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Protein

Semaphorin-6C

Gene

SEMA6C

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: -Experimental evidence at transcript leveli

Functioni

Shows growth cone collapsing activity on dorsal root ganglion (DRG) neurons in vitro. May be a stop signal for the DRG neurons in their target areas, and possibly also for other neurons. May also be involved in the maintenance and remodeling of neuronal connections.1 Publication

GO - Biological processi

Keywordsi

Molecular functionDevelopmental protein
Biological processDifferentiation, Neurogenesis

Names & Taxonomyi

Protein namesi
Recommended name:
Semaphorin-6C
Alternative name(s):
Semaphorin-Y
Short name:
Sema Y
Gene namesi
Name:SEMA6C
Synonyms:KIAA1869, SEMAY
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 1

Organism-specific databases

EuPathDBiHostDB:ENSG00000143434.15
HGNCiHGNC:10740 SEMA6C
MIMi609294 gene
neXtProtiNX_Q9H3T2

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Topological domaini25 – 604ExtracellularSequence analysisAdd BLAST580
Transmembranei605 – 625HelicalSequence analysisAdd BLAST21
Topological domaini626 – 930CytoplasmicSequence analysisAdd BLAST305

Keywords - Cellular componenti

Cell membrane, Membrane

Pathology & Biotechi

Organism-specific databases

DisGeNETi10500
OpenTargetsiENSG00000143434
PharmGKBiPA35662

Polymorphism and mutation databases

BioMutaiSEMA6C
DMDMi313104318

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Signal peptidei1 – 24Sequence analysisAdd BLAST24
ChainiPRO_000003234425 – 930Semaphorin-6CAdd BLAST906

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Glycosylationi70N-linked (GlcNAc...) asparagineSequence analysis1
Disulfide bondi111 ↔ 121PROSITE-ProRule annotation
Disulfide bondi139 ↔ 148PROSITE-ProRule annotation
Disulfide bondi262 ↔ 373PROSITE-ProRule annotation
Glycosylationi286N-linked (GlcNAc...) asparagineSequence analysis1
Disulfide bondi287 ↔ 332PROSITE-ProRule annotation
Glycosylationi437N-linked (GlcNAc...) asparagineSequence analysis1
Disulfide bondi479 ↔ 510PROSITE-ProRule annotation
Disulfide bondi519 ↔ 537PROSITE-ProRule annotation
Disulfide bondi525 ↔ 570PROSITE-ProRule annotation
Disulfide bondi529 ↔ 545PROSITE-ProRule annotation

Keywords - PTMi

Disulfide bond, Glycoprotein

Proteomic databases

PaxDbiQ9H3T2
PeptideAtlasiQ9H3T2
PRIDEiQ9H3T2
ProteomicsDBi80751
80752 [Q9H3T2-2]
80753 [Q9H3T2-3]
TopDownProteomicsiQ9H3T2-2 [Q9H3T2-2]

PTM databases

iPTMnetiQ9H3T2
PhosphoSitePlusiQ9H3T2

Expressioni

Tissue specificityi

In adult tissues, expressed only in skeletal muscle.1 Publication

Gene expression databases

BgeeiENSG00000143434
CleanExiHS_SEMA6C
ExpressionAtlasiQ9H3T2 baseline and differential
GenevisibleiQ9H3T2 HS

Organism-specific databases

HPAiHPA076150
HPA077625

Interactioni

Protein-protein interaction databases

BioGridi115762, 1 interactor
STRINGi9606.ENSP00000357909

Structurei

3D structure databases

ProteinModelPortaliQ9H3T2
SMRiQ9H3T2
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini30 – 516SemaPROSITE-ProRule annotationAdd BLAST487

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi662 – 667Poly-Pro6
Compositional biasi752 – 755Poly-Pro4

Sequence similaritiesi

Belongs to the semaphorin family.Curated

Keywords - Domaini

Signal, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiKOG3611 Eukaryota
ENOG410XQZC LUCA
GeneTreeiENSGT00760000119134
HOVERGENiHBG072910
InParanoidiQ9H3T2
KOiK06842
OMAiLVSCACR
OrthoDBiEOG091G014B
PhylomeDBiQ9H3T2
TreeFamiTF316102

Family and domain databases

Gene3Di2.130.10.10, 1 hit
InterProiView protein in InterPro
IPR001627 Semap_dom
IPR036352 Semap_dom_sf
IPR027231 Semaphorin
IPR015514 Semaphorin_6C
IPR015943 WD40/YVTN_repeat-like_dom_sf
PANTHERiPTHR11036 PTHR11036, 1 hit
PTHR11036:SF11 PTHR11036:SF11, 1 hit
PfamiView protein in Pfam
PF01403 Sema, 1 hit
SMARTiView protein in SMART
SM00630 Sema, 1 hit
SUPFAMiSSF101912 SSF101912, 1 hit
PROSITEiView protein in PROSITE
PS51004 SEMA, 1 hit

Sequences (3)i

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

This entry describes 3 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q9H3T2-1) [UniParc]FASTAAdd to basket
Also known as: Short 1

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
MPRAPHFMPL LLLLLLLSLP HTQAAFPQDP LPLLISDLQG TSPLSWFRGL
60 70 80 90 100
EDDAVAAELG LDFQRFLTLN RTLLVAARDH VFSFDLQAEE EGEGLVPNKY
110 120 130 140 150
LTWRSQDVEN CAVRGKLTDE CYNYIRVLVP WDSQTLLACG TNSFSPVCRS
160 170 180 190 200
YGITSLQQEG EELSGQARCP FDATQSNVAI FAEGSLYSAT AADFQASDAV
210 220 230 240 250
VYRSLGPQPP LRSAKYDSKW LREPHFVQAL EHGDHVYFFF REVSVEDARL
260 270 280 290 300
GRVQFSRVAR VCKRDMGGSP RALDRHWTSF LKLRLNCSVP GDSTFYFDVL
310 320 330 340 350
QALTGPVNLH GRSALFGVFT TQTNSIPGSA VCAFYLDEIE RGFEGKFKEQ
360 370 380 390 400
RSLDGAWTPV SEDRVPSPRP GSCAGVGGAA LFSSSRDLPD DVLTFIKAHP
410 420 430 440 450
LLDPAVPPVT HQPLLTLTSR ALLTQVAVDG MAGPHSNITV MFLGSNDGTV
460 470 480 490 500
LKVLTPGGRS GGPEPILLEE IDAYSPARCS GKRTAQTARR IIGLELDTEG
510 520 530 540 550
HRLFVAFSGC IVYLPLSRCA RHGACQRSCL ASQDPYCGWH SSRGCVDIRG
560 570 580 590 600
SGGTDVDQAG NQESMEHGDC QDGATGSQSG PGDSAYGVRR DLPPASASRS
610 620 630 640 650
VPIPLLLASV AAAFALGASV SGLLVSCACR RAHRRRGKDI ETPGLPRPLS
660 670 680 690 700
LRSLARLHGG GPEPPPPSKD GDAVQTPQLY TTFLPPPEGV PPPELACLPT
710 720 730 740 750
PESTPELPVK HLRAAGDPWE WNQNRNNAKE GPGRSRGGHA AGGPAPRVLV
760 770 780 790 800
RPPPPGCPGQ AVEVTTLEEL LRYLHGPQPP RKGAEPPAPL TSRALPPEPA
810 820 830 840 850
PALLGGPSPR PHECASPLRL DVPPEGRCAS APARPALSAP APRLGVGGGR
860 870 880 890 900
RLPFSGHRAP PALLTRVPSG GPSRYSGGPG KHLLYLGRPE GYRGRALKRV
910 920 930
DVEKPQLSLK PPLVGPSSRQ AVPNGGRFNF
Length:930
Mass (Da):99,686
Last modified:November 30, 2010 - v4
Checksum:i05C2D84413208640
GO
Isoform 2 (identifier: Q9H3T2-2) [UniParc]FASTAAdd to basket
Also known as: Short 2

The sequence of this isoform differs from the canonical sequence as follows:
     184-223: Missing.
     586-586: Y → YVLPGPGPSPGTPSPPSDAHPRPQSSTLGVHTR

Show »
Length:922
Mass (Da):98,468
Checksum:i8C201728A8F12530
GO
Isoform 3 (identifier: Q9H3T2-3) [UniParc]FASTAAdd to basket
Also known as: Long

The sequence of this isoform differs from the canonical sequence as follows:
     586-586: Y → YVLPGPGPSPGTPSPPSDAHPRPQSSTLGVHTR

Show »
Length:962
Mass (Da):102,853
Checksum:i2A6B60559BB873E4
GO

Sequence cautioni

The sequence BAB47498 differs from that shown. Reason: Erroneous initiation. Translation N-terminally shortened.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti125I → V in AAL72099 (PubMed:12110693).Curated1
Sequence conflicti252R → K in BAB20670 (Ref. 2) Curated1

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_028144455T → P2 PublicationsCorresponds to variant dbSNP:rs4971007Ensembl.1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_006046184 – 223Missing in isoform 2. 1 PublicationAdd BLAST40
Alternative sequenceiVSP_006047586Y → YVLPGPGPSPGTPSPPSDAH PRPQSSTLGVHTR in isoform 2 and isoform 3. 1 Publication1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF339152 mRNA Translation: AAL72098.1
AF339153 mRNA Translation: AAL72099.1
AF339154 mRNA Translation: AAL72100.1
AB022434 mRNA Translation: BAB20670.1
AB058772 mRNA Translation: BAB47498.1 Different initiation.
AL592424 Genomic DNA No translation available.
CH471121 Genomic DNA Translation: EAW53470.1
CH471121 Genomic DNA Translation: EAW53472.1
CCDSiCCDS53363.1 [Q9H3T2-2]
CCDS53364.1 [Q9H3T2-3]
CCDS984.1 [Q9H3T2-1]
RefSeqiNP_001171532.1, NM_001178061.1 [Q9H3T2-3]
NP_001171533.1, NM_001178062.1 [Q9H3T2-2]
NP_112175.2, NM_030913.4 [Q9H3T2-1]
XP_005244892.1, XM_005244835.3 [Q9H3T2-3]
XP_016855564.1, XM_017000075.1 [Q9H3T2-3]
XP_016855565.1, XM_017000076.1 [Q9H3T2-3]
XP_016855566.1, XM_017000077.1 [Q9H3T2-3]
XP_016855567.1, XM_017000078.1 [Q9H3T2-1]
XP_016855568.1, XM_017000079.1 [Q9H3T2-1]
XP_016855569.1, XM_017000080.1 [Q9H3T2-2]
XP_016855570.1, XM_017000081.1 [Q9H3T2-2]
UniGeneiHs.516316

Genome annotation databases

EnsembliENST00000341697; ENSP00000344148; ENSG00000143434 [Q9H3T2-1]
ENST00000368912; ENSP00000357908; ENSG00000143434 [Q9H3T2-2]
ENST00000368913; ENSP00000357909; ENSG00000143434 [Q9H3T2-3]
ENST00000368914; ENSP00000357910; ENSG00000143434 [Q9H3T2-1]
GeneIDi10500
KEGGihsa:10500
UCSCiuc001ewu.4 human [Q9H3T2-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Similar proteinsi

Entry informationi

Entry nameiSEM6C_HUMAN
AccessioniPrimary (citable) accession number: Q9H3T2
Secondary accession number(s): D3DV15
, Q5JR71, Q5JR72, Q5JR73, Q8WXT8, Q8WXT9, Q8WXU0, Q96JF8
Entry historyiIntegrated into UniProtKB/Swiss-Prot: April 27, 2001
Last sequence update: November 30, 2010
Last modified: June 20, 2018
This is version 148 of the entry and version 4 of the sequence. See 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 1
    Human chromosome 1: 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
  5. SIMILARITY comments
    Index of protein domains and families

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