Sema4c (semaphorin 4C) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Behavioral & Substance Use Disorder Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Advanced Search (OLGA)
Gene: Sema4c (semaphorin 4C) Heterocephalus glaber
Analyze
Symbol: Sema4c
Name: semaphorin 4C
RGD ID: 18914538
Description: ENCODES a protein that exhibits chemorepellent activity (inferred); semaphorin receptor binding (inferred); INVOLVED IN cell migration in hindbrain (ortholog); cerebellum development (ortholog); neural tube closure (ortholog); ASSOCIATED WITH COVID-19 (ortholog); FOUND IN glutamatergic synapse (ortholog); postsynaptic density (ortholog); postsynaptic density membrane (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: semaphorin-4C
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: HetGla 1.0 - Naked Mole-Rat female 1.0 Assembly
Position:
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247492,737,251 - 2,745,979 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046247492,737,251 - 2,747,540 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
JBrowse:




Disease Annotations     Click to see Annotation Detail View
COVID-19  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
Sema4c
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247492,737,251 - 2,745,979 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046247492,737,251 - 2,747,540 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
SEMA4C
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38296,859,718 - 96,870,830 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl296,859,718 - 96,873,840 (-)Ensemblhg38GRCh38
GRCh37297,525,455 - 97,535,817 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36296,889,200 - 96,899,462 (-)NCBIBuild 36Build 36hg18NCBI36
Build 34296,947,352 - 96,957,582NCBI
Celera291,965,635 - 91,975,934 (-)NCBICelera
Cytogenetic Map2q11.2NCBI
HuRef291,485,571 - 91,495,645 (-)NCBIHuRef
CHM1_1297,530,409 - 97,540,671 (-)NCBICHM1_1
T2T-CHM13v2.0297,366,349 - 97,377,098 (-)NCBIT2T-CHM13v2.0
Sema4c
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39136,587,720 - 36,599,780 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl136,587,720 - 36,597,430 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm38136,548,639 - 36,560,699 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl136,548,639 - 36,558,349 (-)Ensemblmm10GRCm38
MGSCv37136,605,487 - 36,615,226 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36136,493,186 - 36,504,590 (-)NCBIMGSCv36mm8
Celera136,335,454 - 36,345,188 (-)NCBICelera
Cytogenetic Map1BNCBI
cM Map115.32NCBI
Sema4c
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8946,287,540 - 46,298,041 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl946,287,542 - 46,297,998 (-)EnsemblGRCr8
mRatBN7.2938,791,668 - 38,802,171 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl938,791,670 - 38,802,128 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx947,295,194 - 47,305,656 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0952,410,468 - 52,420,923 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0950,692,369 - 50,702,824 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0943,129,413 - 43,140,442 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl943,129,415 - 43,139,870 (-)Ensemblrn6Rnor6.0
Rnor_5.0942,783,319 - 42,793,776 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4935,492,647 - 35,503,102 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera936,558,044 - 36,568,492 (-)NCBICelera
Cytogenetic Map9q21NCBI
Sema4c
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554704,213,006 - 4,220,169 (-)Ensembl
ChiLan1.0NW_0049554704,213,006 - 4,220,167 (-)NCBIChiLan1.0ChiLan1.0
SEMA4C
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21231,437,516 - 31,448,909 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12A31,438,188 - 31,451,673 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02A102,443,333 - 102,455,176 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12A97,779,357 - 97,788,242 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2A97,780,242 - 97,787,341 (-)EnsemblpanPan2panpan1.1
SEMA4C
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11045,105,701 - 45,116,504 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1045,106,666 - 45,115,592 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha1045,032,228 - 45,043,112 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01045,981,562 - 45,992,443 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1045,982,132 - 45,992,433 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11045,693,071 - 45,703,955 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01045,979,501 - 45,990,386 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01046,162,896 - 46,173,783 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Sema4c
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440629283,541,170 - 83,551,897 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936744793,898 - 804,642 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_004936744794,127 - 804,618 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SEMA4C
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl356,750,760 - 56,760,828 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1356,750,745 - 56,760,835 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2359,247,355 - 59,256,799 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SEMA4C
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1141,189,547 - 1,199,906 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl141,189,495 - 1,199,446 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_023666041168,626,646 - 168,637,041 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Sema4c
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v14112,772,043 - 112,781,971 (-)NCBIRrattus_CSIRO_v1


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSHGLT00000019207   ⟹   ENSHGLP00000019018
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_0046247492,737,251 - 2,745,979 (-)Ensembl
RefSeq Acc Id: XM_004844388   ⟹   XP_004844445
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_0046247492,737,251 - 2,745,595 (-)NCBI
RefSeq Acc Id: XM_013072151   ⟹   XP_012927605
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_0046247492,737,251 - 2,746,325 (-)NCBI
RefSeq Acc Id: XM_013072152   ⟹   XP_012927606
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_0046247492,737,251 - 2,747,540 (-)NCBI
RefSeq Acc Id: XM_013072153   ⟹   XP_012927607
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_0046247492,737,251 - 2,745,594 (-)NCBI
Protein Sequences
Protein RefSeqs XP_004844445 (Get FASTA)   NCBI Sequence Viewer  
  XP_012927605 (Get FASTA)   NCBI Sequence Viewer  
  XP_012927606 (Get FASTA)   NCBI Sequence Viewer  
  XP_012927607 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSHGLP00000019018
RefSeq Acc Id: XP_012927606   ⟸   XM_013072152
- Peptide Label: isoform X2
- UniProtKB: A0AAX6QVE8 (UniProtKB/TrEMBL),   G5BMU6 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_012927605   ⟸   XM_013072151
- Peptide Label: isoform X2
- UniProtKB: A0AAX6QVE8 (UniProtKB/TrEMBL),   G5BMU6 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_004844445   ⟸   XM_004844388
- Peptide Label: isoform X1
- UniProtKB: A0AAX6P6C0 (UniProtKB/TrEMBL),   G5BMU6 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_012927607   ⟸   XM_013072153
- Peptide Label: isoform X3
- UniProtKB: A0AAX6QVH9 (UniProtKB/TrEMBL),   G5BMU6 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSHGLP00000019018   ⟸   ENSHGLT00000019207


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSHGLG00000013625 Ensembl, ENTREZGENE
Ensembl Transcript ENSHGLT00000019207 ENTREZGENE
Gene3D-CATH Immunoglobulins UniProtKB/TrEMBL
  ligand-binding face of the semaphorins, domain 2 UniProtKB/TrEMBL
  YVTN repeat-like/Quinoprotein amine dehydrogenase UniProtKB/TrEMBL
InterPro Ig-like_dom UniProtKB/TrEMBL
  Ig-like_dom_sf UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/TrEMBL
  Ig_sub UniProtKB/TrEMBL
  Plexin_repeat UniProtKB/TrEMBL
  PSI UniProtKB/TrEMBL
  Semap_dom UniProtKB/TrEMBL
  Semap_dom_sf UniProtKB/TrEMBL
  Semaphorin UniProtKB/TrEMBL
  WD40/YVTN_repeat-like_dom_sf UniProtKB/TrEMBL
KEGG Report hgl:101713072 UniProtKB/TrEMBL
NCBI Gene Sema4c ENTREZGENE
PANTHER SEMAPHORIN UniProtKB/TrEMBL
  SEMAPHORIN-4C UniProtKB/TrEMBL
Pfam PSI 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 Immunoglobulin UniProtKB/TrEMBL
  Plexin repeat UniProtKB/TrEMBL
  Sema domain UniProtKB/TrEMBL
UniProt A0AAX6P6C0 ENTREZGENE, UniProtKB/TrEMBL
  A0AAX6QVE8 ENTREZGENE, UniProtKB/TrEMBL
  A0AAX6QVH9 ENTREZGENE, UniProtKB/TrEMBL
  G5BMU6 ENTREZGENE, UniProtKB/TrEMBL