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O88632

- SEM3F_MOUSE

UniProt

O88632 - SEM3F_MOUSE

Protein

Semaphorin-3F

Gene

Sema3f

Organism
Mus musculus (Mouse)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at transcript leveli
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    • History
      Entry version 126 (01 Oct 2014)
      Sequence version 2 (27 Jul 2011)
      Previous versions | rss
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    Functioni

    GO - Molecular functioni

    1. chemorepellent activity Source: MGI
    2. receptor activity Source: InterPro

    GO - Biological processi

    1. axon extension involved in axon guidance Source: BHF-UCL
    2. axon guidance Source: MGI
    3. branchiomotor neuron axon guidance Source: ParkinsonsUK-UCL
    4. facial nerve structural organization Source: ParkinsonsUK-UCL
    5. negative chemotaxis Source: MGI
    6. negative regulation of axon extension involved in axon guidance Source: MGI
    7. nerve development Source: BHF-UCL
    8. neural crest cell migration Source: MGI
    9. neural crest cell migration involved in autonomic nervous system development Source: ParkinsonsUK-UCL
    10. semaphorin-plexin signaling pathway involved in axon guidance Source: ParkinsonsUK-UCL
    11. semaphorin-plexin signaling pathway involved in neuron projection guidance Source: BHF-UCL
    12. sympathetic ganglion development Source: BHF-UCL
    13. sympathetic neuron projection extension Source: BHF-UCL
    14. sympathetic neuron projection guidance Source: BHF-UCL
    15. trigeminal nerve structural organization Source: ParkinsonsUK-UCL

    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: Chromosome 9

    Organism-specific databases

    MGIiMGI:1096347. Sema3f.

    Subcellular locationi

    Secreted By similarity

    GO - Cellular componenti

    1. extracellular region Source: UniProtKB-SubCell
    2. membrane Source: InterPro

    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.
    GenevestigatoriO88632.

    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.
    GeneTreeiENSGT00690000102148.
    HOGENOMiHOG000039964.
    HOVERGENiHBG055071.
    InParanoidiO88632.
    KOiK06840.
    OMAiACSRYTA.
    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. Align

    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

    MLVTAFILWA SLLTGAWPAT PIQDQLPATP RVRLSFKELK ATGTAHFFNF    50
    LLNTTDYRIL LKDEDHDRMY VGSKDYVLSL DLHDINREPL IIHWAASPQR 100
    IEECILSGKD GNGECGNFVR LIQPWNRTHL YVCGTGAYNP MCTYVNRGRR 150
    AQALPWTQMQ VVRGRGSRAT DGADRPTPTA PRQDYIFYLE PEKLESGKGK 200
    CPYDPKLDTA SALINEELYA GVYIDFMGTD AAIFRTLGKQ TAMRTDQYNS 250
    RWLNDPSFIH AELIPDSAER NDDKLYFFFR ERSAEAPQNP AVYARIGRIC 300
    LNDDGGHCCL VNKWSTFLKA RLVCSVPGED GIETHFDELQ DVFVQQTQDV 350
    RNPVIYAVFT SSGSVFRGSA VCVYSMADIR MVFNGPFAHK EGPNYQWMPF 400
    SGKMPYPRPG TCPGGTFTPS MKSTKDYPDE VINFMRTHPL MYQAVYPLQR 450
    RPLVVRTGAP YRLTTVAVDQ VDAADGRYEV LFLGTDRGTV QKVIVLPKDD 500
    QEVEELMLEE VEVFKEPAPV KTMTISSKRQ QLYVASAVGV THLSLHRCQA 550
    YGAACADCCL ARDPYCAWDG QACSRYTASS KRRSRRQDVR HGNPIRQCRG 600
    FNSNANKNAV ESVQYGVAGS AAFLECQPRS PQATVKWLFQ RDPSDRRREI 650
    RAEDRFLRTE QGLLLRALQL GDRGLYSCTA TENNFKHIVT RVQLHVLGRD 700
    AVHAALFPPL AVSVPPPPGT GPPTPPYQEL AQLLAQPEVG LIHQYCQGYW 750
    RHVPPRPREA PGALRPPELQ DQKKPRNRRH HPPDT 785
    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:
    EMBL
    GenBank
    DDBJ
    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_006511675.1. [O88632-1]
    XP_006511739.1. XM_006511676.1. [O88632-2]
    UniGeneiMm.12903.

    Genome annotation databases

    EnsembliENSMUST00000080560; ENSMUSP00000079400; ENSMUSG00000034684. [O88632-2]
    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:
    EMBL
    GenBank
    DDBJ
    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 .
    CCDSi CCDS23505.1. [O88632-2 ]
    RefSeqi NP_035479.2. NM_011349.3. [O88632-2 ]
    XP_006511738.1. XM_006511675.1. [O88632-1 ]
    XP_006511739.1. XM_006511676.1. [O88632-2 ]
    UniGenei Mm.12903.

    3D structure databases

    ProteinModelPortali O88632.
    SMRi O88632. Positions 30-697.
    ModBasei Search...
    MobiDBi Search...

    PTM databases

    PhosphoSitei O88632.

    Proteomic databases

    PaxDbi O88632.
    PRIDEi O88632.

    Protocols and materials databases

    DNASUi 20350.
    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENSMUST00000080560 ; ENSMUSP00000079400 ; ENSMUSG00000034684 . [O88632-2 ]
    GeneIDi 20350.
    KEGGi mmu:20350.
    UCSCi uc009rms.1. mouse. [O88632-1 ]
    uc009rmt.1. mouse. [O88632-2 ]

    Organism-specific databases

    CTDi 6405.
    MGIi MGI:1096347. Sema3f.

    Phylogenomic databases

    eggNOGi NOG320723.
    GeneTreei ENSGT00690000102148.
    HOGENOMi HOG000039964.
    HOVERGENi HBG055071.
    InParanoidi O88632.
    KOi K06840.
    OMAi ACSRYTA.
    OrthoDBi EOG7034G7.
    TreeFami TF352628.

    Miscellaneous databases

    ChiTaRSi SEMA3F. mouse.
    NextBioi 298203.
    PROi O88632.
    SOURCEi Search...

    Gene expression databases

    Bgeei O88632.
    Genevestigatori O88632.

    Family and domain databases

    Gene3Di 2.130.10.10. 2 hits.
    2.60.40.10. 1 hit.
    InterProi IPR007110. 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 ]
    PANTHERi PTHR11036. PTHR11036. 1 hit.
    Pfami PF01403. Sema. 1 hit.
    [Graphical view ]
    SMARTi SM00408. IGc2. 1 hit.
    SM00423. PSI. 1 hit.
    SM00630. Sema. 1 hit.
    [Graphical view ]
    SUPFAMi SSF101912. SSF101912. 2 hits.
    SSF103575. SSF103575. 1 hit.
    PROSITEi PS50835. IG_LIKE. 1 hit.
    PS51004. SEMA. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    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: October 1, 2014
    This is version 126 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