Cntn6 (contactin 6) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Behavioral & Substance Use Disorder Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Advanced Search (OLGA)
Gene: Cntn6 (contactin 6) Rattus norvegicus
Analyze
Symbol: Cntn6
Name: contactin 6
RGD ID: 62008
Description: Predicted to be involved in Notch signaling pathway; cell adhesion; and neuron projection development. Predicted to act upstream of or within positive regulation of Notch signaling pathway. Predicted to be located in plasma membrane. Predicted to be active in neuron projection; parallel fiber to Purkinje cell synapse; and presynaptic membrane. Orthologous to human CNTN6 (contactin 6); PARTICIPATES IN Notch signaling pathway; INTERACTS WITH 2,2',4,4'-Tetrabromodiphenyl ether; 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: contactin-6; NB-3; neural adhesion molecule; neural recognition molecule NB-3
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr84138,911,090 - 139,307,339 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl4138,911,380 - 139,311,816 (+)EnsemblGRCr8
mRatBN7.24137,354,886 - 137,751,712 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4137,355,367 - 137,751,119 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx4142,789,737 - 143,187,422 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.04138,570,414 - 138,968,094 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.04137,194,242 - 137,592,982 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.04136,512,201 - 136,904,355 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4136,512,201 - 136,904,355 (+)Ensemblrn6Rnor6.0
Rnor_5.04200,983,505 - 201,373,876 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.44140,078,007 - 140,450,348 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera4126,104,412 - 126,491,956 (+)NCBICelera
RGSC_v3.14140,322,847 - 140,695,189 (+)NCBI
Cytogenetic Map4q41NCBI
JBrowse:




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

References - curated
# Reference Title Reference Citation
1. 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.
2. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
4. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
5. Novel neural adhesion molecules in the Contactin/F3 subgroup of the immunoglobulin superfamily: isolation and characterization of cDNAs from rat brain. Ogawa J, etal., Neurosci Lett 1996 Nov 8;218(3):173-6.
6. PID Annotation Import Pipeline Pipeline to import Pathway Interaction Database annotations from NCI into RGD
7. GOA pipeline RGD automated data pipeline
8. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
9. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
10. Impaired motor coordination in mice lacking neural recognition molecule NB-3 of the contactin/F3 subgroup. Takeda Y, etal., J Neurobiol 2003 Sep 5;56(3):252-65.
Additional References at PubMed
PMID:15082708   PMID:19672956   PMID:25074942  


Genomics

Comparative Map Data
Cntn6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr84138,911,090 - 139,307,339 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl4138,911,380 - 139,311,816 (+)EnsemblGRCr8
mRatBN7.24137,354,886 - 137,751,712 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4137,355,367 - 137,751,119 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx4142,789,737 - 143,187,422 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.04138,570,414 - 138,968,094 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.04137,194,242 - 137,592,982 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.04136,512,201 - 136,904,355 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4136,512,201 - 136,904,355 (+)Ensemblrn6Rnor6.0
Rnor_5.04200,983,505 - 201,373,876 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.44140,078,007 - 140,450,348 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera4126,104,412 - 126,491,956 (+)NCBICelera
RGSC_v3.14140,322,847 - 140,695,189 (+)NCBI
Cytogenetic Map4q41NCBI
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 (+)Ensemblhg38GRCh38
GRCh3731,134,708 - 1,445,901 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 3631,109,629 - 1,420,278 (+)NCBIBuild 36Build 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 EnsemblGRCm39
GRCm386104,492,662 - 104,863,406 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl6104,492,790 - 104,863,406 (+)Ensemblmm10GRCm38
MGSCv376104,443,038 - 104,813,400 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv366104,458,817 - 104,829,179 (+)NCBIMGSCv36mm8
Celera6106,329,247 - 106,700,735 (+)NCBICelera
Cytogenetic Map6E1NCBI
cM Map648.93NCBI
Cntn6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542111,797,071 - 12,111,490 (-)Ensembl
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 (+)EnsemblpanPan2panpan1.1
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 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2015,863,581 - 16,135,157 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02015,927,123 - 16,198,432 (-)NCBIROS_Cfam_1.0ROS_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_1.0UU_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 (+)EnsemblSpeTri2.0 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 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11357,754,233 - 58,014,830 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21363,983,503 - 64,013,215 (+)NCBISscrofa10.2Sscrofa10.2susScr3
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 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_023666041129,207,778 - 129,514,375 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
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_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462477311,059,466 - 11,417,825 (+)NCBIHetGla 1.0HetGla 1.0hetGla2

Variants

.
Variants in Cntn6
2185 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:94
Count of miRNA genes:81
Interacting mature miRNAs:83
Transcripts:ENSRNOT00000051645
Prediction methods:Microtar, Miranda, Rnahybrid, 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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1582232Gluco25Glucose level QTL 253.60.0023blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)486583980149763391Rat
631689Scl4Serum cholesterol level QTL 41.90.008blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)496731383141731383Rat
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)4107346299152346299Rat
724558Plsm2Polydactyly-luxate syndrome (PLS) morphotypes QTL 20.0003hindlimb integrity trait (VT:0010563)hind foot phalanges count (CMO:0001949)4134095016179095016Rat
1300116Hrtrt5Heart rate QTL 53.76heart pumping trait (VT:2000009)heart rate (CMO:0000002)4117737142152833657Rat
1358364Sradr4Stress Responsive Adrenal Weight QTL 44.92adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)4131384565176384565Rat
10755501Bp390Blood pressure QTL 3902.5arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)427730518170099664Rat
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)4112427331157427331Rat
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)4112427331157427331Rat
61451Ciaa4CIA Autoantibody QTL 43.1blood autoantibody amount (VT:0003725)calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)4123870974168870974Rat
1331802Srn5Serum renin concentration QTL 53.045renin activity (VT:0005581)plasma renin activity level (CMO:0000116)4117559384162559384Rat
738009Sach4Saccharine consumption QTL 44.90.000016consumption behavior trait (VT:0002069)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)460916264184426481Rat
7207480Bss105Bone structure and strength QTL 1058.1femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)4111383604156383604Rat
634335Anxrr16Anxiety related response QTL 167.22locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)494638356168870820Rat
737821Hcar9Hepatocarcinoma resistance QTL 93.7liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)4106848959168870974Rat
731165Uae21Urinary albumin excretion QTL 212.40.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)4108206096153206096Rat
7411558Bw133Body weight QTL 13313.840.001body mass (VT:0001259)body weight gain (CMO:0000420)4127263297172263297Rat
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)4126334185171334185Rat
61406Scwia1Streptococcal cell wall induced arthritis QTL 12.3joint integrity trait (VT:0010548)experimental arthritis severity measurement (CMO:0001459)475939858140508796Rat
631511Pia7Pristane induced arthritis QTL 74.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4123870974168870974Rat
1549832Bss3Bone structure and strength QTL 311femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)4111383604156383604Rat
1354612Foco1Food consumption QTL 18.87eating behavior trait (VT:0001431)food intake rate (CMO:0000427)445429897149763204Rat
70177Xhs1X-ray hypersensitivity QTL 125.1intestine integrity trait (VT:0010554)post-insult time to onset of moribundity (CMO:0001896)482944895154403548Rat
634347Hcar8Hepatocarcinoma resistance QTL 85.8liver integrity trait (VT:0010547)liver tumorous lesion area to total liver area ratio (CMO:0001075)4124700988169700988Rat
2303168Bp330Blood pressure QTL 3304.250.017arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)45889999148002343Rat
738031Alc14Alcohol consumption QTL 147.60.00003consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)460916264174095838Rat
61476Aia3Adjuvant induced arthritis QTL 33.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)475939858140508796Rat
1576316Ept5Estrogen-induced pituitary tumorigenesis QTL 53.8pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)4100752691179366077Rat
1581566Eae21Experimental allergic encephalomyelitis QTL 216.2body mass (VT:0001259)maximum body weight loss to initial body weight ratio (CMO:0001400)4137447185182447185Rat
1576305Emca6Estrogen-induced mammary cancer QTL 65.8mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)445429709157555683Rat
1578674Bmd12Bone mineral density QTL 123.8femur mineral mass (VT:0010011)compact volumetric bone mineral density (CMO:0001730)4137430611182430611Rat
738016Alc16Alcohol consumption QTL 163.60.00015consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)460916264184426481Rat
1358202Gluco11Glucose level QTL 112.40.02adipocyte glucose uptake trait (VT:0004185)absolute change in adipocyte glucose uptake (CMO:0000873)486709649168870974Rat
61422Cia13Collagen induced arthritis QTL 134.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4134199006168870974Rat
1354660Salc1Saline consumption QTL 111.26drinking behavior trait (VT:0001422)saline drink intake rate (CMO:0001627)445429897149763204Rat
737978Pia23Pristane induced arthritis QTL 235.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4123870974168870974Rat
631674Iddm14Insulin dependent diabetes mellitus QTL 14blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)465495851159259805Rat
2293840Kiddil9Kidney dilation QTL 92.9kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)4113634167149763391Rat
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)4116184844161184844Rat
70201Gcr1Gastric cancer resistance QTL 12.7stomach morphology trait (VT:0000470)stomach tumor susceptibility score (CMO:0002043)4103834277148834277Rat
70200Alc18Alcohol consumption QTL 189.2drinking behavior trait (VT:0001422)ethanol intake volume to total fluid intake volume ratio (CMO:0001591)457613339151163960Rat
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)4121020385148834277Rat
2316958Gluco58Glucose level QTL 5810blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)412212457182430611Rat

Markers in Region
D4Rat104  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24137,755,016 - 137,755,168 (+)MAPPERmRatBN7.2
Rnor_6.04136,908,430 - 136,908,581NCBIRnor6.0
Rnor_5.04201,377,951 - 201,378,102UniSTSRnor5.0
RGSC_v3.44140,454,609 - 140,454,760UniSTSRGSC3.4
RGSC_v3.44140,454,608 - 140,454,760RGDRGSC3.4
Celera4126,495,820 - 126,495,971UniSTS
RGSC_v3.14140,699,449 - 140,699,601RGD
RH 3.4 Map4863.0UniSTS
RH 3.4 Map4863.0RGD
RH 2.0 Map4916.7RGD
SHRSP x BN Map463.44RGD
FHH x ACI Map481.32RGD
Cytogenetic Map4q41UniSTS
D4Got106  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24137,673,168 - 137,673,321 (+)MAPPERmRatBN7.2
Rnor_6.04136,827,355 - 136,827,507NCBIRnor6.0
Rnor_5.04201,296,876 - 201,297,028UniSTSRnor5.0
RGSC_v3.44140,372,594 - 140,372,746UniSTSRGSC3.4
RGSC_v3.44140,372,593 - 140,372,746RGDRGSC3.4
Celera4126,414,635 - 126,414,787UniSTS
RGSC_v3.14140,617,435 - 140,617,587RGD
RH 3.4 Map4859.0UniSTS
RH 3.4 Map4859.0RGD
RH 2.0 Map4935.0RGD
Cytogenetic Map4q41UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
6 4 50 114 13 22 7 2 7 5 107 53 109 37 55 15 11 11

Sequence


Ensembl Acc Id: ENSRNOT00000051645   ⟹   ENSRNOP00000047690
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl4138,911,380 - 139,307,336 (+)Ensembl
mRatBN7.2 Ensembl4137,355,367 - 137,751,119 (+)Ensembl
Rnor_6.0 Ensembl4136,512,201 - 136,904,355 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000088070   ⟹   ENSRNOP00000070713
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl4136,676,254 - 136,904,224 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000150091   ⟹   ENSRNOP00000106747
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl4138,911,380 - 139,311,816 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000159155   ⟹   ENSRNOP00000110272
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl4138,911,380 - 139,307,336 (+)Ensembl
RefSeq Acc Id: NM_013225   ⟹   NP_037357
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84138,911,567 - 139,307,294 (+)NCBI
mRatBN7.24137,355,367 - 137,751,119 (+)NCBI
Rnor_6.04136,512,201 - 136,904,355 (+)NCBI
Rnor_5.04200,983,505 - 201,373,876 (+)NCBI
RGSC_v3.44140,078,007 - 140,450,348 (+)RGD
Celera4126,104,412 - 126,491,956 (+)RGD
Sequence:
RefSeq Acc Id: XM_039107156   ⟹   XP_038963084
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84138,911,090 - 139,307,339 (+)NCBI
mRatBN7.24137,354,886 - 137,751,712 (+)NCBI
Protein Sequences
Protein RefSeqs NP_037357 (Get FASTA)   NCBI Sequence Viewer  
  XP_038963084 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein BAA13320 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000047690
  ENSRNOP00000047690.5
GenBank Protein P97528 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_037357   ⟸   NM_013225
- Peptide Label: precursor
- UniProtKB: P97528 (UniProtKB/Swiss-Prot),   F1LRK7 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000047690   ⟸   ENSRNOT00000051645
Ensembl Acc Id: ENSRNOP00000070713   ⟸   ENSRNOT00000088070
RefSeq Acc Id: XP_038963084   ⟸   XM_039107156
- Peptide Label: isoform X1
- UniProtKB: P97528 (UniProtKB/Swiss-Prot),   F1LRK7 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000106747   ⟸   ENSRNOT00000150091
Ensembl Acc Id: ENSRNOP00000110272   ⟸   ENSRNOT00000159155
Protein Domains
Fibronectin type-III   Ig-like   Ig-like C2-type

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P97528-F1-model_v2 AlphaFold P97528 1-1028 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:62008 AgrOrtholog
BioCyc Gene G2FUF-43482 BioCyc
Ensembl Genes ENSRNOG00000032517 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000051645 ENTREZGENE
  ENSRNOT00000051645.5 UniProtKB/Swiss-Prot
Gene3D-CATH 2.60.40.10 UniProtKB/Swiss-Prot
InterPro FN3_dom UniProtKB/Swiss-Prot
  FN3_sf UniProtKB/Swiss-Prot
  Ig-like_dom UniProtKB/Swiss-Prot
  Ig-like_dom_sf UniProtKB/Swiss-Prot
  Ig-like_fold UniProtKB/Swiss-Prot
  Ig_I-set UniProtKB/Swiss-Prot
  Ig_sub UniProtKB/Swiss-Prot
  Ig_sub2 UniProtKB/Swiss-Prot
KEGG Report rno:27256 UniProtKB/Swiss-Prot
NCBI Gene Cntn6 ENTREZGENE
PANTHER CONTACTIN 6 UniProtKB/Swiss-Prot
  PROTEIN SIDEKICK UniProtKB/Swiss-Prot
Pfam fn3 UniProtKB/Swiss-Prot
  I-set UniProtKB/Swiss-Prot
  Ig_3 UniProtKB/Swiss-Prot
PhenoGen Cntn6 PhenoGen
PROSITE FN3 UniProtKB/Swiss-Prot
  IG_LIKE UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000032517 RatGTEx
SMART FN3 UniProtKB/Swiss-Prot
  IGc2 UniProtKB/Swiss-Prot
  SM00409 UniProtKB/Swiss-Prot
Superfamily-SCOP SSF48726 UniProtKB/Swiss-Prot
  SSF49265 UniProtKB/Swiss-Prot
UniProt A0ABK0LHD0_RAT UniProtKB/TrEMBL
  A0ABK0LPG0_RAT UniProtKB/TrEMBL
  CNTN6_RAT UniProtKB/Swiss-Prot
  F1LRK7 ENTREZGENE, UniProtKB/TrEMBL
  P97528 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2002-06-10 Cntn6  contactin 6      Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_expression mRNA expressed in spinal cord, cerebrum, and cerebellum 61556
gene_protein predicted protein consists of 1028 aa residues 61556