Cntn3 (contactin 3) - Rat Genome Database
Submit Data |  Help |  Video Tutorials |  News |  Publications |  FTP Download |  REST API |  Citing RGD |  Contact   
Gene: Cntn3 (contactin 3) Mus musculus
Analyze
Symbol: Cntn3
Name: contactin 3
RGD ID: 732843
MGI Page MGI
Description: Predicted to be involved in nervous system development. Predicted to localize to neuron projection. Is expressed in several structures, including alimentary system; ear; genitourinary system; integumental system; and nervous system. Orthologous to human CNTN3 (contactin 3); INTERACTS WITH 1,2-dichloroethane; Aroclor 1254; benzo[a]pyrene.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: BIG-1; brain-derived immunoglobulin superfamily protein 1; contactin-3; P; Pang; plasmacytoma-associated neuronal glycoprotein
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm38 - Mouse Genome Assembly GRCm38
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm396102,140,265 - 102,541,575 (-)NCBIGRCm39mm39
GRCm386102,163,304 - 102,564,614 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl6102,162,655 - 102,573,101 (-)EnsemblGRCm38mm10GRCm38
MGSCv376102,113,300 - 102,414,661 (-)NCBIGRCm37mm9NCBIm37
MGSCv366102,131,248 - 102,430,765 (-)NCBImm8
Celera6104,040,270 - 104,340,757 (-)NCBICelera
Cytogenetic Map6D3NCBI
cM Map647.52NCBI
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

References

Additional References at PubMed
PMID:8060619   PMID:8108413   PMID:8661054   PMID:9615221   PMID:9697703   PMID:10349636   PMID:10595508   PMID:10631167   PMID:11042159   PMID:11076861   PMID:11217851   PMID:14681479  
PMID:15147765   PMID:16141072   PMID:16141073   PMID:16701205   PMID:16987237   PMID:20133774   PMID:21267068   PMID:21677750   PMID:21873635   PMID:24559674   PMID:24952961   PMID:25826454  
PMID:26633812   PMID:27539848   PMID:31318883   PMID:31597102  


Genomics

Comparative Map Data
Cntn3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm396102,140,265 - 102,541,575 (-)NCBIGRCm39mm39
GRCm386102,163,304 - 102,564,614 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl6102,162,655 - 102,573,101 (-)EnsemblGRCm38mm10GRCm38
MGSCv376102,113,300 - 102,414,661 (-)NCBIGRCm37mm9NCBIm37
MGSCv366102,131,248 - 102,430,765 (-)NCBImm8
Celera6104,040,270 - 104,340,757 (-)NCBICelera
Cytogenetic Map6D3NCBI
cM Map647.52NCBI
CNTN3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl374,262,568 - 74,521,140 (-)EnsemblGRCh38hg38GRCh38
GRCh38374,262,568 - 74,614,448 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37374,311,719 - 74,570,291 (-)NCBIGRCh37GRCh37hg19GRCh37
GRCh37374,311,719 - 74,663,587 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36374,394,412 - 74,653,033 (-)NCBINCBI36hg18NCBI36
Build 34374,394,411 - 74,618,331NCBI
Celera374,247,090 - 74,505,253 (-)NCBI
Cytogenetic Map3p12.3NCBI
HuRef374,315,581 - 74,574,586 (-)NCBIHuRef
CHM1_1374,265,520 - 74,524,099 (-)NCBICHM1_1
Cntn3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.24134,841,268 - 135,214,460 (-)NCBI
Rnor_6.0 Ensembl4134,784,668 - 135,069,970 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.04134,783,671 - 135,159,309 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.04199,261,485 - 199,636,093 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44137,121,006 - 137,421,081 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.14137,365,846 - 137,665,922 (-)NCBI
Celera4123,663,257 - 123,945,703 (-)NCBICelera
Cytogenetic Map4q34-q41NCBI
Cntn3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542113,764,522 - 14,008,996 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495542113,688,779 - 14,008,546 (+)NCBIChiLan1.0ChiLan1.0
CNTN3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1376,125,024 - 76,384,508 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl376,126,857 - 76,384,431 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0374,203,074 - 74,555,980 (-)NCBIMhudiblu_PPA_v0panPan3
CNTN3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl2017,702,492 - 18,030,345 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.12017,703,159 - 18,032,041 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Cntn3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049366034,990,528 - 5,314,224 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CNTN3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1355,648,491 - 56,018,871 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11355,648,491 - 56,018,887 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21361,559,427 - 61,705,572 (-)NCBISscrofa10.2Sscrofa10.2susScr3
LOC103227914
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12235,208,217 - 35,458,811 (-)NCBI
ChlSab1.1 Ensembl2235,210,102 - 35,313,065 (-)Ensembl
Cntn3
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247738,885,273 - 9,259,569 (-)NCBI

Position Markers
BB266622  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm386102,163,452 - 102,163,566UniSTSGRCm38
MGSCv376102,113,446 - 102,113,560UniSTSGRCm37
Celera6104,040,416 - 104,040,530UniSTS
Cytogenetic Map6D3UniSTS
cM Map643.5UniSTS
Whitehead/MRC_RH61033.91UniSTS
Cntn3  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm386102,165,244 - 102,165,408UniSTSGRCm38
MGSCv376102,115,238 - 102,115,402UniSTSGRCm37
Celera6104,042,208 - 104,042,372UniSTS
Cytogenetic Map6D3UniSTS
cM Map643.5UniSTS
Cntn3  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map6D3UniSTS


QTLs in Region (GRCm38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
25440480Moaq2_mmodifier of alien QTL 2 (mouse)61117500000Mouse
26884414Bzwq12_mbi-zygomatic width QTL 12, 16 week (mouse)63400000139100000Mouse
10412157Fl1n_mfatty liver 1 in NSY (mouse)Not determined645314059128835032Mouse
4142259Tabw2_mtally ho associated body weight 2 (mouse)Not determined46935985136423692Mouse
25314319Histh6_mhistamine hypersensitivity 6 (mouse)648720000125360000Mouse
25314320Histh5_mhistamine hypersensitivity 5 (mouse)648720000148450000Mouse
1301962Eila2_methanol induced locomotor activity 2 (mouse)Not determined648726556125356785Mouse
1357683Igf1sl1_mIGF-1 serum levels 1 (mouse)Not determined652161713116155267Mouse
1301876Bits2_mbitterness sensitivity 2 (mouse)Not determined670425898104426034Mouse
1301813Skl3_mskeletal size (tail length) 3 (mouse)Not determined670425898104426034Mouse
1301034Egrm2_mearly growth rate (mouse)Not determined670425898104426034Mouse
1300869Stheal5_msoft tissue heal 5 (mouse)Not determined671575060105575178Mouse
1300954Fcsa1_mfemoral cross-sectional area 1 (mouse)Not determined671981024105981170Mouse
1301521Pas1c_mpulmonary adenoma susceptibility 1c (mouse)Not determined671981024105981170Mouse
13506930Recrq9_mrecombination rate in male meiosis QTL 9 (mouse)673500000134700000Mouse
1301320Ots1_movarian teratoma susceptibility 1 (mouse)Not determined675447583104503555Mouse
10043901Pfat5_mpredicted fat percentage 5 (mouse)Not determined675607306109607450Mouse
10412208Cypr4_mcytokine production 4 (mouse)Not determined675716503109716697Mouse
1357875Pfat2_mpredicted fat percentage 2 (mouse)Not determined676463949110464093Mouse
4141376Dbm1_mdiabetes modifier 1 (mouse)Not determined678629504121115387Mouse
14696731Pairq1_mP. aeruginosa infection resistance QTL 1 (mouse)681500000102200000Mouse
10043864T2dm4sa_mtype 2 diabetes mellitus 4 in SMXA RI mice (mouse)Not determined683713869147052561Mouse
11251720Ewc4_methanol withdrawal and consumption 4 (mouse)684122513118122513Mouse
1301687Mnic2_mmacronutrient intake (mouse)Not determined686806805113544602Mouse
1301744Hdlq11_mHDL QTL 11 (mouse)Not determined687503360121503555Mouse
1301262Gasa3_mgastritis type A susceptibility locus 3 (mouse)Not determined689005405123005603Mouse
1301244Ichs_mimmediate cutaneous hypersensitivity QTL (mouse)Not determined690795610124795846Mouse
4141578Obrq1_mobesity resistance QTL 1 (mouse)Not determined92607306112004738Mouse
11353842Bmiq4_mbody mass index QTL 4 (mouse)692607306146429238Mouse
1301292Cfbw2_mcystic fibrosis body weight 2 (mouse)Not determined695004651129004738Mouse
1300704Cia3_mcollagen induced arthritis QTL 3 (mouse)Not determined696347325130347522Mouse
11040599Lmr4b_mleishmaniasis resistance 4b (mouse)696347325130347522Mouse
4141940W6q5_mweight 6 weeks QTL 5 (mouse)Not determined96655951146633626Mouse
4142416Egq11_mearly growth QTL 11 (mouse)Not determined96655951146633626Mouse
1357555Tesq2_mtestis weight QTL 2 (mouse)Not determined696655951146633626Mouse
10043923Bhr7_mbronchial hyperresponsiveness 7 (mouse)Not determined698242853132242977Mouse
1301518Bbaa5_mB.burgdorferi-associated arthritis 5 (mouse)Not determined698506837145935444Mouse
1301923Lith6_mlithogenic gene 6 (mouse)Not determined698717516132717715Mouse
1301915Chab3_mcholesterol absorption 3 (mouse)Not determined698931748132940036Mouse
1302131Bmd8_mbone mineral density 8 (mouse)Not determined699155128133155267Mouse

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:594
Count of miRNA genes:360
Interacting mature miRNAs:431
Transcripts:ENSMUST00000032159
Prediction methods:Miranda, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts NM_008779 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006505725 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006505727 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006505728 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006505729 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_011241248 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_036165925 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_001785107 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_377430 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC114423 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC153597 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC153600 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC155328 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK039232 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK140747 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH466523 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  L01991 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSMUST00000032159   ⟹   ENSMUSP00000032159
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl6102,163,306 - 102,464,667 (-)Ensembl
RefSeq Acc Id: ENSMUST00000203619   ⟹   ENSMUSP00000145176
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl6102,163,304 - 102,573,101 (-)Ensembl
RefSeq Acc Id: ENSMUST00000204990
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl6102,162,655 - 102,166,201 (-)Ensembl
RefSeq Acc Id: NM_008779   ⟹   NP_032805
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm396102,140,267 - 102,441,628 (-)NCBI
GRCm386102,163,306 - 102,464,667 (-)NCBI
MGSCv376102,113,300 - 102,414,661 (-)RGD
Celera6104,040,270 - 104,340,757 (-)RGD
cM Map6 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_006505725   ⟹   XP_006505788
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm396102,141,313 - 102,541,566 (-)NCBI
GRCm386102,163,304 - 102,564,606 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006505727   ⟹   XP_006505790
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm396102,141,313 - 102,541,566 (-)NCBI
GRCm386102,163,304 - 102,564,606 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006505728   ⟹   XP_006505791
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm396102,141,313 - 102,493,378 (-)NCBI
GRCm386102,163,304 - 102,516,423 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006505729   ⟹   XP_006505792
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm396102,141,313 - 102,541,567 (-)NCBI
GRCm386102,163,304 - 102,564,606 (-)NCBI
Sequence:
RefSeq Acc Id: XM_011241248   ⟹   XP_011239550
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm396102,141,313 - 102,397,290 (-)NCBI
GRCm386102,163,304 - 102,420,331 (-)NCBI
Sequence:
RefSeq Acc Id: XM_036165925   ⟹   XP_036021818
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm396102,141,313 - 102,541,084 (-)NCBI
RefSeq Acc Id: XR_001785107
RefSeq Status:
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm396102,140,265 - 102,541,574 (-)NCBI
GRCm386102,163,304 - 102,564,614 (-)NCBI
Sequence:
RefSeq Acc Id: XR_377430
RefSeq Status:
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm396102,180,863 - 102,541,575 (-)NCBI
GRCm386102,203,902 - 102,564,614 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_032805   ⟸   NM_008779
- Peptide Label: precursor
- UniProtKB: Q07409 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006505792   ⟸   XM_006505729
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_006505788   ⟸   XM_006505725
- Peptide Label: isoform X1
- UniProtKB: Q07409 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006505790   ⟸   XM_006505727
- Peptide Label: isoform X1
- UniProtKB: Q07409 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006505791   ⟸   XM_006505728
- Peptide Label: isoform X1
- UniProtKB: Q07409 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_011239550   ⟸   XM_011241248
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: ENSMUSP00000145176   ⟸   ENSMUST00000203619
RefSeq Acc Id: ENSMUSP00000032159   ⟸   ENSMUST00000032159
RefSeq Acc Id: XP_036021818   ⟸   XM_036165925
- Peptide Label: isoform X1

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:99534 AgrOrtholog
Ensembl Genes ENSMUSG00000030075 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSMUSP00000032159 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUSP00000145176 UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000032159 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUST00000203619 UniProtKB/Swiss-Prot
Gene3D-CATH 2.60.40.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro FN3_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  FN3_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig-like_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig_I-set UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig_sub UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig_sub2 UniProtKB/Swiss-Prot
KEGG Report mmu:18488 UniProtKB/Swiss-Prot
MGD MGI:99534 ENTREZGENE
NCBI Gene 18488 ENTREZGENE
Pfam fn3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  I-set UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Cntn3 PhenoGen
PROSITE FN3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  IG_LIKE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART FN3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  IGc2 UniProtKB/Swiss-Prot
  SM00409 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF48726 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF49265 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt CNTN3_MOUSE UniProtKB/Swiss-Prot, ENTREZGENE
  Q3US71_MOUSE UniProtKB/TrEMBL
UniProt Secondary G5E878 UniProtKB/Swiss-Prot