SEMA6B (semaphorin 6B) - Rat Genome Database

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Gene: SEMA6B (semaphorin 6B) Canis lupus familiaris
Analyze
Symbol: SEMA6B
Name: semaphorin 6B
RGD ID: 12354857
Description: ENCODES a protein that exhibits semaphorin receptor binding (inferred); INVOLVED IN axon guidance (inferred); cell differentiation (inferred); central nervous system development (inferred); ASSOCIATED WITH amenorrhea (ortholog); autistic disorder (ortholog); cerebellar hypoplasia (ortholog); FOUND IN membrane (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6B; semaphorin-6B
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12055,151,913 - 55,173,434 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2055,161,818 - 55,173,135 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2054,874,562 - 54,901,970 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02055,803,993 - 55,831,315 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2055,820,883 - 55,831,921 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12054,881,306 - 54,893,886 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02055,346,572 - 55,374,433 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02055,545,006 - 55,572,679 (+)NCBIUU_Cfam_GSD_1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
membrane  (IEA)

Molecular Function

References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
SEMA6B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12055,151,913 - 55,173,434 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2055,161,818 - 55,173,135 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2054,874,562 - 54,901,970 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02055,803,993 - 55,831,315 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2055,820,883 - 55,831,921 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12054,881,306 - 54,893,886 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02055,346,572 - 55,374,433 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02055,545,006 - 55,572,679 (+)NCBIUU_Cfam_GSD_1.0
SEMA6B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38194,542,593 - 4,559,684 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl194,542,588 - 4,581,776 (-)EnsemblGRCh38hg38GRCh38
GRCh37194,542,605 - 4,559,696 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36194,493,600 - 4,509,503 (-)NCBINCBI36Build 36hg18NCBI36
Build 34194,493,599 - 4,509,503NCBI
Celera194,481,386 - 4,497,296 (-)NCBICelera
Cytogenetic Map19p13.3NCBI
HuRef194,304,316 - 4,321,196 (-)NCBIHuRef
CHM1_1194,542,791 - 4,559,971 (-)NCBICHM1_1
T2T-CHM13v2.0194,526,261 - 4,543,368 (-)NCBIT2T-CHM13v2.0
Sema6b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391756,430,085 - 56,447,343 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1756,430,085 - 56,447,343 (-)EnsemblGRCm39 Ensembl
GRCm381756,123,085 - 56,140,343 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1756,123,085 - 56,140,343 (-)EnsemblGRCm38mm10GRCm38
MGSCv371756,262,508 - 56,279,766 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361755,716,378 - 55,726,158 (-)NCBIMGSCv36mm8
Celera1759,541,746 - 59,547,130 (-)NCBICelera
Cytogenetic Map17DNCBI
cM Map1729.17NCBI
Sema6b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr891,038,103 - 1,055,063 (-)NCBIGRCr8
mRatBN7.29950,939 - 967,905 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl9950,939 - 961,521 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx91,397,335 - 1,406,976 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.096,744,614 - 6,754,255 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.095,702,372 - 5,712,013 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0910,934,273 - 10,951,252 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl910,941,613 - 10,951,252 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.099,921,231 - 9,938,199 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera97,547,095 - 7,556,706 (+)NCBICelera
Cytogenetic Map9q11NCBI
Sema6b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554954,388,516 - 4,399,313 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554954,387,147 - 4,399,430 (+)NCBIChiLan1.0ChiLan1.0
SEMA6B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2208,937,116 - 8,975,577 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1198,166,915 - 8,205,350 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0193,562,673 - 3,600,981 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1194,510,286 - 4,528,178 (-)NCBIpanpan1.1PanPan1.1panPan2
Sema6b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118215,172,541 - 215,192,053 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365882,642,859 - 2,653,742 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365882,642,730 - 2,654,520 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SEMA6B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl274,258,439 - 74,296,385 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1274,262,303 - 74,296,386 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
SEMA6B
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.164,276,548 - 4,304,738 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660813,880,980 - 3,921,504 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Sema6b
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248285,182,812 - 5,192,486 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248285,170,745 - 5,193,568 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in SEMA6B
412 total Variants

Expression

RNA-SEQ Expression

adipose tissue
alimentary part of gastrointestinal system
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
reproductive system
respiratory system
6 5 5 23 22 16 6 6 6 6 33 22 12 14 10

Sequence


Ensembl Acc Id: ENSCAFT00000030197   ⟹   ENSCAFP00000028061
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl2055,162,054 - 55,172,465 (+)Ensembl
Ensembl Acc Id: ENSCAFT00000082845   ⟹   ENSCAFP00000059309
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl2055,161,818 - 55,172,465 (+)Ensembl
Ensembl Acc Id: ENSCAFT00000083875   ⟹   ENSCAFP00000053171
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl2055,161,818 - 55,173,135 (+)Ensembl
Ensembl Acc Id: ENSCAFT00000090911   ⟹   ENSCAFP00000050455
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl2055,161,818 - 55,172,465 (+)Ensembl
Ensembl Acc Id: ENSCAFT00845025849   ⟹   ENSCAFP00845020368
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl2055,820,883 - 55,831,921 (+)Ensembl
RefSeq Acc Id: XM_038429039   ⟹   XP_038284967
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.02055,819,332 - 55,831,315 (+)NCBI
RefSeq Acc Id: XM_038429040   ⟹   XP_038284968
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.02055,803,993 - 55,831,315 (+)NCBI
RefSeq Acc Id: XM_038455790   ⟹   XP_038311718
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
Dog10K_Boxer_Tasha2054,889,430 - 54,901,970 (+)NCBI
RefSeq Acc Id: XM_038455791   ⟹   XP_038311719
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
Dog10K_Boxer_Tasha2054,874,562 - 54,901,970 (+)NCBI
RefSeq Acc Id: XM_038504639   ⟹   XP_038360567
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.12054,881,306 - 54,893,886 (+)NCBI
RefSeq Acc Id: XM_038567719   ⟹   XP_038423647
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.02055,545,006 - 55,572,679 (+)NCBI
RefSeq Acc Id: XM_038631856   ⟹   XP_038487784
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.02055,346,572 - 55,374,433 (+)NCBI
Ensembl Acc Id: ENSCAFP00000053171   ⟸   ENSCAFT00000083875
Ensembl Acc Id: ENSCAFP00000028061   ⟸   ENSCAFT00000030197
Ensembl Acc Id: ENSCAFP00000059309   ⟸   ENSCAFT00000082845
Ensembl Acc Id: ENSCAFP00000050455   ⟸   ENSCAFT00000090911
RefSeq Acc Id: XP_038360567   ⟸   XM_038504639
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038487784   ⟸   XM_038631856
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038284968   ⟸   XM_038429040
- Peptide Label: isoform X1
- UniProtKB: A0A8I3NJN9 (UniProtKB/TrEMBL),   A0A8P0T378 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038284967   ⟸   XM_038429039
- Peptide Label: isoform X1
- UniProtKB: A0A8I3NJN9 (UniProtKB/TrEMBL),   A0A8P0T378 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038311719   ⟸   XM_038455791
- Peptide Label: isoform X1
- UniProtKB: A0A8C0L558 (UniProtKB/TrEMBL),   A0A8P0T5Q4 (UniProtKB/TrEMBL),   A0A8P0T378 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038311718   ⟸   XM_038455790
- Peptide Label: isoform X1
- UniProtKB: A0A8C0L558 (UniProtKB/TrEMBL),   A0A8P0T5Q4 (UniProtKB/TrEMBL),   A0A8P0T378 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038423647   ⟸   XM_038567719
- Peptide Label: isoform X1
- UniProtKB: A0A8C0QHZ2 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSCAFP00845020368   ⟸   ENSCAFT00845025849
Protein Domains
Sema


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000019014 Ensembl, UniProtKB/TrEMBL
  ENSCAFG00040005562 UniProtKB/TrEMBL
  ENSCAFG00845014446 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000083875.2 UniProtKB/TrEMBL
  ENSCAFT00000090911.2 UniProtKB/TrEMBL
  ENSCAFT00040010438.1 UniProtKB/TrEMBL
  ENSCAFT00845025849 ENTREZGENE
  ENSCAFT00845025849.1 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
  Semap_dom UniProtKB/TrEMBL
  Semap_dom_sf UniProtKB/TrEMBL
  Semaphorin UniProtKB/TrEMBL
  WD40/YVTN_repeat-like_dom_sf UniProtKB/TrEMBL
NCBI Gene SEMA6B ENTREZGENE
PANTHER PTHR11036 UniProtKB/TrEMBL
  SEMAPHORIN-6B UniProtKB/TrEMBL
Pfam PSI UniProtKB/TrEMBL
  Sema UniProtKB/TrEMBL
PROSITE SEMA UniProtKB/TrEMBL
SMART Sema UniProtKB/TrEMBL
Superfamily-SCOP Plexin repeat UniProtKB/TrEMBL
  SSF101912 UniProtKB/TrEMBL
UniProt A0A8C0L558 ENTREZGENE
  A0A8C0QHZ2 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3NJN9 ENTREZGENE, UniProtKB/TrEMBL
  A0A8P0T378 ENTREZGENE, UniProtKB/TrEMBL
  A0A8P0T5Q4 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:46002 ENTREZGENE