SEMA3A (semaphorin 3A) - Rat Genome Database

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Gene: SEMA3A (semaphorin 3A) Sus scrofa
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Symbol: SEMA3A
Name: semaphorin 3A
RGD ID: 14247572
Description: ENCODES a protein that exhibits semaphorin receptor binding (inferred); INVOLVED IN apoptotic process (ortholog); axon extension (ortholog); axon extension involved in axon guidance (ortholog); ASSOCIATED WITH amenorrhea (ortholog); Chemical and Drug Induced Liver Injury (ortholog); Delayed Puberty (ortholog); FOUND IN axon (ortholog); dendrite (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3A; semaphorin-3A
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl996,065,922 - 96,387,950 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1995,934,937 - 96,387,950 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
apoptotic process  (ISO)
axon extension  (ISO)
axon extension involved in axon guidance  (IEA,ISO)
axon guidance  (IBA,ISO)
axonal fasciculation  (IEA,ISO)
axonogenesis involved in innervation  (IEA)
basal dendrite arborization  (IEA)
branchiomotor neuron axon guidance  (IEA)
dendrite morphogenesis  (ISO)
dichotomous subdivision of terminal units involved in salivary gland branching  (IEA,ISO)
epithelial cell migration  (ISO)
facial nerve structural organization  (IEA)
facioacoustic ganglion development  (IEA)
gonadotrophin-releasing hormone neuronal migration to the hypothalamus  (IEA)
motor neuron axon guidance  (IBA)
negative chemotaxis  (IBA,ISO)
negative regulation of axon extension  (ISO)
negative regulation of axon extension involved in axon guidance  (IBA,ISO)
negative regulation of epithelial cell migration  (IEA,ISO)
negative regulation of neuron projection development  (IEA)
nerve development  (ISO)
nervous system development  (ISO)
neural crest cell migration  (IBA)
neural crest cell migration involved in autonomic nervous system development  (ISO)
neural crest cell migration involved in sympathetic nervous system development  (IEA)
neuron migration  (ISO)
olfactory bulb development  (IEA)
positive regulation of cell migration  (IBA)
positive regulation of male gonad development  (IEA)
positive regulation of neuron migration  (IBA)
regulation of axon extension involved in axon guidance  (IEA)
regulation of heart rate  (IEA,ISO)
semaphorin-plexin signaling pathway  (IBA,ISO)
semaphorin-plexin signaling pathway involved in axon guidance  (IEA)
semaphorin-plexin signaling pathway involved in neuron projection guidance  (ISO)
sympathetic ganglion development  (IEA)
sympathetic neuron projection extension  (IEA)
sympathetic neuron projection guidance  (IEA)
trigeminal ganglion development  (IEA)
trigeminal nerve structural organization  (IEA)
ventral trunk neural crest cell migration  (IEA)

Cellular Component

Molecular Function

References

Genomics

Comparative Map Data
SEMA3A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl996,065,922 - 96,387,950 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1995,934,937 - 96,387,950 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
SEMA3A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38783,955,777 - 84,492,725 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl783,955,777 - 84,492,724 (-)EnsemblGRCh38hg38GRCh38
GRCh37783,585,093 - 83,824,105 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36783,425,595 - 83,662,153 (-)NCBINCBI36hg18NCBI36
Build 34783,235,140 - 83,468,560NCBI
Celera778,289,042 - 78,525,324 (-)NCBI
Cytogenetic Map7q21.11NCBI
HuRef778,196,709 - 78,433,239 (-)NCBIHuRef
CHM1_1783,517,590 - 83,754,442 (-)NCBICHM1_1
T2T-CHM13v2.0785,206,156 - 85,444,786 (-)NCBI
CRA_TCAGchr7v2782,919,781 - 83,156,009 (-)NCBI
Sema3a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39513,174,789 - 13,653,453 (+)NCBIGRCm39mm39
GRCm39 Ensembl513,175,381 - 13,652,533 (+)Ensembl
GRCm38513,124,822 - 13,603,485 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl513,125,414 - 13,602,565 (+)EnsemblGRCm38mm10GRCm38
MGSCv37513,399,309 - 13,602,571 (+)NCBIGRCm37mm9NCBIm37
MGSCv36513,405,315 - 13,608,571 (+)NCBImm8
Celera1223,770,632 - 23,979,473 (+)NCBICelera
Cytogenetic Map5A1NCBI
Sema3a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2421,282,398 - 21,754,834 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl421,287,982 - 21,494,432 (-)Ensembl
Rnor_6.0418,170,375 - 18,545,190 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl418,178,656 - 18,396,035 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0418,133,300 - 18,444,520 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4417,575,112 - 17,790,100 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1417,575,111 - 17,790,100 (-)NCBI
Celera416,810,716 - 17,013,648 (-)NCBICelera
Cytogenetic Map4q12NCBI
Sema3a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554102,144,388 - 2,338,973 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554102,146,088 - 2,344,342 (+)NCBIChiLan1.0ChiLan1.0
SEMA3A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1789,590,353 - 89,827,253 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl789,590,359 - 90,004,122 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0775,929,699 - 76,484,246 (-)NCBIMhudiblu_PPA_v0panPan3
SEMA3A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11823,411,607 - 23,866,631 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1823,414,576 - 23,867,098 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1823,096,760 - 23,551,325 (-)NCBI
ROS_Cfam_1.01823,872,684 - 24,326,815 (-)NCBI
ROS_Cfam_1.0 Ensembl1823,872,709 - 24,071,806 (-)Ensembl
UMICH_Zoey_3.11823,522,022 - 23,975,809 (-)NCBI
UNSW_CanFamBas_1.01823,035,644 - 23,490,231 (-)NCBI
UU_Cfam_GSD_1.01823,702,159 - 24,157,050 (-)NCBI
SEMA3A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12164,723,860 - 64,942,705 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl2164,784,039 - 64,939,682 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604239,053,607 - 39,576,492 (-)NCBIVero_WHO_p1.0
Sema3a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473932,105,824 - 32,309,271 (-)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_00462473932,104,014 - 32,426,980 (-)NCBIHetGla_female_1.0hetGla2


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system hemolymphoid system musculoskeletal system nervous system reproductive system respiratory system
High
Medium 2 1 4
Low 7 2 2 5 2 19 3 1
Below cutoff 1 2

Sequence


Reference Sequences
RefSeq Acc Id: ENSSSCT00000016773   ⟹   ENSSSCP00000016325
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl996,181,770 - 96,387,950 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000031112   ⟹   ENSSSCP00000026074
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl996,065,922 - 96,385,165 (+)Ensembl
RefSeq Acc Id: XM_021063477   ⟹   XP_020919136
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1996,065,883 - 96,387,950 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021063478   ⟹   XP_020919137
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1995,934,937 - 96,387,950 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021063479   ⟹   XP_020919138
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1995,934,937 - 96,387,950 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021063480   ⟹   XP_020919139
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1996,132,484 - 96,387,950 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021063481   ⟹   XP_020919140
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1996,221,849 - 96,387,950 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021063482   ⟹   XP_020919141
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1996,065,881 - 96,379,122 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021063483   ⟹   XP_020919142
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1996,065,884 - 96,374,284 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: XP_020919138   ⟸   XM_021063479
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_020919137   ⟸   XM_021063478
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_020919141   ⟸   XM_021063482
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_020919136   ⟸   XM_021063477
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_020919142   ⟸   XM_021063483
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_020919139   ⟸   XM_021063480
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_020919140   ⟸   XM_021063481
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: ENSSSCP00000016325   ⟸   ENSSSCT00000016773
RefSeq Acc Id: ENSSSCP00000026074   ⟸   ENSSSCT00000031112
Protein Domains
Ig-like   Sema


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000015398 Ensembl, UniProtKB/TrEMBL
  ENSSSCG00005015615 UniProtKB/TrEMBL
  ENSSSCG00025056509 UniProtKB/TrEMBL
  ENSSSCG00035025876 UniProtKB/TrEMBL
  ENSSSCG00045021542 UniProtKB/TrEMBL
  ENSSSCG00055030817 UniProtKB/TrEMBL
  ENSSSCG00070002568 UniProtKB/TrEMBL
Ensembl Protein ENSSSCP00000016325.3 UniProtKB/TrEMBL
  ENSSSCP00000026074.2 UniProtKB/TrEMBL
  ENSSSCP00005014664.1 UniProtKB/TrEMBL
  ENSSSCP00005014707.1 UniProtKB/TrEMBL
  ENSSSCP00025033518.1 UniProtKB/TrEMBL
  ENSSSCP00025033652.1 UniProtKB/TrEMBL
  ENSSSCP00035013480.1 UniProtKB/TrEMBL
  ENSSSCP00035013483.1 UniProtKB/TrEMBL
  ENSSSCP00045025606.1 UniProtKB/TrEMBL
  ENSSSCP00055049374.1 UniProtKB/TrEMBL
  ENSSSCP00070003908.1 UniProtKB/TrEMBL
  ENSSSCP00070003922.1 UniProtKB/TrEMBL
  ENSSSCP00070003934.1 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000016773.4 UniProtKB/TrEMBL
  ENSSSCT00000031112.3 UniProtKB/TrEMBL
  ENSSSCT00005024366.1 UniProtKB/TrEMBL
  ENSSSCT00005024424.1 UniProtKB/TrEMBL
  ENSSSCT00025077334.1 UniProtKB/TrEMBL
  ENSSSCT00025077636.1 UniProtKB/TrEMBL
  ENSSSCT00035034105.1 UniProtKB/TrEMBL
  ENSSSCT00035034111.1 UniProtKB/TrEMBL
  ENSSSCT00045036814.1 UniProtKB/TrEMBL
  ENSSSCT00055061515.1 UniProtKB/TrEMBL
  ENSSSCT00070004787.1 UniProtKB/TrEMBL
  ENSSSCT00070004806.1 UniProtKB/TrEMBL
  ENSSSCT00070004822.1 UniProtKB/TrEMBL
Gene3D-CATH 2.130.10.10 UniProtKB/TrEMBL
  2.60.40.10 UniProtKB/TrEMBL
InterPro Ig-like_dom UniProtKB/TrEMBL
  Ig-like_dom_sf UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/TrEMBL
  Ig_sub UniProtKB/TrEMBL
  IL-1RAcP-like_ig UniProtKB/TrEMBL
  PSI UniProtKB/TrEMBL
  Sema3A_sema UniProtKB/TrEMBL
  Semap_dom UniProtKB/TrEMBL
  Semap_dom_sf UniProtKB/TrEMBL
  Semaphorin UniProtKB/TrEMBL
  WD40/YVTN_repeat-like_dom_sf UniProtKB/TrEMBL
NCBI Gene SEMA3A ENTREZGENE
PANTHER PTHR11036 UniProtKB/TrEMBL
Pfam Ig_6 UniProtKB/TrEMBL
  Sema UniProtKB/TrEMBL
PROSITE IG_LIKE UniProtKB/TrEMBL
  SEMA UniProtKB/TrEMBL
SMART PSI UniProtKB/TrEMBL
  Sema UniProtKB/TrEMBL
  SM00409 UniProtKB/TrEMBL
Superfamily-SCOP SSF101912 UniProtKB/TrEMBL
  SSF48726 UniProtKB/TrEMBL
UniProt A0A4X1SMV9_PIG UniProtKB/TrEMBL
  A0A4X1SN06_PIG UniProtKB/TrEMBL
  F1SBX3_PIG UniProtKB/TrEMBL
  I3LPP7_PIG UniProtKB/TrEMBL
VGNC ID VGNC:92693 ENTREZGENE