ENSMUSG00000028064


Mus musculus

Features
Gene ID: ENSMUSG00000028064
  
Biological name :Sema4a
  
Synonyms : Q62178 / Sema4a / Semaphorin-4A
  
Possible biological names infered from orthology : Q9H3S1
  
Species: Mus musculus
  
Chr. number: 3
Strand: -1
Band: F1
Gene start: 88435959
Gene end: 88461182
  
Corresponding Affymetrix probe sets: 10499378 (MoGene1.0st)   1438934_x_at (Mouse Genome 430 2.0 Array)   1448110_at (Mouse Genome 430 2.0 Array)   
  
Cross references: Ensembl peptide - ENSMUSP00000123061
Ensembl peptide - ENSMUSP00000139159
Ensembl peptide - ENSMUSP00000139126
Ensembl peptide - ENSMUSP00000138858
Ensembl peptide - ENSMUSP00000128887
Ensembl peptide - ENSMUSP00000128510
Ensembl peptide - ENSMUSP00000125909
Ensembl peptide - ENSMUSP00000029700
Ensembl peptide - ENSMUSP00000103155
Ensembl peptide - ENSMUSP00000114330
Ensembl peptide - ENSMUSP00000118706
Ensembl peptide - ENSMUSP00000119028
Ensembl peptide - ENSMUSP00000120084
NCBI entrez gene - 20351     See in Manteia.
MGI - MGI:107560
RefSeq - XM_006501187
RefSeq - XM_006501191
RefSeq - XM_006501190
RefSeq - XM_006501189
RefSeq - XM_006501188
RefSeq - NM_001163489
RefSeq - NM_001163490
RefSeq - NM_001163491
RefSeq - XM_011240051
RefSeq - NM_013658
RefSeq Peptide - NP_001156962
RefSeq Peptide - NP_001156961
RefSeq Peptide - NP_001156963
RefSeq Peptide - NP_038686
swissprot - Q62178
swissprot - V9GWW2
swissprot - V9GXF5
swissprot - V9GXH9
swissprot - D3Z336
swissprot - D3YUM4
swissprot - D3YVM6
swissprot - D3YWK5
swissprot - D3YWV5
swissprot - D3YZ30
Ensembl - ENSMUSG00000028064
  
See expression report in BioGPS
See gene description in Wikigenes
See co-cited genes in PubMed


Ortholog prediction (from Ensembl)
Ortholog nameID Species
 sema4aaENSDARG00000077103Danio rerio
 sema4abENSDARG00000062352Danio rerio
 Q9H3S1ENSG00000196189Homo sapiens


Paralog prediction (from Ensembl)
Paralog nameIDSimilarity(%)
O09126 / Sema4d / Semaphorin-4D / Q92854*ENSMUSG0000002145135
Q62179 / Sema4b / Semaphorin-4B ENSMUSG0000003053935
Q64151 / Sema4c / Semaphorin-4C / Q9C0C4*ENSMUSG0000002612133
Q9WUH7 / Sema4g / Semaphorin-4G / Q9NTN9*ENSMUSG0000002520730
Q9Z123 / Sema4f / Semaphorin-4F / O95754* / ssemaphorin 4F*ENSMUSG0000000062728
Q8BH34 / Sema3d / Semaphorin-3D / O95025*ENSMUSG0000004025428
O08665 / Sema3a / Semaphorin-3A / Q14563*ENSMUSG0000002888327
Sema3b / sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3B / Q13214* / semaphorin 3B*ENSMUSG0000005796927
Q62181 / Sema3c / Semaphorin-3C / Q99985*ENSMUSG0000002878026
O88632 / Sema3f / Semaphorin-3F / Q13275*ENSMUSG0000003468426
Q4LFA9 / Sema3g / Semaphorin-3G / Q9NS98*ENSMUSG0000002190426
P70275 / Sema3e / sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3E / O15041* / semaphorin 3E*ENSMUSG0000006353125


Protein motifs (from Interpro)
Interpro ID Name
 IPR001627  Sema domain
 IPR002165  Plexin repeat
 IPR015943  WD40/YVTN repeat-like-containing domain superfamily
 IPR016201  PSI domain
 IPR027231  Semaphorin
 IPR036352  Sema domain superfamily


Gene Ontology (GO)
TypeGO IDTermEv.Code
 biological_processGO:0001525 angiogenesis IEA
 biological_processGO:0002250 adaptive immune response IEA
 biological_processGO:0002292 T cell differentiation involved in immune response IMP
 biological_processGO:0002376 immune system process IEA
 biological_processGO:0007275 multicellular organism development IEA
 biological_processGO:0007399 nervous system development IEA
 biological_processGO:0007409 axonogenesis IMP
 biological_processGO:0008360 regulation of cell shape IDA
 biological_processGO:0010594 regulation of endothelial cell migration IMP
 biological_processGO:0016525 negative regulation of angiogenesis IMP
 biological_processGO:0030154 cell differentiation IEA
 biological_processGO:0045063 T-helper 1 cell differentiation IMP
 biological_processGO:0050919 negative chemotaxis IBA
 biological_processGO:0071526 semaphorin-plexin signaling pathway IMP
 cellular_componentGO:0005615 extracellular space IBA
 cellular_componentGO:0005634 nucleus ISO
 cellular_componentGO:0005829 cytosol ISO
 cellular_componentGO:0005886 plasma membrane IEA
 cellular_componentGO:0016020 membrane IBA
 cellular_componentGO:0016021 integral component of membrane IEA
 cellular_componentGO:0043231 intracellular membrane-bounded organelle ISO
 molecular_functionGO:0005515 protein binding IEA


Pathways (from Reactome)
Pathway description
Other semaphorin interactions


Phenotype (from MGI, Zfin or HPO)
IDPhenotypeDefinition Genetic BG
 MP:0001326 retinal degeneration "pathological change in the thin layer of neural tissue lining the back of the eyeball, which contains visual receptors and can result in the impairment or cessation of retinal neural function" [Stedman s Medical Dictionary:ISBN 0-683-40008-8, NMF:Stephanie Pretel, Neuroscience Mutagenesis Facility Curator]
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Allelic Composition: Chmtm1Jvdh/Y
Genetic Background: involves: 129P2/OlaHsd * C57BL/6

Allelic Composition: Sema4atm1Kik/Sema4atm1Kik
Genetic Background: Not Specified

Allelic Composition: Sema4atm3.1Akum/Sema4atm3.1Akum
Genetic Background: involves: C57BL/6J

 MP:0001327 reduced retinal photoreceptor cell number "fewer than the expected number of rods and/or cones" [cwg:Carroll-Ann W. Goldsmith , Mouse Genome Informatics curator]
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Allelic Composition: Chmtm1Jvdh/Y
Genetic Background: involves: 129P2/OlaHsd * C57BL/6

Allelic Composition: Sema4atm3.1Akum/Sema4atm3.1Akum
Genetic Background: involves: C57BL/6J

 MP:0002092 abnormal eye morphology "abnormal development of the eye tissues resulting in morphological abnormality or abnormal structure of the visual system" [csmith:Cynthia L. Smith , Mouse Genome Informatics Curator]
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Allelic Composition: Chmtm1Jvdh/Y
Genetic Background: involves: 129P2/OlaHsd * C57BL/6

 MP:0002455 abnormal dendritic cell antigen presentation "impairment of these specialized cells to process and present antigen to T lymphoytes" [Immunobiology , The Immune System in Health and Disease:ISBN 0-8153-1691-7]
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Allelic Composition: Map1btm1Noh/Map1btm1Noh,Map2tm1Noh/Map2tm1Noh
Genetic Background: involves: C57BL/6

 MP:0003009 abnormal cytokine secretion "impairment or increase of the cellular release of any of the non-antibody proteins made by inflammatory leukocytes and some non-leukocytic cells that affect the behavior of other cells " [Immunobiology , The Immune System in Health and Disease:ISBN 0-8153-1691-7, smb:Susan M. Bello , Mouse Genome Informatics Curator]
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Allelic Composition: Map1btm1Noh/Map1btm1Noh,Map2tm1Noh/Map2tm1Noh
Genetic Background: involves: C57BL/6

 MP:0003729 abnormal photoreceptor outer segments "malformation/anomalous structure of the photoreceptor layer which contains stacks of membranous discs that are rich in the visual pigment rhodopsin " [monikat:Monika Tomczuk, Mouse Genome Informatics Curator]
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Allelic Composition: Chmtm1Jvdh/Y
Genetic Background: involves: 129P2/OlaHsd * C57BL/6

Allelic Composition: Sema4atm3.1Akum/Sema4atm3.1Akum
Genetic Background: involves: C57BL/6J

 MP:0005172 lack of eye pigmentation "visual organs are devoid of coloring pigment in relation to control animals, usually resulting in a red or pink color" [cwg:Carroll-Ann W. Goldsmith , Mouse Genome Informatics curator, J:83500]
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Allelic Composition: Chmtm1Jvdh/Y
Genetic Background: involves: 129P2/OlaHsd * C57BL/6

 MP:0005201 abnormal retinal pigment epithelium morphology "anomaly in the epithelial layer of the retina composed of cells containing pigment granules " [MeSH:National Library of Medicine - Medical Subject Headings , 2003]
Show

Allelic Composition: Chmtm1Jvdh/Y
Genetic Background: involves: 129P2/OlaHsd * C57BL/6

Allelic Composition: Sema4atm3.1Akum/Sema4atm3.1Akum
Genetic Background: involves: C57BL/6J

 MP:0005253 abnormal eye physiology "anomalous function and/or activity of the ocular system or any of its parts" [MeSH:National Library of Medicine - Medical Subject Headings , 2003]
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Allelic Composition: Chmtm1Jvdh/Y
Genetic Background: involves: 129P2/OlaHsd * C57BL/6

 MP:0005463 abnormal CD4+ T cell physiology "anomalous response of the subset of T lymphocytes that carry the CD4 marker, recognize intravesicular peptides bound to MHC class-II molecules, and turn on antibody production" [cwg:Carroll-Ann W. Goldsmith , Mouse Genome Informatics curator]
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Allelic Composition: Map1btm1Noh/Map1btm1Noh,Map2tm1Noh/Map2tm1Noh
Genetic Background: involves: C57BL/6

 MP:0005551 abnormal eye electrophysiology "abnormal function of the eye as determined through electrophysiological recordings from single cells or summary recordings from multiple cells (e.g. electroretinogram)" [NMF:Stephanie Pretel, Neuroscience Mutagenesis Facility Curator]
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Allelic Composition: Chmtm1Jvdh/Y
Genetic Background: involves: 129P2/OlaHsd * C57BL/6

 MP:0005616 decreased susceptibility to type IV hypersensitivity reaction "less likelihood of or resistance to developing an antigen-elicited cellular immune reaction that results in tissue damage, but does not require Ab participation; the response is seen at the area of contact" [Pathology:ISBN 0-397-51047-0, cwg:Carroll-Ann W. Goldsmith , Mouse Genome Informatics curator]
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Allelic Composition: Map1btm1Noh/Map1btm1Noh,Map2tm1Noh/Map2tm1Noh
Genetic Background: involves: C57BL/6

 MP:0008088 abnormal T-helper 1 cell differentiation "atypical production of or inability to produce the subset of the type of T-helper cell whose cytokine production favors cellular immune responses and delayed type hypersensitivity" [CL:0000545, ISBN:0781735149, MGI:csmith "Cynthia L. Smith, Mouse Genome Informatics Curator"]
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Allelic Composition: Map1btm1Noh/Map1btm1Noh,Map2tm1Noh/Map2tm1Noh
Genetic Background: involves: C57BL/6

 MP:0008449 abnormal retinal cone cell outer segment morphology "any structural anomaly of the retinal cone cell region in which the visual pigment rhodopsin is in invaginations of the cell membrane" [MGI:csmith "Cynthia L. Smith, Mouse Genome Informatics Curator"]
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Allelic Composition: Chmtm1Jvdh/Y
Genetic Background: involves: 129P2/OlaHsd * C57BL/6

 MP:0008456 abnormal retinal rod cell outer segment morphology "any strucutral anomaly of the retinal rod cell region which contains stacks of membranous discs separate from the outer cell membrane that are rich in the visual pigment rhodopsin" [MGI:csmith "Cynthia L. Smith, Mouse Genome Informatics Curator"]
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Allelic Composition: Chmtm1Jvdh/Y
Genetic Background: involves: 129P2/OlaHsd * C57BL/6

 MP:0008511 thin retinal inner nuclear layer "reduced thickness of the retinal layer which contains the cell bodies of bipolar, horizontal, and amacrine cells" [MGI:monikat "Monika Tomczuk, Mouse Genome Informatics Curator"]
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Allelic Composition: Chmtm1Jvdh/Y
Genetic Background: involves: 129P2/OlaHsd * C57BL/6

 MP:0008513 thin retinal inner plexiform layer "reduced thickness of the retinal cell layer where bipolar and amacrine cell axons synapse with ganglion cell dendrites" [MGI:monikat "Monika Tomczuk, Mouse Genome Informatics Curator"]
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Allelic Composition: Chmtm1Jvdh/Y
Genetic Background: involves: 129P2/OlaHsd * C57BL/6

 MP:0008515 thin retinal outer nuclear layer "reduced thickness of the retinal layer that contains the nuclei and cell bodies of rods and cones" [MGI:monikat "Monika Tomczuk, Mouse Genome Informatics Curator"]
Show

Allelic Composition: Chmtm1Jvdh/Y
Genetic Background: involves: 129P2/OlaHsd * C57BL/6

 MP:0008585 absent photoreceptor outer segment "absence of the photoreceptor region that is rich in the visual pigment rhodopsin" [MGI:csmith "Cynthia L. Smith, Mouse Genome Informatics Curator"]
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Allelic Composition: Sema4atm1Kik/Sema4atm1Kik
Genetic Background: Not Specified

Allelic Composition: Sema4atm3.1Akum/Sema4atm3.1Akum
Genetic Background: involves: C57BL/6J

 MP:0030005 increased retinal apoptosis "increase in the number of cells in the retina undergoing programmed cell death" [MGI:anna]
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Allelic Composition: Sema4atm1Kik/Sema4atm1Kik
Genetic Background: Not Specified

Allelic Composition: Sema4atm3.1Akum/Sema4atm3.1Akum
Genetic Background: involves: C57BL/6J

  


Interacting proteins (from Reactome)
Interactor ID Name Interaction type
 ENSMUSG00000030123 Plxnd1 / Q3UH93 / plexin D1 / Q9Y4D7*  / reaction / complex






 

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