Cntn4 (contactin 4) - Rat Genome Database

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Gene: Cntn4 (contactin 4) Chinchilla lanigera
Analyze
Symbol: Cntn4
Name: contactin 4
RGD ID: 8722938
Description: INVOLVED IN brain development (ortholog); negative regulation of neuron differentiation (ortholog); nervous system development (ortholog); ASSOCIATED WITH autism spectrum disorder (ortholog); autistic disorder (ortholog); Craniofacial Abnormalities (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: contactin-4
RGD Orthologs
Human
Mouse
Rat
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: ChiLan1.0 - Chinchilla ChiLan1.0 Assembly
Position:
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542110,266,640 - 10,723,228 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495542110,267,471 - 10,928,734 (-)NCBIChiLan1.0ChiLan1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

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
Cntn4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542110,266,640 - 10,723,228 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495542110,267,471 - 10,928,734 (-)NCBIChiLan1.0ChiLan1.0
CNTN4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3832,098,866 - 3,057,959 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl32,098,813 - 3,057,959 (+)EnsemblGRCh38hg38GRCh38
GRCh3732,140,550 - 3,099,643 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 3632,117,247 - 3,074,645 (+)NCBINCBI36Build 36hg18NCBI36
Build 3432,908,920 - 3,073,039NCBI
Celera32,081,784 - 3,038,879 (+)NCBICelera
Cytogenetic Map3p26.3-p26.2NCBI
HuRef32,074,437 - 3,033,830 (+)NCBIHuRef
CHM1_132,090,535 - 3,049,636 (+)NCBICHM1_1
T2T-CHM13v2.032,092,772 - 3,052,283 (+)NCBIT2T-CHM13v2.0
Cntn4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm396105,654,505 - 106,677,102 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl6105,654,621 - 106,676,271 (+)EnsemblGRCm39 Ensembl
GRCm386105,677,632 - 106,700,141 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl6105,677,660 - 106,699,310 (+)EnsemblGRCm38mm10GRCm38
MGSCv376105,627,739 - 106,649,299 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv366105,643,549 - 106,640,041 (+)NCBIMGSCv36mm8
Celera6107,502,223 - 108,515,798 (+)NCBICelera
Cytogenetic Map6E1NCBI
cM Map648.93NCBI
Cntn4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr84140,180,696 - 141,177,771 (+)NCBIGRCr8
mRatBN7.24138,624,584 - 139,622,499 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4139,099,152 - 139,621,090 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx4144,056,085 - 145,049,229 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.04139,836,761 - 140,829,920 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.04138,475,170 - 139,473,844 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.04137,785,166 - 138,787,527 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4138,269,142 - 138,787,525 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04202,256,218 - 203,255,494 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44141,199,447 - 142,055,176 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.14141,444,286 - 142,300,017 (+)NCBI
Celera4127,345,384 - 128,333,104 (+)NCBICelera
Cytogenetic Map4q41NCBI
LOC100989577
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v222,096,495 - 3,056,575 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan132,101,237 - 3,061,338 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v032,037,293 - 2,998,793 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.132,383,711 - 3,103,526 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl32,616,432 - 3,101,786 (+)Ensemblpanpan1.1panPan2
CNTN4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12014,354,148 - 15,277,202 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2014,356,710 - 14,954,367 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2014,319,249 - 15,240,467 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02014,386,416 - 15,303,888 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2014,386,421 - 14,904,853 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12014,087,466 - 15,002,389 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02014,421,742 - 15,343,924 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02014,412,972 - 15,329,098 (-)NCBIUU_Cfam_GSD_1.0
Cntn4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244049429,186,381 - 9,814,550 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365772,355,237 - 2,770,349 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365772,298,648 - 2,768,864 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CNTN4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1358,974,198 - 59,642,130 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11358,642,653 - 59,642,134 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21365,607,647 - 65,939,595 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CNTN4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12238,177,481 - 39,145,568 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2238,813,569 - 39,146,953 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666041127,558,059 - 128,533,926 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cntn4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462477312,780,223 - 13,302,873 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462477312,331,286 - 13,302,770 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts XM_005383751 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_005383752 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_005383753 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_005383754 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_013513798 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_013513799 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AGCD01021872 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AGCD01021873 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AGCD01021874 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AGCD01021875 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AGCD01021876 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AGCD01021877 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AGCD01021878 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AGCD01021879 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AGCD01021880 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AGCD01021881 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AGCD01021882 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AGCD01021883 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AGCD01021884 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AGCD01021885 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  GBDI01025726 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSCLAT00000009422   ⟹   ENSCLAP00000009293
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_00495542110,266,640 - 10,723,228 (-)Ensembl
RefSeq Acc Id: ENSCLAT00000009423   ⟹   ENSCLAP00000009294
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_00495542110,288,973 - 10,723,087 (-)Ensembl
RefSeq Acc Id: XM_005383751   ⟹   XP_005383808
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495542110,267,471 - 10,928,697 (-)NCBI
Sequence:
RefSeq Acc Id: XM_005383752   ⟹   XP_005383809
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495542110,267,471 - 10,928,734 (-)NCBI
Sequence:
RefSeq Acc Id: XM_005383753   ⟹   XP_005383810
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495542110,267,471 - 10,928,697 (-)NCBI
Sequence:
RefSeq Acc Id: XM_005383754   ⟹   XP_005383811
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495542110,288,673 - 10,928,704 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013513798   ⟹   XP_013369252
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495542110,267,471 - 10,928,697 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013513799   ⟹   XP_013369253
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495542110,277,762 - 10,928,699 (-)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: XP_005383809   ⟸   XM_005383752
- Peptide Label: isoform X1
- UniProtKB: A0A8C2V5X6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_005383810   ⟸   XM_005383753
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_005383808   ⟸   XM_005383751
- Peptide Label: isoform X1
- UniProtKB: A0A8C2V5X6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_005383811   ⟸   XM_005383754
- Peptide Label: isoform X5
- UniProtKB: A0A8C2V8G9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013369252   ⟸   XM_013513798
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_013369253   ⟸   XM_013513799
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: ENSCLAP00000009293   ⟸   ENSCLAT00000009422
RefSeq Acc Id: ENSCLAP00000009294   ⟸   ENSCLAT00000009423
Protein Domains
Fibronectin type-III   Ig-like


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCLAG00000006463 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCLAT00000009422 ENTREZGENE
  ENSCLAT00000009422.1 UniProtKB/TrEMBL
  ENSCLAT00000009423 ENTREZGENE
  ENSCLAT00000009423.1 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.10 UniProtKB/TrEMBL
InterPro CNTN4_Ig6 UniProtKB/TrEMBL
  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 Cntn4 ENTREZGENE
PANTHER CONTACTIN 3B-RELATED 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 A0A8C2V5X6 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C2V8G9 ENTREZGENE, UniProtKB/TrEMBL