Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
Protein

Semaphorin-3F

Gene

Sema3f

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at transcript leveli

Functioni

GO - Molecular functioni

  • chemorepellent activity Source: MGI

GO - Biological processi

  • axon extension involved in axon guidance Source: BHF-UCL
  • axon guidance Source: MGI
  • branchiomotor neuron axon guidance Source: ParkinsonsUK-UCL
  • facial nerve structural organization Source: ParkinsonsUK-UCL
  • negative chemotaxis Source: MGI
  • negative regulation of axon extension involved in axon guidance Source: MGI
  • nerve development Source: BHF-UCL
  • neural crest cell migration Source: MGI
  • neural crest cell migration involved in autonomic nervous system development Source: ParkinsonsUK-UCL
  • semaphorin-plexin signaling pathway involved in axon guidance Source: ParkinsonsUK-UCL
  • semaphorin-plexin signaling pathway involved in neuron projection guidance Source: BHF-UCL
  • sympathetic ganglion development Source: BHF-UCL
  • sympathetic neuron projection extension Source: BHF-UCL
  • sympathetic neuron projection guidance Source: BHF-UCL
  • trigeminal nerve structural organization Source: ParkinsonsUK-UCL
  • ventral trunk neural crest cell migration Source: ParkinsonsUK-UCL
Complete GO annotation...

Names & Taxonomyi

Protein namesi
Recommended name:
Semaphorin-3F
Alternative name(s):
Semaphorin IV
Short name:
Sema IV
Gene namesi
Name:Sema3f
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
ProteomesiUP000000589 Componenti: Chromosome 9

Organism-specific databases

MGIiMGI:1096347. Sema3f.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Secreted

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 1818Sequence AnalysisAdd
BLAST
Chaini19 – 785767Semaphorin-3FPRO_0000032321Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Glycosylationi53 – 531N-linked (GlcNAc...)Sequence Analysis
Disulfide bondi104 ↔ 115By similarity
Glycosylationi126 – 1261N-linked (GlcNAc...)Sequence Analysis
Disulfide bondi133 ↔ 142By similarity
Disulfide bondi300 ↔ 412By similarity
Disulfide bondi324 ↔ 372By similarity
Disulfide bondi548 ↔ 566By similarity
Disulfide bondi678 ↔ 746By similarity

Keywords - PTMi

Disulfide bond, Glycoprotein

Proteomic databases

PaxDbiO88632.
PRIDEiO88632.

PTM databases

PhosphoSiteiO88632.

Expressioni

Tissue specificityi

Expressed ubiquitously in adulthood. During embryogenesis, expressed in subregions of the central nervous system and various other tissues like skin, kidney, lung and intestine.

Gene expression databases

BgeeiO88632.
GenevisibleiO88632. MM.

Interactioni

Protein-protein interaction databases

STRINGi10090.ENSMUSP00000079400.

Structurei

3D structure databases

ProteinModelPortaliO88632.
SMRiO88632. Positions 30-697.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini31 – 545515SemaPROSITE-ProRule annotationAdd
BLAST
Domaini605 – 69591Ig-like C2-typeAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi715 – 7184Poly-Pro
Compositional biasi758 – 77922Arg/Lys-rich (basic)Add
BLAST

Sequence similaritiesi

Belongs to the semaphorin family.Curated
Contains 1 Sema domain.PROSITE-ProRule annotation

Keywords - Domaini

Immunoglobulin domain, Signal

Phylogenomic databases

eggNOGiNOG320723.
GeneTreeiENSGT00760000118854.
HOGENOMiHOG000039964.
HOVERGENiHBG055071.
InParanoidiO88632.
KOiK06840.
OMAiCAWDGQA.
OrthoDBiEOG7034G7.
TreeFamiTF352628.

Family and domain databases

Gene3Di2.130.10.10. 2 hits.
2.60.40.10. 1 hit.
InterProiIPR007110. Ig-like_dom.
IPR013783. Ig-like_fold.
IPR003598. Ig_sub2.
IPR016201. Plexin-like_fold.
IPR001627. Semap_dom.
IPR027231. Semaphorin.
IPR015943. WD40/YVTN_repeat-like_dom.
[Graphical view]
PANTHERiPTHR11036. PTHR11036. 1 hit.
PfamiPF01403. Sema. 1 hit.
[Graphical view]
SMARTiSM00408. IGc2. 1 hit.
SM00423. PSI. 1 hit.
SM00630. Sema. 1 hit.
[Graphical view]
SUPFAMiSSF101912. SSF101912. 2 hits.
SSF103575. SSF103575. 1 hit.
PROSITEiPS50835. IG_LIKE. 1 hit.
PS51004. SEMA. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

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

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform B (identifier: O88632-1) [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
MLVTAFILWA SLLTGAWPAT PIQDQLPATP RVRLSFKELK ATGTAHFFNF
60 70 80 90 100
LLNTTDYRIL LKDEDHDRMY VGSKDYVLSL DLHDINREPL IIHWAASPQR
110 120 130 140 150
IEECILSGKD GNGECGNFVR LIQPWNRTHL YVCGTGAYNP MCTYVNRGRR
160 170 180 190 200
AQALPWTQMQ VVRGRGSRAT DGADRPTPTA PRQDYIFYLE PEKLESGKGK
210 220 230 240 250
CPYDPKLDTA SALINEELYA GVYIDFMGTD AAIFRTLGKQ TAMRTDQYNS
260 270 280 290 300
RWLNDPSFIH AELIPDSAER NDDKLYFFFR ERSAEAPQNP AVYARIGRIC
310 320 330 340 350
LNDDGGHCCL VNKWSTFLKA RLVCSVPGED GIETHFDELQ DVFVQQTQDV
360 370 380 390 400
RNPVIYAVFT SSGSVFRGSA VCVYSMADIR MVFNGPFAHK EGPNYQWMPF
410 420 430 440 450
SGKMPYPRPG TCPGGTFTPS MKSTKDYPDE VINFMRTHPL MYQAVYPLQR
460 470 480 490 500
RPLVVRTGAP YRLTTVAVDQ VDAADGRYEV LFLGTDRGTV QKVIVLPKDD
510 520 530 540 550
QEVEELMLEE VEVFKEPAPV KTMTISSKRQ QLYVASAVGV THLSLHRCQA
560 570 580 590 600
YGAACADCCL ARDPYCAWDG QACSRYTASS KRRSRRQDVR HGNPIRQCRG
610 620 630 640 650
FNSNANKNAV ESVQYGVAGS AAFLECQPRS PQATVKWLFQ RDPSDRRREI
660 670 680 690 700
RAEDRFLRTE QGLLLRALQL GDRGLYSCTA TENNFKHIVT RVQLHVLGRD
710 720 730 740 750
AVHAALFPPL AVSVPPPPGT GPPTPPYQEL AQLLAQPEVG LIHQYCQGYW
760 770 780
RHVPPRPREA PGALRPPELQ DQKKPRNRRH HPPDT
Length:785
Mass (Da):88,549
Last modified:July 27, 2011 - v2
Checksum:i8F3F0935096C24A1
GO
Isoform A (identifier: O88632-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     153-183: Missing.

Show »
Length:754
Mass (Da):85,189
Checksum:i9A876D2AF2658EF3
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti350 – 3501V → I in AAC28108 (PubMed:9875739).Curated
Sequence conflicti350 – 3501V → I in AAC28109 (PubMed:9875739).Curated
Sequence conflicti350 – 3501V → I in AAH10976 (PubMed:15489334).Curated
Sequence conflicti756 – 7561R → S in AAC28108 (PubMed:9875739).Curated
Sequence conflicti756 – 7561R → S in AAC28109 (PubMed:9875739).Curated
Sequence conflicti756 – 7561R → S in AAH10976 (PubMed:15489334).Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei153 – 18331Missing in isoform A. 2 PublicationsVSP_006042Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF080090 mRNA. Translation: AAC28108.1.
AF080091 mRNA. Translation: AAC28109.1.
AC152718 Genomic DNA. No translation available.
AC162905 Genomic DNA. No translation available.
BC010976 mRNA. Translation: AAH10976.1.
CCDSiCCDS23505.1. [O88632-2]
RefSeqiNP_035479.2. NM_011349.3. [O88632-2]
XP_006511738.1. XM_006511675.2. [O88632-1]
XP_006511739.1. XM_006511676.2. [O88632-2]
UniGeneiMm.12903.

Genome annotation databases

EnsembliENSMUST00000080560; ENSMUSP00000079400; ENSMUSG00000034684. [O88632-2]
ENSMUST00000192727; ENSMUSP00000141865; ENSMUSG00000034684. [O88632-1]
GeneIDi20350.
KEGGimmu:20350.
UCSCiuc009rms.1. mouse. [O88632-1]
uc009rmt.1. mouse. [O88632-2]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF080090 mRNA. Translation: AAC28108.1.
AF080091 mRNA. Translation: AAC28109.1.
AC152718 Genomic DNA. No translation available.
AC162905 Genomic DNA. No translation available.
BC010976 mRNA. Translation: AAH10976.1.
CCDSiCCDS23505.1. [O88632-2]
RefSeqiNP_035479.2. NM_011349.3. [O88632-2]
XP_006511738.1. XM_006511675.2. [O88632-1]
XP_006511739.1. XM_006511676.2. [O88632-2]
UniGeneiMm.12903.

3D structure databases

ProteinModelPortaliO88632.
SMRiO88632. Positions 30-697.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi10090.ENSMUSP00000079400.

PTM databases

PhosphoSiteiO88632.

Proteomic databases

PaxDbiO88632.
PRIDEiO88632.

Protocols and materials databases

DNASUi20350.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000080560; ENSMUSP00000079400; ENSMUSG00000034684. [O88632-2]
ENSMUST00000192727; ENSMUSP00000141865; ENSMUSG00000034684. [O88632-1]
GeneIDi20350.
KEGGimmu:20350.
UCSCiuc009rms.1. mouse. [O88632-1]
uc009rmt.1. mouse. [O88632-2]

Organism-specific databases

CTDi6405.
MGIiMGI:1096347. Sema3f.

Phylogenomic databases

eggNOGiNOG320723.
GeneTreeiENSGT00760000118854.
HOGENOMiHOG000039964.
HOVERGENiHBG055071.
InParanoidiO88632.
KOiK06840.
OMAiCAWDGQA.
OrthoDBiEOG7034G7.
TreeFamiTF352628.

Miscellaneous databases

NextBioi298203.
PROiO88632.
SOURCEiSearch...

Gene expression databases

BgeeiO88632.
GenevisibleiO88632. MM.

Family and domain databases

Gene3Di2.130.10.10. 2 hits.
2.60.40.10. 1 hit.
InterProiIPR007110. Ig-like_dom.
IPR013783. Ig-like_fold.
IPR003598. Ig_sub2.
IPR016201. Plexin-like_fold.
IPR001627. Semap_dom.
IPR027231. Semaphorin.
IPR015943. WD40/YVTN_repeat-like_dom.
[Graphical view]
PANTHERiPTHR11036. PTHR11036. 1 hit.
PfamiPF01403. Sema. 1 hit.
[Graphical view]
SMARTiSM00408. IGc2. 1 hit.
SM00423. PSI. 1 hit.
SM00630. Sema. 1 hit.
[Graphical view]
SUPFAMiSSF101912. SSF101912. 2 hits.
SSF103575. SSF103575. 1 hit.
PROSITEiPS50835. IG_LIKE. 1 hit.
PS51004. SEMA. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Cloning and expression pattern of a murine semaphorin homologous to H-sema IV."
    Eckhardt F., Meyerhans A.
    NeuroReport 9:3975-3979(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORMS A AND B).
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: C57BL/6J.
  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 A).
    Strain: FVB/N.
    Tissue: Colon.

Entry informationi

Entry nameiSEM3F_MOUSE
AccessioniPrimary (citable) accession number: O88632
Secondary accession number(s): E9QNC5, O88633
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 30, 2000
Last sequence update: July 27, 2011
Last modified: June 24, 2015
This is version 132 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.