Cntnap1 (contactin associated protein 1) - Rat Genome Database

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Gene: Cntnap1 (contactin associated protein 1) Rattus norvegicus
Analyze
Symbol: Cntnap1
Name: contactin associated protein 1
RGD ID: 70902
Description: Enables SH3 domain binding activity. Predicted to be involved in several processes, including myelination; neuronal action potential propagation; and synapse organization. Predicted to act upstream of or within neuron projection development. Located in paranode region of axon. Is integral component of membrane. Is active in presynaptic active zone membrane. Human ortholog(s) of this gene implicated in lethal congenital contracture syndrome. Orthologous to human CNTNAP1 (contactin associated protein 1); INTERACTS WITH 17beta-estradiol 3-benzoate; 6-propyl-2-thiouracil; ammonium chloride.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: Caspr; caspr1; contactin-associated protein 1; neurexin 4; neurexin IV; neurexin-4; p190; paranodin
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
mRatBN7.21086,109,850 - 86,125,612 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1086,111,643 - 86,125,611 (+)Ensembl
Rnor_6.01089,087,904 - 89,103,615 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1089,089,646 - 89,103,614 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01088,888,142 - 88,902,111 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41090,185,756 - 90,210,837 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11090,212,559 - 90,225,201 (+)NCBI
Celera1084,829,245 - 84,843,011 (+)NCBICelera
Cytogenetic Map10q31NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


References

References - curated
# Reference Title Reference Citation
1. Neurofascin is a glial receptor for the paranodin/Caspr-contactin axonal complex at the axoglial junction. Charles P, etal., Curr Biol 2002 Feb 5;12(3):217-20.
2. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. Paranodin, a glycoprotein of neuronal paranodal membranes. Menegoz M, etal., Neuron 1997 Aug;19(2):319-31.
4. Gene Data Set MGD Curation, June 12, 2002
5. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
6. The proteome of the presynaptic active zone: from docked synaptic vesicles to adhesion molecules and maxi-channels. Morciano M, etal., J Neurochem. 2009 Feb;108(3):662-75. doi: 10.1111/j.1471-4159.2008.05824.x.
7. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
8. Contactin-associated protein (Caspr) 2 interacts with carboxypeptidase E in the CNS. Oiso S, etal., J Neurochem. 2009 Apr;109(1):158-67. Epub 2009 Jan 23.
9. Identification of a novel contactin-associated transmembrane receptor with multiple domains implicated in protein-protein interactions. Peles E, etal., EMBO J 1997 Mar 3;16(5):978-88.
10. Juxtaparanodal clustering of Shaker-like K+ channels in myelinated axons depends on Caspr2 and TAG-1. Poliak S, etal., J Cell Biol. 2003 Sep 15;162(6):1149-60. Epub 2003 Sep 8.
11. Caspr2, a new member of the neurexin superfamily, is localized at the juxtaparanodes of myelinated axons and associates with K+ channels. Poliak S, etal., Neuron. 1999 Dec;24(4):1037-47.
12. GOA pipeline RGD automated data pipeline
13. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:8889548   PMID:9396755   PMID:11512672   PMID:12975355   PMID:14592966   PMID:15102918   PMID:16551741   PMID:17634366   PMID:19170162   PMID:19458237   PMID:19816196   PMID:20188654  
PMID:21031018   PMID:21700703   PMID:22223644   PMID:24319099   PMID:25378149   PMID:27583434   PMID:27818385   PMID:28374019   PMID:29476059   PMID:29895952   PMID:30010864  


Genomics

Comparative Map Data
Cntnap1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21086,109,850 - 86,125,612 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1086,111,643 - 86,125,611 (+)Ensembl
Rnor_6.01089,087,904 - 89,103,615 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1089,089,646 - 89,103,614 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01088,888,142 - 88,902,111 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41090,185,756 - 90,210,837 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11090,212,559 - 90,225,201 (+)NCBI
Celera1084,829,245 - 84,843,011 (+)NCBICelera
Cytogenetic Map10q31NCBI
CNTNAP1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381742,682,531 - 42,699,993 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1742,682,531 - 42,699,993 (+)EnsemblGRCh38hg38GRCh38
GRCh371740,834,549 - 40,852,011 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361738,088,158 - 38,105,358 (+)NCBINCBI36hg18NCBI36
Build 341738,088,157 - 38,105,358NCBI
Celera1737,490,091 - 37,507,480 (+)NCBI
Cytogenetic Map17q21.2NCBI
HuRef1736,599,698 - 36,617,086 (+)NCBIHuRef
CHM1_11741,070,271 - 41,087,626 (+)NCBICHM1_1
T2T-CHM13v2.01743,539,668 - 43,557,130 (+)NCBI
Cntnap1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3911101,065,429 - 101,081,550 (+)NCBIGRCm39mm39
GRCm39 Ensembl11101,061,349 - 101,081,550 (+)Ensembl
GRCm3811101,174,617 - 101,190,724 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl11101,170,523 - 101,190,724 (+)EnsemblGRCm38mm10GRCm38
MGSCv3711101,037,431 - 101,052,034 (+)NCBIGRCm37mm9NCBIm37
MGSCv3611100,988,649 - 101,005,937 (+)NCBImm8
Celera11112,472,244 - 112,486,836 (+)NCBICelera
Cytogenetic Map11DNCBI
Cntnap1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495545116,536,416 - 16,547,213 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495545116,535,924 - 16,547,800 (+)NCBIChiLan1.0ChiLan1.0
CNTNAP1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11714,842,577 - 14,858,896 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1714,842,577 - 14,858,896 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01714,618,294 - 14,635,193 (-)NCBIMhudiblu_PPA_v0panPan3
CNTNAP1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1920,293,184 - 20,307,708 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl920,293,170 - 20,307,662 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha919,755,142 - 19,769,755 (-)NCBI
ROS_Cfam_1.0921,012,211 - 21,026,834 (-)NCBI
ROS_Cfam_1.0 Ensembl921,012,224 - 21,026,866 (-)Ensembl
UMICH_Zoey_3.1919,798,156 - 19,812,758 (-)NCBI
UNSW_CanFamBas_1.0920,063,318 - 20,077,931 (-)NCBI
UU_Cfam_GSD_1.0920,167,329 - 20,181,942 (-)NCBI
Cntnap1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560219,645,016 - 19,662,302 (-)NCBI
SpeTri2.0NW_00493649017,412,837 - 17,430,123 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CNTNAP1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1220,141,641 - 20,157,044 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11220,141,222 - 20,157,341 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21220,378,999 - 20,386,573 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CNTNAP1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11663,590,043 - 63,606,805 (-)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl1663,591,119 - 63,607,579 (-)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366607734,383,133 - 34,399,997 (-)NCBIVero_WHO_p1.0
Cntnap1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247951,470,760 - 1,481,973 (-)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_0046247951,470,234 - 1,482,066 (-)NCBIHetGla_female_1.0hetGla2

Position Markers
BE108457  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21086,113,966 - 86,114,138 (+)MAPPERmRatBN7.2
Rnor_6.01089,091,970 - 89,092,141NCBIRnor6.0
Rnor_5.01088,890,466 - 88,890,637UniSTSRnor5.0
RGSC_v3.41090,199,189 - 90,199,360UniSTSRGSC3.4
Celera1084,831,368 - 84,831,539UniSTS
RH 3.4 Map10834.2UniSTS
Cytogenetic Map10q32.1UniSTS
RH140759  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21086,125,242 - 86,125,483 (+)MAPPERmRatBN7.2
Rnor_6.01089,103,246 - 89,103,486NCBIRnor6.0
Rnor_5.01088,901,742 - 88,901,982UniSTSRnor5.0
RGSC_v3.41090,210,468 - 90,210,708UniSTSRGSC3.4
Celera1084,842,642 - 84,842,882UniSTS
RH 3.4 Map10877.1UniSTS
Cytogenetic Map10q32.1UniSTS
BE097407  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21086,109,055 - 86,109,220 (+)MAPPERmRatBN7.2
Rnor_6.01089,087,061 - 89,087,225NCBIRnor6.0
Rnor_5.01088,885,557 - 88,885,721UniSTSRnor5.0
RGSC_v3.41090,194,281 - 90,194,445UniSTSRGSC3.4
Celera1084,826,630 - 84,826,794UniSTS
RH 3.4 Map10836.2UniSTS
Cytogenetic Map10q32.1UniSTS
BM391105  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21086,110,411 - 86,110,562 (+)MAPPERmRatBN7.2
Rnor_6.01089,088,417 - 89,088,567NCBIRnor6.0
Rnor_5.01088,886,913 - 88,887,063UniSTSRnor5.0
RGSC_v3.41090,195,637 - 90,195,787UniSTSRGSC3.4
Celera1084,827,986 - 84,828,136UniSTS
RH 3.4 Map10834.1UniSTS
Cytogenetic Map10q32.1UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10635789696121100Rat
2303118Mamtr7Mammary tumor resistance QTL 70.003mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)109658275104670812Rat
2301967Cm73Cardiac mass QTL 734.55heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)101448701189062041Rat
631268Cia21Collagen induced arthritis QTL 213.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1014487011104060283Rat
2316949Gluco60Glucose level QTL 603.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1014487011107057807Rat
1554317Bmd4Bone mineral density QTL 49.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)101981604299406971Rat
724556Pur2Proteinuria QTL 25.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)102242750090627625Rat
61354Pia10Pristane induced arthritis QTL 100.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
631267Cia20Collagen induced arthritis QTL 203.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
61325Aia5Adjuvant induced arthritis QTL 50.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
1298069Bp168Blood pressure QTL 1685.5blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)102652195798003205Rat
631542Bp82Blood pressure QTL 826.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)102652195798952741Rat
1331791Cm31Cardiac mass QTL 313.84606heart mass (VT:0007028)heart wet weight (CMO:0000069)1029299504107211142Rat
1576308Schws1Schwannoma susceptibility QTL 10.0041nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)1040035094102359817Rat
631269Cia22Collagen induced arthritis QTL 228.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1040035094104060283Rat
631270Cia23Collagen induced arthritis QTL 233.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1040035094104060283Rat
631552Vetf2Vascular elastic tissue fragility QTL 24.50.0002aorta elastic tissue integrity trait (VT:0010556)artery internal elastic lamina non-tumorous lesion count (CMO:0001913)104114263386142633Rat
61463Bp12Blood pressure QTL 126.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)104133325886333258Rat
1298078Stresp5Stress response QTL 52.990.00025blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)1042045676104670812Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)14232313287323132Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)14232313287323132Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)14232313287323132Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)14232313287323132Rat
70198BpQTLcluster9Blood pressure QTL cluster 92.94arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)104232313287323132Rat
9589030Epfw9Epididymal fat weight QTL 919.240.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)104444169989441699Rat
7411614Foco18Food consumption QTL 180.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)104444169989441699Rat
8694173Bw149Body weight QTL 1494.380.001body mass (VT:0001259)body weight gain (CMO:0000420)104444169989441699Rat
2300218Hpcl2Hepatic cholesterol level QTL 2liver cholesterol amount (VT:0010498)liver cholesterol level (CMO:0001597)104502965095600334Rat
631547Bp87Blood pressure QTL 874.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)104736947092369470Rat
1549846Scl47Serum cholesterol level QTL 473.6blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)105057470795574707Rat
70364Bp72Blood pressure QTL 72arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)105112110096121100Rat
61387Bp1Blood pressure QTL 15.1arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1051770177107211142Rat
61387Bp1Blood pressure QTL 15.1arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)1051770177107211142Rat
1359017Hrtrt21Heart rate QTL 212.4heart pumping trait (VT:2000009)heart rate (CMO:0000002)105177294096772940Rat
631530Tls3T-lymphoma susceptibility QTL 300.0001thymus integrity trait (VT:0010555)percentage of study population developing T-cell lymphomas during a period of time (CMO:0001911)105177461295600334Rat
631535Cm51Cardiac mass QTL 513heart mass (VT:0007028)calculated heart weight (CMO:0000073)105178628291669536Rat
70171Cari1Carrageenan-induced inflammation QTL 14.90.0005hypodermis integrity trait (VT:0010550)inflammatory exudate volume (CMO:0001429)1053797385107211142Rat
70164Bw21Body weight QTL 214.360.00005body mass (VT:0001259)body weight (CMO:0000012)105379749498952626Rat
1354608Cm33Cardiac mass QTL 332.8heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)105480929299809292Rat
2312662Slep8Serum leptin concentration QTL 80.05blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)1057134272102134272Rat
2312668Scl65Serum cholesterol level QTL 650.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1057134272102134272Rat
2312672Insul15Insulin level QTL 150.01blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1057134272102134272Rat
1549831Bss6Bone structure and strength QTL 64lumbar vertebra strength trait (VT:0010574)vertebra ultimate force (CMO:0001678)1057576521102576521Rat
2293698Bss43Bone structure and strength QTL 435.330.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra cross-sectional area (CMO:0001689)1059209888104209888Rat
2306970Anxrr22Anxiety related response QTL 225.95fear/anxiety-related behavior trait (VT:1000241)number of periods of voluntary immobility (CMO:0001045)106134527698211570Rat
6893336Cm75Cardiac mass QTL 750.10.87heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)106134527699703528Rat
1558643Cm44Cardiac mass QTL 444.80.0000368heart mass (VT:0007028)heart wet weight (CMO:0000069)106134527699703528Rat
2313103Bss80Bone structure and strength QTL 8020.0001tibia strength trait (VT:1000284)tibia midshaft endosteal cross-sectional area (CMO:0001716)1062057807107057807Rat
2313105Bss79Bone structure and strength QTL 791.80.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)1062057807107057807Rat
61449Ciaa2CIA Autoantibody QTL 27.1blood autoantibody amount (VT:0003725)calculated serum anti-type 2 collagen antibody titer (CMO:0001279)1063221094107211142Rat
1357344Bp249Blood pressure QTL 2490.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)106674365598003205Rat
2317029Aia19Adjuvant induced arthritis QTL 192.98joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)1066978955107211142Rat
2317039Aia6Adjuvant induced arthritis QTL 64.31joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)1066978955107211142Rat
10450498Bp384Blood pressure QTL 3840.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1067750049107211142Rat
1642980Bp300Blood pressure QTL 300arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1068383129107211142Rat
61396Bp9Blood pressure QTL 94.80.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1068420376107211142Rat
2300172Bmd57Bone mineral density QTL 579.80.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)1069738412107211142Rat
2293646Bss25Bone structure and strength QTL 2510.960.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1069738412107211142Rat
2293663Bss33Bone structure and strength QTL 339.340.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1069738412107211142Rat
6893366Bw106Body weight QTL 1060.30.47body mass (VT:0001259)body weight (CMO:0000012)1070199100107211142Rat
70193Mcs7Mammary carcinoma susceptibility QTL 72.38mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)1072224939107211142Rat
2298548Neuinf7Neuroinflammation QTL 73.4nervous system integrity trait (VT:0010566)spinal cord RT1-B protein level (CMO:0002132)1072224939107211142Rat
2306793Ean5Experimental allergic neuritis QTL 54.7nervous system integrity trait (VT:0010566)IFNG-secreting splenocyte count (CMO:0002122)107255241693995749Rat
1358188Ept9Estrogen-induced pituitary tumorigenesis QTL 93.9pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)107345313696120911Rat
2292617Ept18Estrogen-induced pituitary tumorigenesis QTL 183.9pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)107345313696120911Rat
1579919Bp281Blood pressure QTL 2810.01arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)107437208494965338Rat
631537Oia4Oil induced arthritis QTL 4joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)107563188787055282Rat
10450495Bp383Blood pressure QTL 3830.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)107624608594965338Rat
2292438Bp311Blood pressure QTL 311arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1076246085107211142Rat
1302404Cia27Collagen induced arthritis QTL 272.60.0045joint integrity trait (VT:0010548)experimental arthritis severity measurement (CMO:0001459)1076452683107211142Rat
4889492Pancm2Pancreatic morphology QTL 23.2pancreatic beta cell morphology trait (VT:0005217)ratio of insulin-positive cell area to total area of splenic region of pancreas (CMO:0001814)1076748906107211142Rat
1300107Rf18Renal function QTL 183.41urine output (VT:0003620)timed urine volume (CMO:0000260)107877551698279596Rat
1358915Stresp7Stress response QTL 73.52blood norepinephrine amount (VT:0005663)plasma norepinephrine level (CMO:0001010)107889965587307728Rat
631555Bp134Blood pressure QTL 1340.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)108051528791230079Rat
6893357Bw102Body weight QTL 1020.50.36body mass (VT:0001259)body weight (CMO:0000012)1080515287101325465Rat
2303589Bw87Body weight QTL 872body mass (VT:0001259)body weight (CMO:0000012)1081285008107211142Rat
4889948Bss91Bone structure and strength QTL 914tibia area (VT:1000281)tibia midshaft total cross-sectional area (CMO:0001715)108256485692369470Rat
2317754Glom25Glomerulus QTL 253.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)1082685200107211142Rat
12880055Am11Aortic mass QTL 110.004aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)108400727295933025Rat
2301398Kidm38Kidney mass QTL 380.002kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)108400727295933025Rat
2306792Ean4Experimental allergic neuritis QTL 44nervous system integrity trait (VT:0010566)IFNG-secreting splenocyte count (CMO:0002122)108402232193995963Rat
1600367Mcs15Mammary carcinoma susceptibility QTL 154.5mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)1085565469103884409Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:519
Count of miRNA genes:218
Interacting mature miRNAs:280
Transcripts:ENSRNOT00000027505
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.


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 31 40 26 25
Low 3 12 30 14 19 14 8 10 34 9 16 11 8
Below cutoff 27 27 27 1

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_032061 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006247431 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008768122 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008768123 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008768124 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017597554 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017597555 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086960 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086961 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086962 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086963 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086964 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086965 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AF000114 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BF393814 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CB610334 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473948 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000220 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U87224 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000027505   ⟹   ENSRNOP00000027505
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1086,111,643 - 86,125,611 (+)Ensembl
Rnor_6.0 Ensembl1089,089,646 - 89,103,614 (+)Ensembl
RefSeq Acc Id: NM_032061   ⟹   NP_114450
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21086,111,643 - 86,125,612 (+)NCBI
Rnor_6.01089,089,646 - 89,103,615 (+)NCBI
Rnor_5.01088,888,142 - 88,902,111 (+)NCBI
RGSC_v3.41090,185,756 - 90,210,837 (+)RGD
Celera1084,829,245 - 84,843,011 (+)RGD
Sequence:
RefSeq Acc Id: XM_006247431   ⟹   XP_006247493
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21086,112,013 - 86,125,612 (+)NCBI
Rnor_6.01089,089,911 - 89,103,609 (+)NCBI
Rnor_5.01088,888,142 - 88,902,111 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008768122   ⟹   XP_008766344
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21086,111,618 - 86,125,612 (+)NCBI
Rnor_6.01089,089,622 - 89,103,609 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008768123   ⟹   XP_008766345
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21086,110,141 - 86,125,612 (+)NCBI
Rnor_6.01089,088,186 - 89,103,609 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008768124   ⟹   XP_008766346
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21086,109,850 - 86,125,612 (+)NCBI
Rnor_6.01089,087,904 - 89,103,609 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017597555   ⟹   XP_017453044
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21086,112,126 - 86,125,612 (+)NCBI
Rnor_6.01089,089,911 - 89,103,609 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039086960   ⟹   XP_038942888
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21086,111,618 - 86,125,612 (+)NCBI
RefSeq Acc Id: XM_039086961   ⟹   XP_038942889
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21086,112,012 - 86,125,612 (+)NCBI
RefSeq Acc Id: XM_039086962   ⟹   XP_038942890
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21086,110,141 - 86,125,612 (+)NCBI
RefSeq Acc Id: XM_039086963   ⟹   XP_038942891
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21086,109,850 - 86,125,612 (+)NCBI
RefSeq Acc Id: XM_039086964   ⟹   XP_038942892
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21086,110,141 - 86,125,612 (+)NCBI
RefSeq Acc Id: XM_039086965   ⟹   XP_038942893
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21086,112,011 - 86,125,612 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_114450   ⟸   NM_032061
- Peptide Label: precursor
- UniProtKB: P97846 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006247493   ⟸   XM_006247431
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_008766346   ⟸   XM_008768124
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_008766345   ⟸   XM_008768123
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_008766344   ⟸   XM_008768122
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017453044   ⟸   XM_017597555
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: ENSRNOP00000027505   ⟸   ENSRNOT00000027505
RefSeq Acc Id: XP_038942891   ⟸   XM_039086963
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038942890   ⟸   XM_039086962
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038942892   ⟸   XM_039086964
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038942888   ⟸   XM_039086960
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038942893   ⟸   XM_039086965
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038942889   ⟸   XM_039086961
- Peptide Label: isoform X3
Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P97846-F1-model_v2 AlphaFold P97846 1-1381 view protein structure

Transcriptome

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


Strain Variation

Strain Sequence Variants (MRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Damaging Variants


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
10 89087941 89087942 T G snv SR/JrHsd (MCW)
10 89087977 89087978 C T snv BN/SsN (MCW)


Assembly: RGSC_v3.4

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
10 90195161 90195162 T G snv SR/JrHsd (MCW)
10 90195197 90195198 C T snv BN/SsN (KNAW)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:70902 AgrOrtholog
BioCyc Gene G2FUF-23194 BioCyc
Ensembl Genes ENSRNOG00000020277 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000027505 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000027505 ENTREZGENE, UniProtKB/Swiss-Prot
InterPro Caspr1 UniProtKB/Swiss-Prot
  ConA-like_dom_sf UniProtKB/Swiss-Prot
  EGF-like_dom UniProtKB/Swiss-Prot
  FA58C UniProtKB/Swiss-Prot
  Fibrinogen-like_C UniProtKB/Swiss-Prot
  Fibrinogen_a/b/g_C_dom UniProtKB/Swiss-Prot
  Galactose-bd-like_sf UniProtKB/Swiss-Prot
  Laminin_G UniProtKB/Swiss-Prot
  Neurexin-like UniProtKB/Swiss-Prot
KEGG Report rno:84008 UniProtKB/Swiss-Prot
NCBI Gene 84008 ENTREZGENE
PANTHER PTHR15036:SF43 UniProtKB/Swiss-Prot
Pfam F5_F8_type_C UniProtKB/Swiss-Prot
  Laminin_G_2 UniProtKB/Swiss-Prot
PhenoGen Cntnap1 PhenoGen
PROSITE EGF_3 UniProtKB/Swiss-Prot
  FA58C_1 UniProtKB/Swiss-Prot
  FA58C_2 UniProtKB/Swiss-Prot
  FA58C_3 UniProtKB/Swiss-Prot
  FIBRINOGEN_C_2 UniProtKB/Swiss-Prot
  LAM_G_DOMAIN UniProtKB/Swiss-Prot
SMART 4.1m UniProtKB/Swiss-Prot
  FA58C UniProtKB/Swiss-Prot
  LamG UniProtKB/Swiss-Prot
Superfamily-SCOP SSF49785 UniProtKB/Swiss-Prot
  SSF49899 UniProtKB/Swiss-Prot
  SSF56496 UniProtKB/Swiss-Prot
UniProt CNTP1_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2002-07-09 Cntnap1  contactin associated protein 1      Symbol and Name updated to reflect Human and Mouse nomenclature 70877 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_physical_interaction binds the cytoskeletal-anchoring protein 4.1 727622