Cntn4 (contactin 4) - Rat Genome Database

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Gene: Cntn4 (contactin 4) Rattus norvegicus
Analyze
Symbol: Cntn4
Name: contactin 4
RGD ID: 621361
Description: Predicted to enable cell-cell adhesion mediator activity. Involved in brain development and neuron projection development. Predicted to be located in extracellular region and side of membrane. Predicted to be active in axon; plasma membrane; and synapse. Orthologous to human CNTN4 (contactin 4); INTERACTS WITH 1,2-dimethylhydrazine; 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: Axcam; axonal-associated cell adhesion molecule; Big-2; brain-derived immunoglobulin superfamily protein 2; contactin-4
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
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
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
axon  (IBA,IEA)
extracellular region  (IEA)
plasma membrane  (IBA,IEA)
side of membrane  (IEA)
synapse  (IBA)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Disruption of contactin 4 (CNTN4) results in developmental delay and other features of 3p deletion syndrome. Fernandez T, etal., Am J Hum Genet. 2004 Jun;74(6):1286-93. Epub 2004 Apr 21.
2. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
3. Cloning and characterization of the human neural cell adhesion molecule, CNTN4 (alias BIG-2). Hansford LM, etal., Cytogenet Genome Res. 2003;101(1):17-23.
4. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
5. GOA pipeline RGD automated data pipeline
6. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
7. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
8. Overlapping and differential expression of BIG-2, BIG-1, TAG-1, and F3: four members of an axon-associated cell adhesion molecule subgroup of the immunoglobulin superfamily. Yoshihara Y, etal., J Neurobiol 1995 Sep;28(1):51-69.
Additional References at PubMed
PMID:14681019   PMID:16806532  


Genomics

Comparative Map Data
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
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
(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
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

Variants

.
Variants in Cntn4
5510 total Variants
miRNA Target Status

Confirmed Target Of
miRNA GeneMature miRNAMethod NameResult TypeData TypeSupport TypePMID
Mir409rno-miR-409a-3pMirtarbaseexternal_infoMicroarrayFunctional MTI (Weak)18258830

Predicted Target Of
Summary Value
Count of predictions:273
Count of miRNA genes:168
Interacting mature miRNAs:205
Transcripts:ENSRNOT00000007788
Prediction methods:Microtar, 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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2303168Bp330Blood pressure QTL 3304.250.017arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)45214602146446691Rat
2316958Gluco58Glucose level QTL 5810blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)411320076180699135Rat
1358352Srcrt3Stress Responsive Cort QTL 32.29blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)438465774146803430Rat
1576305Emca6Estrogen-induced mammary cancer QTL 65.8mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)444463720155883716Rat
1354612Foco1Food consumption QTL 18.87eating behavior trait (VT:0001431)food intake rate (CMO:0000427)444463908148090542Rat
1354660Salc1Saline consumption QTL 111.26drinking behavior trait (VT:0001422)saline drink intake rate (CMO:0001627)444463908148090542Rat
2312567Glom19Glomerulus QTL 191.90.006kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)445456990146803430Rat
1298082Stresp4Stress response QTL 4blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)450119848146803430Rat
70200Alc18Alcohol consumption QTL 189.2drinking behavior trait (VT:0001422)ethanol intake volume to total fluid intake volume ratio (CMO:0001591)456647873149491524Rat
738009Sach4Saccharine consumption QTL 44.90.000016consumption behavior trait (VT:0002069)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)459948935154902892Rat
738016Alc16Alcohol consumption QTL 163.60.00015consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)459948935154902892Rat
738031Alc14Alcohol consumption QTL 147.60.00003consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)459948935154902892Rat
631674Iddm14Insulin dependent diabetes mellitus QTL 14blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)464528739157573521Rat
70177Xhs1X-ray hypersensitivity QTL 125.1intestine integrity trait (VT:0010554)post-insult time to onset of moribundity (CMO:0001896)482798864152731274Rat
1576316Ept5Estrogen-induced pituitary tumorigenesis QTL 53.8pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)483428419177635233Rat
1582232Gluco25Glucose level QTL 253.60.0023blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)485253748148090731Rat
12798523Anxrr56Anxiety related response QTL 562.830.05locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)485253748150276390Rat
1358202Gluco11Glucose level QTL 112.40.02adipocyte glucose uptake trait (VT:0004185)absolute change in adipocyte glucose uptake (CMO:0000873)485379421167139601Rat
634335Anxrr16Anxiety related response QTL 167.22locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)493308457167139447Rat
631689Scl4Serum cholesterol level QTL 41.90.008blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)495174120140174120Rat
61434Cia3Collagen induced arthritis QTL 34.8joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4103194656148194656Rat
2302049Pia32Pristane induced arthritis QTL 325.10.001blood autoantibody amount (VT:0003725)serum immunoglobulin G-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002112)4105789505150789505Rat
731165Uae21Urinary albumin excretion QTL 212.40.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)4106649412151649412Rat
61406Scwia1Streptococcal cell wall induced arthritis QTL 12.3joint integrity trait (VT:0010548)experimental arthritis severity measurement (CMO:0001459)4106805662151805662Rat
7207480Bss105Bone structure and strength QTL 1058.1femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)4109827074154827074Rat
1549832Bss3Bone structure and strength QTL 311femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)4109827074154827074Rat
737821Hcar9Hepatocarcinoma resistance QTL 93.7liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)4109866907167139601Rat
1331759Hrtrt13Heart rate QTL 133.54628heart pumping trait (VT:2000009)heart rate (CMO:0000002)4110275411168266883Rat
6478760Anxrr45Anxiety related response QTL 450.06717locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4110870972155870972Rat
6478763Anxrr46Anxiety related response QTL 460.07428locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4110870972155870972Rat
12798519Anxrr54Anxiety related response QTL 542.540.05locomotor behavior trait (VT:0001392)distance moved per unit of time into, out of or within a discrete space in an experimental apparatus (CMO:0001493)4114627026159627026Rat
1300116Hrtrt5Heart rate QTL 53.76heart pumping trait (VT:2000009)heart rate (CMO:0000002)4116179486151161268Rat
724535Cm18Cardiac mass QTL 182.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)4118856416163856416Rat
1331802Srn5Serum renin concentration QTL 53.045renin activity (VT:0005581)plasma renin activity level (CMO:0000116)4119428175157578333Rat
12798527Anxrr58Anxiety related response QTL 584.110.05locomotor behavior trait (VT:0001392)distance moved per unit of time into, out of or within a discrete space in an experimental apparatus (CMO:0001493)4119463257147278687Rat
70201Gcr1Gastric cancer resistance QTL 12.7stomach morphology trait (VT:0000470)stomach tumor susceptibility score (CMO:0002043)4120260281147278687Rat
2293840Kiddil9Kidney dilation QTL 92.9kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)4120926564148090731Rat
634347Hcar8Hepatocarcinoma resistance QTL 85.8liver integrity trait (VT:0010547)liver tumorous lesion area to total liver area ratio (CMO:0001075)4123143783168143783Rat
631683Bp116Blood pressure QTL 1160.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)4124303370169303370Rat
6478778Anxrr51Anxiety related response QTL 510.25384locomotor behavior trait (VT:0001392)measurement of voluntary locomotion into, out of or within a discrete space in an experimental apparatus (CMO:0000957)4124778595169778595Rat
7411558Bw133Body weight QTL 13313.840.001body mass (VT:0001259)body weight gain (CMO:0000420)4125590636170590636Rat
61451Ciaa4CIA Autoantibody QTL 43.1blood autoantibody amount (VT:0003725)calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)4126395976167139601Rat
737978Pia23Pristane induced arthritis QTL 235.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4131730738167139601Rat
631511Pia7Pristane induced arthritis QTL 74.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4131730738167139601Rat
1549827Scl46Serum cholesterol level QTL 463.5blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)4132396220177396220Rat
724558Plsm2Polydactyly-luxate syndrome (PLS) morphotypes QTL 20.0003hindlimb integrity trait (VT:0010563)hind foot phalanges count (CMO:0001949)4132422778177422778Rat
61422Cia13Collagen induced arthritis QTL 134.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4132642577167139601Rat
2303623Vencon2Ventilatory control QTL 23.8respiration trait (VT:0001943)minute ventilation (CMO:0000132)4135204660180204660Rat
1578674Bmd12Bone mineral density QTL 123.8femur mineral mass (VT:0010011)compact volumetric bone mineral density (CMO:0001730)4135699135180699135Rat
2293659Bmd35Bone mineral density QTL 354.50.0001femur strength trait (VT:0010010)femoral neck ultimate force (CMO:0001703)4137755016181392681Rat
61362Oia2Oil induced arthritis QTL 20.001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4138503169173369699Rat
1298524Oia8Oil induced arthritis QTL 8joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4138503169173369699Rat
1331738Bp209Blood pressure QTL 2092.979arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)4138503169179293946Rat

Markers in Region
D4Rat81  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24139,028,970 - 139,029,107 (+)MAPPERmRatBN7.2
Rnor_6.04138,199,017 - 138,199,153NCBIRnor6.0
Rnor_5.04202,666,953 - 202,667,089UniSTSRnor5.0
RGSC_v3.44141,452,037 - 141,452,575RGDRGSC3.4
RGSC_v3.44141,452,361 - 141,452,497UniSTSRGSC3.4
RGSC_v3.14141,697,202 - 141,697,338RGD
Celera4127,748,725 - 127,748,861UniSTS
RH 3.4 Map4854.4RGD
RH 3.4 Map4854.4UniSTS
RH 2.0 Map4912.4RGD
FHH x ACI Map481.3399RGD
Cytogenetic Map4q41UniSTS
D4Got107  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24138,945,369 - 138,945,662 (+)MAPPERmRatBN7.2
Rnor_6.04138,114,390 - 138,114,682NCBIRnor6.0
Rnor_5.04202,582,459 - 202,582,751UniSTSRnor5.0
RGSC_v3.44141,366,231 - 141,366,524RGDRGSC3.4
RGSC_v3.44141,366,232 - 141,366,524UniSTSRGSC3.4
RGSC_v3.14141,611,073 - 141,611,365RGD
Celera4127,664,898 - 127,665,190UniSTS
RH 3.4 Map4848.1UniSTS
RH 3.4 Map4848.1RGD
RH 2.0 Map4884.0RGD
Cytogenetic Map4q41UniSTS
D4Got104  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24139,080,774 - 139,080,874 (+)MAPPERmRatBN7.2
Rnor_6.04138,250,799 - 138,250,900NCBIRnor6.0
Rnor_5.04202,718,749 - 202,718,850UniSTSRnor5.0
RGSC_v3.44141,504,263 - 141,504,495RGDRGSC3.4
RGSC_v3.44141,504,262 - 141,504,363UniSTSRGSC3.4
RGSC_v3.14141,749,104 - 141,749,204RGD
Celera4127,800,433 - 127,800,534UniSTS
RH 3.4 Map4854.6RGD
RH 3.4 Map4854.6UniSTS
Cytogenetic Map4q41UniSTS
D4Got151  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24138,650,889 - 138,650,993 (+)MAPPERmRatBN7.2
Rnor_6.04137,811,476 - 137,811,579NCBIRnor6.0
Rnor_5.04202,282,504 - 202,282,607UniSTSRnor5.0
Celera4127,371,578 - 127,371,681UniSTS
Cytogenetic Map4q41UniSTS
X99043  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24139,595,452 - 139,595,652 (+)MAPPERmRatBN7.2
Rnor_6.04138,761,306 - 138,761,505NCBIRnor6.0
Rnor_5.04203,229,256 - 203,229,455UniSTSRnor5.0
RGSC_v3.44142,029,538 - 142,029,737UniSTSRGSC3.4
Celera4128,307,826 - 128,308,025UniSTS
Cytogenetic Map4q41UniSTS
RH144086  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24138,802,555 - 138,802,757 (+)MAPPERmRatBN7.2
Rnor_6.04137,962,669 - 137,962,870NCBIRnor6.0
Rnor_5.04202,433,697 - 202,433,898UniSTSRnor5.0
RGSC_v3.44141,222,664 - 141,222,865UniSTSRGSC3.4
Celera4127,522,982 - 127,523,183UniSTS
RH 3.4 Map4856.7UniSTS
Cytogenetic Map4q41UniSTS


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 46
Low 14 7 22 12 24
Below cutoff 2 22 19 11 10 11 6 6 4 15 16 7 6

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_053879 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008763166 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017592395 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017592396 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017592397 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039106945 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039106946 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063285412 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063285413 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063285414 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063285415 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063285416 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063285417 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063285418 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063285419 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC097813 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473957 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000004 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U35371 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

RefSeq Acc Id: ENSRNOT00000007788   ⟹   ENSRNOP00000007788
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl4139,099,152 - 139,621,090 (+)Ensembl
Rnor_6.0 Ensembl4138,269,142 - 138,786,944 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000090847   ⟹   ENSRNOP00000069502
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl4139,271,577 - 139,621,090 (+)Ensembl
Rnor_6.0 Ensembl4138,441,332 - 138,787,525 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000111049   ⟹   ENSRNOP00000086586
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl4139,099,152 - 139,595,383 (+)Ensembl
RefSeq Acc Id: NM_053879   ⟹   NP_446331
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84140,180,821 - 141,177,190 (+)NCBI
mRatBN7.24138,624,694 - 139,621,090 (+)NCBI
Rnor_6.04137,785,284 - 138,786,944 (+)NCBI
Rnor_5.04202,256,218 - 203,255,494 (+)NCBI
RGSC_v3.44141,199,447 - 142,055,176 (+)RGD
Celera4127,345,384 - 128,333,104 (+)RGD
Sequence:
RefSeq Acc Id: XM_017592395   ⟹   XP_017447884
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84140,592,658 - 141,177,771 (+)NCBI
mRatBN7.24139,036,544 - 139,622,499 (+)NCBI
Rnor_6.04138,207,757 - 138,787,527 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017592396   ⟹   XP_017447885
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84140,180,712 - 141,177,771 (+)NCBI
mRatBN7.24138,624,584 - 139,622,499 (+)NCBI
Rnor_6.04137,785,166 - 138,787,527 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039106945   ⟹   XP_038962873
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84140,180,711 - 141,177,771 (+)NCBI
mRatBN7.24138,624,584 - 139,622,499 (+)NCBI
RefSeq Acc Id: XM_039106946   ⟹   XP_038962874
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84140,180,711 - 141,151,773 (+)NCBI
mRatBN7.24138,624,584 - 139,595,935 (+)NCBI
RefSeq Acc Id: XM_063285412   ⟹   XP_063141482
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84140,180,712 - 141,177,771 (+)NCBI
RefSeq Acc Id: XM_063285413   ⟹   XP_063141483
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84140,180,696 - 141,177,771 (+)NCBI
RefSeq Acc Id: XM_063285414   ⟹   XP_063141484
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84140,180,711 - 141,177,771 (+)NCBI
RefSeq Acc Id: XM_063285415   ⟹   XP_063141485
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84140,592,657 - 141,177,771 (+)NCBI
RefSeq Acc Id: XM_063285416   ⟹   XP_063141486
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84140,180,711 - 141,177,771 (+)NCBI
RefSeq Acc Id: XM_063285417   ⟹   XP_063141487
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84140,180,711 - 141,177,771 (+)NCBI
RefSeq Acc Id: XM_063285418   ⟹   XP_063141488
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84140,592,654 - 141,151,773 (+)NCBI
RefSeq Acc Id: XM_063285419   ⟹   XP_063141489
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84140,180,710 - 141,151,773 (+)NCBI
RefSeq Acc Id: NP_446331   ⟸   NM_053879
- Peptide Label: precursor
- UniProtKB: Q62845 (UniProtKB/Swiss-Prot),   A6IBJ8 (UniProtKB/TrEMBL),   A0A0G2JVI9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017447885   ⟸   XM_017592396
- Peptide Label: isoform X1
- UniProtKB: Q62845 (UniProtKB/Swiss-Prot),   A6IBJ8 (UniProtKB/TrEMBL),   A0A0G2JVI9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017447884   ⟸   XM_017592395
- Peptide Label: isoform X1
- UniProtKB: Q62845 (UniProtKB/Swiss-Prot),   A6IBJ8 (UniProtKB/TrEMBL),   A0A0G2JVI9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000069502   ⟸   ENSRNOT00000090847
RefSeq Acc Id: ENSRNOP00000007788   ⟸   ENSRNOT00000007788
RefSeq Acc Id: XP_038962873   ⟸   XM_039106945
- Peptide Label: isoform X2
- UniProtKB: A0A0G2JVI9 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038962874   ⟸   XM_039106946
- Peptide Label: isoform X5
- UniProtKB: A0A8I6A640 (UniProtKB/TrEMBL),   A6IBJ9 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSRNOP00000086586   ⟸   ENSRNOT00000111049
RefSeq Acc Id: XP_063141483   ⟸   XM_063285413
- Peptide Label: isoform X1
RefSeq Acc Id: XP_063141489   ⟸   XM_063285419
- Peptide Label: isoform X6
RefSeq Acc Id: XP_063141484   ⟸   XM_063285414
- Peptide Label: isoform X2
RefSeq Acc Id: XP_063141486   ⟸   XM_063285416
- Peptide Label: isoform X3
RefSeq Acc Id: XP_063141487   ⟸   XM_063285417
- Peptide Label: isoform X4
RefSeq Acc Id: XP_063141482   ⟸   XM_063285412
- Peptide Label: isoform X1
RefSeq Acc Id: XP_063141488   ⟸   XM_063285418
- Peptide Label: isoform X5
RefSeq Acc Id: XP_063141485   ⟸   XM_063285415
- Peptide Label: isoform X2
Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q62845-F1-model_v2 AlphaFold Q62845 1-1026 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:621361 AgrOrtholog
BioCyc Gene G2FUF-43479 BioCyc
Ensembl Genes ENSRNOG00000005652 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ENSRNOG00055019950 UniProtKB/Swiss-Prot
  ENSRNOG00060013751 UniProtKB/Swiss-Prot
  ENSRNOG00065012089 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000007788 ENTREZGENE
  ENSRNOT00000007788.7 UniProtKB/Swiss-Prot
  ENSRNOT00000090847.2 UniProtKB/TrEMBL
  ENSRNOT00000111049.1 UniProtKB/TrEMBL
  ENSRNOT00055034168 UniProtKB/Swiss-Prot
  ENSRNOT00060023501 UniProtKB/Swiss-Prot
  ENSRNOT00065019739 UniProtKB/Swiss-Prot
Gene3D-CATH 2.60.40.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro CNTN4_Ig6 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  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, UniProtKB/TrEMBL
KEGG Report rno:116658 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
NCBI Gene 116658 ENTREZGENE
PANTHER CONTACTIN 3B-RELATED UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PROTEIN SIDEKICK UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam fn3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  I-set UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig_3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Cntn4 PhenoGen
PROSITE FN3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  IG_LIKE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000005652 RatGTEx
  ENSRNOG00055019950 RatGTEx
  ENSRNOG00060013751 RatGTEx
  ENSRNOG00065012089 RatGTEx
SMART FN3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  IGc2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SM00409 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF48726 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF49265 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2JVI9 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6A640 ENTREZGENE, UniProtKB/TrEMBL
  A6IBJ8 ENTREZGENE, UniProtKB/TrEMBL
  A6IBJ9 ENTREZGENE, UniProtKB/TrEMBL
  A6IBK0_RAT UniProtKB/TrEMBL
  CNTN4_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-01-09 Cntn4  contactin 4  Axcam  axonal-associated cell adhesion molecule  Symbol updated to reflect Human and Mouse nomenclature 625702 APPROVED
2002-08-07 Axcam  axonal-associated cell adhesion molecule      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_domains contains six Ig-like domains, four fibronectin type III-like repeats, and a glycosyl phosphatidylinositol-anchoring domain 631992
gene_expression mRNA highly expressed in the CA1 pyramidal cells of adult hippocampus 631992
gene_product member of TAG-1/F3 subgroup of the immunoglobulin (Ig) superfamily 631992