Sema4b (semaphorin 4B) - Rat Genome Database

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Gene: Sema4b (semaphorin 4B) Chinchilla lanigera
Analyze
Symbol: Sema4b
Name: semaphorin 4B
RGD ID: 8963439
Description: ASSOCIATED WITH Bloom syndrome (ortholog); colorectal cancer (ortholog); D-2-hydroxyglutaric aciduria 2 (ortholog); FOUND IN glutamatergic synapse (ortholog); membrane (ortholog); plasma membrane (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4B; semaphorin-4B
RGD Orthologs
Human
Mouse
Rat
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: ChiLan1.0 - Chinchilla ChiLan1.0 Assembly
NCBI Annotation Information: Annotation category: partial on reference assembly
Position:
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541615,108,175 - 15,130,746 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541615,107,258 - 15,143,338 (-)NCBIChiLan1.0ChiLan1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Transitive Annotation Pipeline Automated assignment of GO, PW and RDO ISO annotations across species
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
Sema4b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541615,108,175 - 15,130,746 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541615,107,258 - 15,143,338 (-)NCBIChiLan1.0ChiLan1.0
SEMA4B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381590,184,920 - 90,229,661 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1590,160,604 - 90,229,679 (+)EnsemblGRCh38hg38GRCh38
GRCh371590,728,152 - 90,772,893 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361588,529,156 - 88,573,896 (+)NCBINCBI36Build 36hg18NCBI36
Build 341588,545,565 - 88,573,894NCBI
Celera1567,132,562 - 67,177,271 (+)NCBICelera
Cytogenetic Map15q26.1NCBI
HuRef1566,840,233 - 66,884,886 (+)NCBIHuRef
CHM1_11590,570,020 - 90,614,740 (+)NCBICHM1_1
T2T-CHM13v2.01587,940,946 - 87,985,668 (+)NCBIT2T-CHM13v2.0
Sema4b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39779,836,618 - 79,876,394 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl779,836,589 - 79,876,275 (+)EnsemblGRCm39 Ensembl
GRCm38780,186,870 - 80,226,646 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl780,186,841 - 80,226,527 (+)EnsemblGRCm38mm10GRCm38
MGSCv37787,331,727 - 87,371,410 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36780,072,038 - 80,099,907 (+)NCBIMGSCv36mm8
Celera777,588,064 - 77,627,863 (+)NCBICelera
Cytogenetic Map7D2NCBI
cM Map745.51NCBI
Sema4b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81143,545,727 - 143,587,037 (+)NCBIGRCr8
mRatBN7.21134,136,646 - 134,177,777 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1134,149,536 - 134,177,775 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1142,058,363 - 142,086,508 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01149,227,763 - 149,255,908 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01142,145,557 - 142,173,801 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01141,986,145 - 142,014,400 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1141,986,145 - 142,014,398 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01142,941,088 - 142,968,795 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41136,001,219 - 136,031,302 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11136,079,624 - 136,109,702 (+)NCBI
Celera1126,209,674 - 126,237,909 (+)NCBICelera
Cytogenetic Map1q31NCBI
SEMA4B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21679,733,117 - 79,777,995 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11583,432,586 - 83,477,430 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01568,873,927 - 68,918,792 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11588,076,399 - 88,120,729 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1588,076,399 - 88,120,729 (+)Ensemblpanpan1.1panPan2
SEMA4B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1353,159,233 - 53,184,102 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl353,121,775 - 53,184,118 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha355,751,921 - 55,822,246 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0353,575,541 - 53,600,478 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl353,575,536 - 53,600,127 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1353,050,291 - 53,120,581 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0353,306,792 - 53,331,717 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0353,647,261 - 53,672,192 (+)NCBIUU_Cfam_GSD_1.0
Sema4b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640130,371,613 - 130,410,098 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493648315,937,398 - 15,961,911 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493648315,937,132 - 15,963,170 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SEMA4B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl755,753,097 - 55,793,980 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1755,752,854 - 55,793,982 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
SEMA4B
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1298,733,647 - 8,776,618 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl298,749,015 - 8,775,621 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605937,953,982 - 37,981,988 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Sema4b
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462476817,185,161 - 17,207,666 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462476817,170,732 - 17,208,601 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSCLAT00000013139   ⟹   ENSCLAP00000012989
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_00495541615,108,175 - 15,130,746 (-)Ensembl
RefSeq Acc Id: XM_013512481   ⟹   XP_013367935
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495541615,107,258 - 15,143,338 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013512482   ⟹   XP_013367936
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495541615,107,258 - 15,136,514 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_013367935 (Get FASTA)   NCBI Sequence Viewer  
  XP_013367936 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCLAP00000012989
  ENSCLAP00000012989.1
RefSeq Acc Id: XP_013367935   ⟸   XM_013512481
- UniProtKB: A0A8C2VCT1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013367936   ⟸   XM_013512482
- UniProtKB: A0A8C2VCT1 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSCLAP00000012989   ⟸   ENSCLAT00000013139
Protein Domains
Sema


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCLAG00000008964 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCLAT00000013139 ENTREZGENE
  ENSCLAT00000013139.1 UniProtKB/TrEMBL
Gene3D-CATH 2.130.10.10 UniProtKB/TrEMBL
  ligand-binding face of the semaphorins, domain 2 UniProtKB/TrEMBL
InterPro 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
NCBI Gene Sema4b ENTREZGENE
PANTHER PTHR11036 UniProtKB/TrEMBL
  SEMAPHORIN-4B UniProtKB/TrEMBL
Pfam PSI UniProtKB/TrEMBL
  Sema UniProtKB/TrEMBL
PROSITE SEMA UniProtKB/TrEMBL
SMART PSI UniProtKB/TrEMBL
  Sema UniProtKB/TrEMBL
Superfamily-SCOP Plexin repeat UniProtKB/TrEMBL
  SSF101912 UniProtKB/TrEMBL
UniProt A0A8C2VCT1 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-08-03 Sema4b  semaphorin 4B    sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4B  Symbol and/or name change 5135510 APPROVED