Cntn1 (contactin 1) - Rat Genome Database

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Gene: Cntn1 (contactin 1) Ictidomys tridecemlineatus
Analyze
Symbol: Cntn1
Name: contactin 1
RGD ID: 12729690
Description: ENCODES a protein that exhibits carbohydrate binding (inferred); cell-cell adhesion mediator activity (inferred); INVOLVED IN cerebellum development (ortholog); gene expression (ortholog); neuron projection development (ortholog); PARTICIPATES IN Notch signaling pathway; ASSOCIATED WITH Ataxia (ortholog); Compton-North congenital myopathy (ortholog); genetic disease (ortholog); FOUND IN glutamatergic synapse (ortholog); postsynaptic membrane (ortholog); presynaptic membrane (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: contactin 1, transcript variant X1; contactin 1, transcript variant X2; contactin 1, transcript variant X3; contactin-1
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: SpeTri2.0 - Squirrel SpeTri2.0 Assembly
Position:
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494573,184,782 - 73,458,579 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493660723,150 - 292,013 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366078,430 - 291,964 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
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

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


Genomics

Comparative Map Data
Cntn1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494573,184,782 - 73,458,579 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493660723,150 - 292,013 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366078,430 - 291,964 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CNTN1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381240,692,439 - 41,072,415 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1240,692,439 - 41,072,415 (+)EnsemblGRCh38hg38GRCh38
GRCh371241,086,241 - 41,466,217 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361239,372,625 - 39,750,361 (+)NCBINCBI36Build 36hg18NCBI36
Build 341239,372,624 - 39,750,361NCBI
Celera1239,889,695 - 40,267,406 (+)NCBICelera
Cytogenetic Map12q12NCBI
HuRef1238,112,937 - 38,492,512 (+)NCBIHuRef
CHM1_11241,051,536 - 41,431,091 (+)NCBICHM1_1
T2T-CHM13v2.01240,652,132 - 41,031,590 (+)NCBIT2T-CHM13v2.0
Cntn1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391591,949,034 - 92,239,834 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1591,949,046 - 92,239,848 (+)EnsemblGRCm39 Ensembl
GRCm381592,051,152 - 92,341,967 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1592,051,165 - 92,341,967 (+)EnsemblGRCm38mm10GRCm38
MGSCv371591,881,596 - 92,172,398 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361591,956,372 - 92,168,291 (+)NCBIMGSCv36mm8
Celera1594,177,246 - 94,486,845 (+)NCBICelera
Cytogenetic Map15E3NCBI
cM Map1546.39NCBI
Cntn1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr87125,142,638 - 125,440,397 (+)NCBIGRCr8
mRatBN7.27123,263,146 - 123,560,896 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7123,372,792 - 123,558,541 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx7125,146,295 - 125,332,781 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.07127,372,157 - 127,558,628 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.07127,293,669 - 127,480,412 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.07133,290,606 - 133,588,314 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7133,400,485 - 133,586,677 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.07132,976,416 - 133,272,747 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47130,658,836 - 130,845,071 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.17130,735,272 - 130,921,508 (+)NCBI
Celera7119,777,077 - 119,962,153 (+)NCBICelera
Cytogenetic Map7q35NCBI
Cntn1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955500245,896 - 540,600 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955500154,704 - 540,546 (+)NCBIChiLan1.0ChiLan1.0
CNTN1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21053,073,079 - 53,457,589 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11253,069,840 - 53,454,351 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01247,630,295 - 48,014,766 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11248,492,558 - 48,877,396 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1248,492,564 - 48,670,126 (-)Ensemblpanpan1.1panPan2
CNTN1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12712,655,021 - 13,005,536 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2712,657,287 - 12,920,315 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2733,445,834 - 33,709,949 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02712,856,273 - 13,206,411 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2712,856,279 - 13,206,379 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12712,671,345 - 12,901,312 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02712,704,418 - 13,054,458 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02733,541,381 - 33,890,677 (+)NCBIUU_Cfam_GSD_1.0
CNTN1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl572,168,511 - 72,495,633 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1572,168,496 - 72,495,454 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2575,140,748 - 75,389,289 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CNTN1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11136,950,020 - 37,332,058 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1137,167,079 - 37,333,314 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666037209,407,722 - 209,806,565 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cntn1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624917471,837 - 750,245 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624917292,404 - 752,017 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSSTOT00000015993   ⟹   ENSSTOP00000014312
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_00493660723,150 - 292,013 (-)Ensembl
RefSeq Acc Id: XM_021732215   ⟹   XP_021587890
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440494573,184,782 - 73,458,579 (-)NCBI
SpeTri2.0NW_00493660722,246 - 291,963 (-)NCBI
Sequence:
RefSeq Acc Id: XM_040280801   ⟹   XP_040136735
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440494573,184,782 - 73,458,579 (-)NCBI
RefSeq Acc Id: XM_040280803   ⟹   XP_040136737
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440494573,184,782 - 73,332,520 (-)NCBI
Protein Sequences
Protein RefSeqs XP_021587890 (Get FASTA)   NCBI Sequence Viewer  
  XP_040136735 (Get FASTA)   NCBI Sequence Viewer  
  XP_040136737 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSSTOP00000014312.3
GenBank Protein KAG3292154 (Get FASTA)   NCBI Sequence Viewer  
  KAG3292155 (Get FASTA)   NCBI Sequence Viewer  
  KAG3292156 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: XP_021587890   ⟸   XM_021732215
- UniProtKB: I3MQQ6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_040136735   ⟸   XM_040280801
- UniProtKB: I3MQQ6 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_040136737   ⟸   XM_040280803
- UniProtKB: I3MQQ6 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSSTOP00000014312   ⟸   ENSSTOT00000015993
Protein Domains
Ig-like


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000015991 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000015993.3 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.10 UniProtKB/TrEMBL
InterPro Contactin-1_2_Ig1 UniProtKB/TrEMBL
  Contactin-1_Ig3 UniProtKB/TrEMBL
  Contactin-1_Ig6 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
  Immunoglobulin UniProtKB/TrEMBL
NCBI Gene Cntn1 ENTREZGENE
PANTHER PROTEIN SIDEKICK UniProtKB/TrEMBL
  PTHR44170:SF10 UniProtKB/TrEMBL
Pfam I-set UniProtKB/TrEMBL
  Ig_3 UniProtKB/TrEMBL
  PF00047 UniProtKB/TrEMBL
PROSITE IG_LIKE UniProtKB/TrEMBL
SMART IGc2 UniProtKB/TrEMBL
  SM00409 UniProtKB/TrEMBL
Superfamily-SCOP SSF48726 UniProtKB/TrEMBL
UniProt I3MQQ6 ENTREZGENE, UniProtKB/TrEMBL