CNTN6 (contactin 6) - Rat Genome Database

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Gene: CNTN6 (contactin 6) Chlorocebus sabaeus
Analyze
Symbol: CNTN6
Name: contactin 6
RGD ID: 18685690
Description: ENCODES a protein that exhibits cell-cell adhesion mediator activity (inferred); INVOLVED IN positive regulation of Notch signaling pathway (ortholog); PARTICIPATES IN Notch signaling pathway; ASSOCIATED WITH adenoid cystic carcinoma (ortholog); autism spectrum disorder (ortholog); autistic disorder (ortholog); FOUND IN parallel fiber to Purkinje cell synapse (ortholog); presynapse (ortholog); presynaptic membrane (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: contactin-6
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: ChlSab1.1 - Green Monkey 1.1 Assembly
Position:
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12237,212,995 - 37,518,060 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2237,343,770 - 37,517,626 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666041129,207,778 - 129,514,375 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
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

Biological Process

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
CNTN6
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12237,212,995 - 37,518,060 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2237,343,770 - 37,517,626 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666041129,207,778 - 129,514,375 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
CNTN6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3831,093,024 - 1,404,217 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl31,092,658 - 1,404,217 (+)EnsemblGRCh38hg38GRCh38
GRCh3731,134,708 - 1,445,901 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 3631,109,629 - 1,420,278 (+)NCBINCBI36Build 36hg18NCBI36
Build 3431,109,628 - 1,420,278NCBI
Celera31,075,093 - 1,385,666 (+)NCBICelera
Cytogenetic Map3p26.3NCBI
HuRef31,074,692 - 1,385,318 (+)NCBIHuRef
CHM1_131,084,458 - 1,395,310 (+)NCBICHM1_1
T2T-CHM13v2.03870,677 - 1,398,549 (+)NCBIT2T-CHM13v2.0
Cntn6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm396104,469,566 - 104,840,367 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl6104,469,751 - 104,840,367 (+)EnsemblGRCm39 Ensembl
GRCm386104,492,662 - 104,863,406 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl6104,492,790 - 104,863,406 (+)EnsemblGRCm38mm10GRCm38
MGSCv376104,443,038 - 104,813,400 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv366104,458,817 - 104,829,179 (+)NCBIMGSCv36mm8
Celera6106,329,247 - 106,700,735 (+)NCBICelera
Cytogenetic Map6E1NCBI
cM Map648.93NCBI
Cntn6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr84138,911,090 - 139,307,339 (+)NCBIGRCr8
mRatBN7.24137,354,886 - 137,751,712 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4137,355,367 - 137,751,119 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx4142,789,737 - 143,187,422 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.04138,570,414 - 138,968,094 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.04137,194,242 - 137,592,982 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.04136,512,201 - 136,904,355 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4136,512,201 - 136,904,355 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04200,983,505 - 201,373,876 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44140,078,007 - 140,450,348 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.14140,322,847 - 140,695,189 (+)NCBI
Celera4126,104,412 - 126,491,956 (+)NCBICelera
Cytogenetic Map4q41NCBI
Cntn6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542111,797,071 - 12,111,490 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495542111,797,270 - 12,111,353 (-)NCBIChiLan1.0ChiLan1.0
LOC100990608
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v221,080,929 - 1,401,312 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan131,085,686 - 1,406,071 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v031,021,854 - 1,339,952 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.131,133,190 - 1,442,037 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl31,133,190 - 1,442,622 (+)Ensemblpanpan1.1panPan2
CNTN6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12015,903,412 - 16,175,131 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2015,903,591 - 16,175,319 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2015,863,581 - 16,135,157 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02015,927,123 - 16,198,432 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2015,927,170 - 16,197,778 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12015,625,321 - 15,896,382 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02015,960,722 - 16,232,142 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02015,958,282 - 16,228,793 (-)NCBIUU_Cfam_GSD_1.0
Cntn6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244049428,153,000 - 8,438,320 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365771,167,211 - 1,393,521 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365771,108,502 - 1,393,706 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CNTN6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1357,719,846 - 58,014,970 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11357,754,233 - 58,014,830 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21363,983,503 - 64,013,215 (+)NCBISscrofa10.2Sscrofa10.2susScr3
Cntn6
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462477311,059,333 - 11,417,733 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462477311,059,466 - 11,417,825 (+)NCBIHetGla_female_1.0HetGla 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

endocrine system hemolymphoid system nervous system
High
Medium 15 22
Low 5 11 38
Below cutoff 7 6

Sequence


Reference Sequences
RefSeq Acc Id: ENSCSAT00000009204   ⟹   ENSCSAP00000007333
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 Ensembl2237,343,770 - 37,517,626 (+)Ensembl
RefSeq Acc Id: XM_007985017   ⟹   XP_007983208
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.12237,212,995 - 37,518,060 (+)NCBI
Vero_WHO_p1.0NW_023666041129,207,778 - 129,514,375 (-)NCBI
Sequence:
RefSeq Acc Id: XM_007985018   ⟹   XP_007983209
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.12237,212,995 - 37,518,060 (+)NCBI
Vero_WHO_p1.0NW_023666041129,207,778 - 129,514,375 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_007983208 (Get FASTA)   NCBI Sequence Viewer  
  XP_007983209 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCSAP00000007333.1
Reference Protein Sequences
RefSeq Acc Id: XP_007983209   ⟸   XM_007985018
- UniProtKB: A0A0D9RFE4 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_007983208   ⟸   XM_007985017
- UniProtKB: A0A0D9RFE4 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCSAP00000007333   ⟸   ENSCSAT00000009204


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000011221 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000009204.1 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.10 UniProtKB/TrEMBL
InterPro FN3_dom UniProtKB/TrEMBL
  FN3_sf UniProtKB/TrEMBL
  Ig-like_dom UniProtKB/TrEMBL
  Ig-like_dom_sf UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/TrEMBL
  Ig_I-set UniProtKB/TrEMBL
  Ig_sub UniProtKB/TrEMBL
  Ig_sub2 UniProtKB/TrEMBL
NCBI Gene CNTN6 ENTREZGENE
PANTHER CONTACTIN 6 UniProtKB/TrEMBL
  PROTEIN SIDEKICK UniProtKB/TrEMBL
Pfam fn3 UniProtKB/TrEMBL
  I-set UniProtKB/TrEMBL
  Ig_3 UniProtKB/TrEMBL
PROSITE FN3 UniProtKB/TrEMBL
  IG_LIKE UniProtKB/TrEMBL
SMART FN3 UniProtKB/TrEMBL
  IGc2 UniProtKB/TrEMBL
  SM00409 UniProtKB/TrEMBL
Superfamily-SCOP SSF48726 UniProtKB/TrEMBL
  SSF49265 UniProtKB/TrEMBL
UniProt A0A0D9RFE4 ENTREZGENE, UniProtKB/TrEMBL