT6-1 ]
CCDS44423.2. [Q5TAT6-4 ]
CCDS44424.2. [Q5TAT6-2 ]
CCDS44425.2. [Q5TAT6-8 ]
CCDS44427.2. [Q5TAT6-10 ]
CCDS44428.2. [Q5TAT6-11 ]
PIRi B40983.
RefSeqi NP_001123575.1. NM_001130103.1. [Q5TAT6-1 ]
NP_542988.3. NM_080798.3. [Q5TAT6-10 ]
NP_542990.3. NM_080800.3. [Q5TAT6-8 ]
NP_542991.3. NM_080801.3. [Q5TAT6-2 ]
NP_542992.3. NM_080802.3. [Q5TAT6-4 ]
NP_542995.3. NM_080805.3. [Q5TAT6-11 ]
UniGenei Hs.695934.

3D structure databases

ProteinModelPortali Q5TAT6.
ModBasei Search...
MobiDBi Search...

PTM databases

PhosphoSitei Q5TAT6.

Polymorphism databases

DMDMi 74745860.

Proteomic databases

PaxDbi Q5TAT6.
PRIDEi Q5TAT6.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

Ensembli ENST00000354547 ; ENSP00000346553 ; ENSG00000197467 . [Q5TAT6-2 ]
ENST00000357811 ; ENSP00000350463 ; ENSG00000197467 . [Q5TAT6-3 ]
ENST00000398978 ; ENSP00000381949 ; ENSG00000197467 . [Q5TAT6-1 ]
ENST00000517713 ; ENSP00000430061 ; ENSG00000197467 . [Q5TAT6-4 ]
ENST00000520133 ; ENSP00000430173 ; ENSG00000197467 . [Q5TAT6-11 ]
ENST00000520267 ; ENSP00000428057 ; ENSG00000197467 . [Q5TAT6-10 ]
ENST00000522165 ; ENSP00000428342 ; ENSG00000197467 . [Q5TAT6-8 ]
GeneIDi 1305.
KEGGi hsa:1305.
UCSCi uc001jqk.2. human. [Q5TAT6-2 ]
uc001jql.3. human. [Q5TAT6-1 ]
uc010qjf.2. human. [Q5TAT6-10 ]
uc021prz.1. human. [Q5TAT6-4 ]
uc021psc.1. human. [Q5TAT6-8 ]

Organism-specific databases

CTDi 1305.
GeneCardsi GC10P071561.
H-InvDB HIX0025928.
HGNCi HGNC:2190. COL13A1.
HPAi HPA050392.
MIMi 120350. gene.
neXtProti NX_Q5TAT6.
PharmGKBi PA26706.
GenAtlasi Search...

Phylogenomic databases

eggNOGi NOG254293.
GeneTreei ENSGT00760000118927.
HOGENOMi HOG000085653.
HOVERGENi HBG004933.
InParanoidi Q5TAT6.
KOi K16617.
PhylomeDBi Q5TAT6.
TreeFami TF338175.

Enzyme and pathway databases

Reactomei REACT_121139. Collagen biosynthesis and modifying enzymes.
REACT_13552. Integrin cell surface interactions.
REACT_150401. Collagen degradation.

Miscellaneous databases

GeneWikii Collagen,_type_XIII,_alpha_1.
GenomeRNAii 1305.
NextBioi 5305.
PROi Q5TAT6.
SOURCEi Search...

Gene expression databases

Bgeei Q5TAT6.
ExpressionAtlasi Q5TAT6. baseline and differential.
Genevestigatori Q5TAT6.

Family and domain databases

InterProi IPR008160. Collagen.
[Graphical view ]
Pfami PF01391. Collagen. 10 hits.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "A short sequence in the N-terminal region is required for the trimerization of type XIII collagen and is conserved in other collagenous transmembrane proteins."
    Snellman A., Tu H., Vaisanen T., Kvist A.-P., Huhtala P., Pihlajaniemi T.
    EMBO J. 19:5051-5059(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1), SUBUNIT, SUBCELLULAR LOCATION.
  2. "The DNA sequence and comparative analysis of human chromosome 10."
    Deloukas P., Earthrowl M.E., Grafham D.V., Rubenfield M., French L., Steward C.A., Sims S.K., Jones M.C., Searle S., Scott C., Howe K., Hunt S.E., Andrews T.D., Gilbert J.G.R., Swarbreck D., Ashurst J.L., Taylor A., Battles J.
    , Bird C.P., Ainscough R., Almeida J.P., Ashwell R.I.S., Ambrose K.D., Babbage A.K., Bagguley C.L., Bailey J., Banerjee R., Bates K., Beasley H., Bray-Allen S., Brown A.J., Brown J.Y., Burford D.C., Burrill W., Burton J., Cahill P., Camire D., Carter N.P., Chapman J.C., Clark S.Y., Clarke G., Clee C.M., Clegg S., Corby N., Coulson A., Dhami P., Dutta I., Dunn M., Faulkner L., Frankish A., Frankland J.A., Garner P., Garnett J., Gribble S., Griffiths C., Grocock R., Gustafson E., Hammond S., Harley J.L., Hart E., Heath P.D., Ho T.P., Hopkins B., Horne J., Howden P.J., Huckle E., Hynds C., Johnson C., Johnson D., Kana A., Kay M., Kimberley A.M., Kershaw J.K., Kokkinaki M., Laird G.K., Lawlor S., Lee H.M., Leongamornlert D.A., Laird G., Lloyd C., Lloyd D.M., Loveland J., Lovell J., McLaren S., McLay K.E., McMurray A., Mashreghi-Mohammadi M., Matthews L., Milne S., Nickerson T., Nguyen M., Overton-Larty E., Palmer S.A., Pearce A.V., Peck A.I., Pelan S., Phillimore B., Porter K., Rice C.M., Rogosin A., Ross M.T., Sarafidou T., Sehra H.K., Shownkeen R., Skuce C.D., Smith M., Standring L., Sycamore N., Tester J., Thorpe A., Torcasso W., Tracey A., Tromans A., Tsolas J., Wall M., Walsh J., Wang H., Weinstock K., West A.P., Willey D.L., Whitehead S.L., Wilming L., Wray P.W., Young L., Chen Y., Lovering R.C., Moschonas N.K., Siebert R., Fechtel K., Bentley D., Durbin R.M., Hubbard T., Doucette-Stamm L., Beck S., Smith D.R., Rogers J.
    Nature 429:375-381(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  3. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
    The MGC Project Team
    Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 10).
    Tissue: Testis.
  4. "The alpha 1 chain of type XIII collagen consists of three collagenous and four noncollagenous domains, and its primary transcript undergoes complex alternative splicing."
    Pihlajaniemi T., Tamminen M.
    J. Biol. Chem. 265:16922-16928(1990) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 44-717 (ISOFORM 4), NUCLEOTIDE SEQUENCE [MRNA] OF 84-717 (ISOFORMS 8 AND 9).
    Tissue: Endothelial cellImported.
  5. "Partial characterization of a low molecular weight human collagen that undergoes alternative splicing."
    Pihlajaniemi T., Myllyla R., Seyer J., Kurkinen M., Prockop D.J.
    Proc. Natl. Acad. Sci. U.S.A. 84:940-944(1987) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 457-717 (ISOFORM 5), NUCLEOTIDE SEQUENCE [MRNA] OF 573-717 (ISOFORMS 3/4/7/8).
    Tissue: FibrosarcomaImported.
  6. "Gene structure for the alpha 1 chain of a human short-chain collagen (type XIII) with alternatively spliced transcripts and translation termination codon at the 5' end of the last exon."
    Tikka L., Pihlajaniemi T., Henttu P., Prockop D.J., Tryggvason K.
    Proc. Natl. Acad. Sci. U.S.A. 85:7491-7495(1988) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 551-717 (ISOFORMS 6 AND 7), NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 551-717 (ISOFORMS 1/2), NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 566-771 (ISOFORMS 3/4/8).
  7. "Characterization of the spectrum of alternative splicing of alpha 1 (XIII) collagen transcripts in HT-1080 cells and calvarial tissue resulted in identification of two previously unidentified alternatively spliced sequences, one previously unidentified exon, and nine new mRNA variants."
    Juvonen M., Pihlajaniemi T.
    J. Biol. Chem. 267:24693-24699(1992) [PubMed] [Europe PMC] [Abstract]
    Cited for: ALTERNATIVE SPLICING.
  8. "Patterns of expression of the six alternatively spliced exons affecting the structures of the COL1 and NC2 domains of the alpha 1(XIII) collagen chain in human tissues and cell lines."
    Juvonen M., Sandberg M., Pihlajaniemi T.
    J. Biol. Chem. 267:24700-24707(1992) [PubMed] [Europe PMC] [Abstract]
    Cited for: ALTERNATIVE SPLICING.
  9. "Location and alternative splicing of type XIII collagen RNA in the early human placenta."
    Juvonen M., Pihlajaniemi T., Autio-Harmainen H.
    Lab. Invest. 69:541-551(1993) [PubMed] [Europe PMC] [Abstract]
    Cited for: ALTERNATIVE SPLICING, TISSUE SPECIFICITY.
  10. "Type XIII collagen is widely expressed in the adult and developing human eye and accentuated in the ciliary muscle, the optic nerve and the neural retina."
    Sandberg-Lall M., Hagg P.O., Wahlstrom I., Pihlajaniemi T.
    Exp. Eye Res. 70:401-410(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, TISSUE SPECIFICITY.
  11. "The type XIII collagen ectodomain is a 150-nm rod and capable of binding to fibronectin, nidogen-2, perlecan, and heparin."
    Tu H., Sasaki T., Snellman A., Gohring W., Pirila P., Timpl R., Pihlajaniemi T.
    J. Biol. Chem. 277:23092-23099(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, INTERACTION WITH FN1; HSPG2 AND NID2, HEPARIN-BINDING.

Entry informationi

Entry nameiCODA1_HUMAN
AccessioniPrimary (citable) accession number: Q5TAT6
Secondary accession number(s): A6NFR5
, B9EGD2, E7EWL8, Q13992, Q13993, Q13994, Q13995, Q13996, Q5TAT4, Q5TAT5, Q7KZ33, Q7KZ49, Q99228, Q9NQ52
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 17, 2007
Last sequence update: December 21, 2004
Last modified: October 29, 2014
This is version 93 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Human chromosome 10
    Human chromosome 10: entries, gene names and cross-references to MIM
  2. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  3. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  4. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot

External Data

Dasty 3