Cntnap2 (contactin associated protein 2) - Rat Genome Database

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Gene: Cntnap2 (contactin associated protein 2) Rattus norvegicus
Analyze
Symbol: Cntnap2
Name: contactin associated protein 2
RGD ID: 1307076
Description: Exhibits ion channel binding activity and protease binding activity. Predicted to be involved in several processes, including nervous system development; protein localization to juxtaparanode region of axon; and vocal learning. Localizes to several cellular components, including main axon; neuronal cell body; and synaptic membrane. Used to study visual epilepsy. Human ortholog(s) of this gene implicated in several diseases, including Pitt-Hopkins syndrome; autism spectrum disorder (multiple); communication disorder (multiple); cortical dysplasia-focal epilepsy syndrome; and social phobia. Orthologous to human CNTNAP2 (contactin associated protein 2); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; bisphenol A; tetrachloromethane.
Type: protein-coding
RefSeq Status: MODEL
Also known as: contactin associated protein-like 2; contactin-associated protein-like 2; LOC100364190; LOC362355; LOC500105; LOW QUALITY PROTEIN: contactin-associated protein-like 2; mKIAA0868 protein-like; similar to contactin associated protein-like 2 isoform a
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Allele / Splice: Cntnap2em1Sage  
Genetic Models: SD-Cntnap2em1Sage
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2474,109,455 - 76,366,434 (+)NCBI
Rnor_6.0474,700,539 - 77,025,463 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.04140,006,078 - 140,855,979 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.04141,164,125 - 141,697,964 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4474,277,978 - 75,440,178 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1475,661,775 - 75,716,308 (+)NCBI
Celera468,984,397 - 71,173,021 (+)NCBICelera
Cytogenetic Map4q24NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


References

References - curated
1. Arking DE, etal., Am J Hum Genet. 2008 Jan;82(1):160-4. doi: 10.1016/j.ajhg.2007.09.015.
2. Bakkaloglu B, etal., Am J Hum Genet. 2008 Jan;82(1):165-73. doi: 10.1016/j.ajhg.2007.09.017.
3. Camacho-Arroyo I, etal., Life Sci. 2011 Jul 18;89(3-4):123-8. doi: 10.1016/j.lfs.2011.05.008. Epub 2011 Jun 12.
4. Coutinho E, etal., J Neurol Neurosurg Psychiatry. 2017 Sep;88(9):718-721. doi: 10.1136/jnnp-2016-315251. Epub 2017 Jun 1.
5. GOA data from the GO Consortium
6. Ji W, etal., Psychiatry Res. 2013 May 30;207(3):225-8. doi: 10.1016/j.psychres.2012.09.024. Epub 2012 Nov 2.
7. MGD data from the GO Consortium
8. Newbury DF, etal., Behav Genet. 2011 Jan;41(1):90-104. doi: 10.1007/s10519-010-9424-3. Epub 2010 Dec 17.
9. Oiso S, etal., J Neurochem. 2009 Apr;109(1):158-67. Epub 2009 Jan 23.
10. OMIM Disease Annotation Pipeline
11. PeƱagarikano O, etal., Sci Transl Med. 2015 Jan 21;7(271):271ra8. doi: 10.1126/scitranslmed.3010257.
12. Poliak S, etal., Neuron. 1999 Dec;24(4):1037-47.
13. Rendall AR, etal., Behav Brain Res. 2016 Apr 15;303:201-7. doi: 10.1016/j.bbr.2016.02.006. Epub 2016 Feb 9.
14. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
15. RGD automated import pipeline for gene-chemical interactions
16. Scott KE, etal., J Neurosci. 2018 Oct 3;38(40):8588-8604. doi: 10.1523/JNEUROSCI.0759-18.2018. Epub 2018 Aug 20.
17. Stein MB, etal., Biol Psychiatry. 2011 May 1;69(9):825-31. doi: 10.1016/j.biopsych.2010.11.008. Epub 2010 Dec 30.
18. Thomas AM, etal., Sleep. 2017 Jan 1;40(1). doi: 10.1093/sleep/zsw026.
19. Toma C, etal., Psychiatr Genet. 2013 Apr;23(2):82-5. doi: 10.1097/YPG.0b013e32835d6fc6.
20. Vernes SC, etal., N Engl J Med. 2008 Nov 27;359(22):2337-45. doi: 10.1056/NEJMoa0802828. Epub 2008 Nov 5.
21. Zhao YJ, etal., J Child Neurol. 2015 Nov;30(13):1806-11. doi: 10.1177/0883073815581609. Epub 2015 Apr 20.
22. Zweier C, etal., Am J Hum Genet. 2009 Nov;85(5):655-66. doi: 10.1016/j.ajhg.2009.10.004. Epub 2009 Nov 5.
Additional References at PubMed
PMID:11567047   PMID:12963709   PMID:12975355   PMID:18179893   PMID:18760366   PMID:19109503   PMID:19458237   PMID:19706678   PMID:25378149   PMID:25918374  


Genomics

Comparative Map Data
Cntnap2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2474,109,455 - 76,366,434 (+)NCBI
Rnor_6.0474,700,539 - 77,025,463 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.04140,006,078 - 140,855,979 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.04141,164,125 - 141,697,964 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4474,277,978 - 75,440,178 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1475,661,775 - 75,716,308 (+)NCBI
Celera468,984,397 - 71,173,021 (+)NCBICelera
Cytogenetic Map4q24NCBI
CNTNAP2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl7146,116,002 - 148,420,998 (+)EnsemblGRCh38hg38GRCh38
GRCh387146,116,207 - 148,420,998 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh377145,813,893 - 148,118,090 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 367145,444,386 - 147,749,019 (+)NCBINCBI36hg18NCBI36
Build 347145,251,476 - 147,555,734NCBI
Celera7140,486,396 - 142,788,651 (+)NCBI
Cytogenetic Map7q35-q36.1NCBI
HuRef7139,891,239 - 142,197,449 (+)NCBIHuRef
CHM1_17145,822,316 - 148,126,480 (+)NCBICHM1_1
CRA_TCAGchr7v27145,151,433 - 147,456,408 (+)NCBI
Cntnap2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39645,036,995 - 47,278,330 (+)NCBIGRCm39mm39
GRCm39 Ensembl645,036,291 - 47,281,147 (+)Ensembl
GRCm38645,060,061 - 47,301,393 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl645,059,357 - 47,304,213 (+)EnsemblGRCm38mm10GRCm38
MGSCv37645,010,060 - 47,251,387 (+)NCBIGRCm37mm9NCBIm37
MGSCv36644,989,695 - 47,230,955 (+)NCBImm8
Celera644,970,994 - 47,154,076 (+)NCBICelera
Cytogenetic Map6B2.2- B2.3NCBI
Cntnap2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554911,984,050 - 3,981,830 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554911,983,002 - 3,982,510 (+)NCBIChiLan1.0ChiLan1.0
CNTNAP2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.17150,344,805 - 152,632,198 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl7150,345,240 - 152,626,818 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v07137,858,607 - 140,150,820 (+)NCBIMhudiblu_PPA_v0panPan3
CNTNAP2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1162,239,953 - 4,208,718 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl162,243,918 - 4,208,416 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha163,343,504 - 5,308,739 (-)NCBI
ROS_Cfam_1.0162,046,017 - 4,067,208 (-)NCBI
UMICH_Zoey_3.1162,032,477 - 4,003,070 (-)NCBI
UNSW_CanFamBas_1.0161,891,758 - 3,867,350 (-)NCBI
UU_Cfam_GSD_1.0161,896,111 - 3,930,992 (-)NCBI
Cntnap2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244051188,151,620 - 10,043,987 (-)NCBI
SpeTri2.0NW_0049365272,859,442 - 4,748,885 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CNTNAP2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.19109,740,510 - 111,781,144 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.29120,886,243 - 121,579,520 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CNTNAP2
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.121114,741,918 - 116,988,691 (+)NCBI
Vero_WHO_p1.0NW_02366607212,636,077 - 12,937,176 (+)NCBI
Cntnap2
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248007,182,588 - 9,280,407 (-)NCBI

Position Markers
D4Mgh24  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2474,726,182 - 74,726,312 (+)MAPPER
Rnor_6.0475,345,304 - 75,345,433NCBIRnor6.0
Rnor_5.04140,028,016 - 140,028,145UniSTSRnor5.0
RGSC_v3.4473,752,460 - 73,752,590RGDRGSC3.4
RGSC_v3.4473,752,461 - 73,752,590UniSTSRGSC3.4
RGSC_v3.1474,028,591 - 74,028,720RGD
Celera469,583,744 - 69,583,873UniSTS
RH 3.4 Map4470.3UniSTS
RH 3.4 Map4470.3RGD
SHRSP x BN Map437.38UniSTS
SHRSP x BN Map437.38RGD
Cytogenetic Map4q24UniSTS
D4Rat30  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2475,585,004 - 75,585,128 (+)MAPPER
Rnor_6.0476,238,676 - 76,238,799NCBIRnor6.0
Rnor_5.04140,914,997 - 140,915,120UniSTSRnor5.0
RGSC_v3.4474,625,616 - 74,625,985RGDRGSC3.4
RGSC_v3.4474,625,751 - 74,625,874UniSTSRGSC3.4
RGSC_v3.1474,901,881 - 74,902,004RGD
Celera470,423,094 - 70,423,217UniSTS
RH 3.4 Map4466.2UniSTS
RH 3.4 Map4466.2RGD
SHRSP x BN Map437.38UniSTS
SHRSP x BN Map437.38RGD
FHH x ACI Map445.77RGD
Cytogenetic Map4q24UniSTS
D4Rat32  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2476,221,364 - 76,221,504 (+)MAPPER
Rnor_6.0476,884,299 - 76,884,438NCBIRnor6.0
Rnor_5.04141,557,852 - 141,557,991UniSTSRnor5.0
RGSC_v3.4475,299,589 - 75,299,729RGDRGSC3.4
RGSC_v3.4475,299,590 - 75,299,729UniSTSRGSC3.4
RGSC_v3.1475,575,720 - 75,575,859RGD
Celera471,029,761 - 71,029,900UniSTS
RH 3.4 Map4460.8RGD
RH 3.4 Map4460.8UniSTS
RH 2.0 Map4503.9RGD
FHH x ACI Map443.77RGD
Cytogenetic Map4q24UniSTS
D4Rat31  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2475,411,084 - 75,411,258 (+)MAPPER
Rnor_6.0476,047,963 - 76,048,134NCBIRnor6.0
Rnor_5.04140,723,086 - 140,723,257UniSTSRnor5.0
RGSC_v3.4474,445,506 - 74,445,677UniSTSRGSC3.4
RGSC_v3.4474,445,505 - 74,445,677RGDRGSC3.4
RGSC_v3.1474,721,636 - 74,721,807RGD
Celera470,250,387 - 70,250,559UniSTS
RH 3.4 Map4464.8RGD
RH 3.4 Map4464.8UniSTS
RH 2.0 Map4493.7RGD
SHRSP x BN Map437.45RGD
FHH x ACI Map445.77RGD
Cytogenetic Map4q24UniSTS
D4Rat29  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2476,013,530 - 76,013,686 (+)MAPPER
Rnor_6.0476,673,801 - 76,673,956NCBIRnor6.0
Rnor_5.04141,347,405 - 141,347,560UniSTSRnor5.0
RGSC_v3.4475,086,746 - 75,086,902RGDRGSC3.4
RGSC_v3.4475,086,747 - 75,086,902UniSTSRGSC3.4
RGSC_v3.1475,362,877 - 75,363,032RGD
Celera470,836,077 - 70,836,232UniSTS
RH 3.4 Map4466.2RGD
RH 3.4 Map4466.2UniSTS
SHRSP x BN Map437.38UniSTS
SHRSP x BN Map437.38RGD
FHH x ACI Map446.9099RGD
Cytogenetic Map4q24UniSTS
D4Rat213  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2474,825,750 - 74,825,917 (+)MAPPER
Rnor_6.0475,448,682 - 75,448,848NCBIRnor6.0
Rnor_5.04140,129,261 - 140,129,427UniSTSRnor5.0
RGSC_v3.4473,853,685 - 73,853,852RGDRGSC3.4
RGSC_v3.4473,853,686 - 73,853,852UniSTSRGSC3.4
RGSC_v3.1474,129,815 - 74,129,982RGD
Celera469,677,023 - 69,677,189UniSTS
FHH x ACI Map445.77RGD
FHH x ACI Map445.77UniSTS
Cytogenetic Map4q24UniSTS
D4Rat164  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2473,998,166 - 73,998,347 (+)MAPPER
Rnor_6.0474,591,692 - 74,591,870NCBIRnor6.0
Rnor_5.04139,278,566 - 139,278,744UniSTSRnor5.0
RGSC_v3.4473,005,176 - 73,005,355RGDRGSC3.4
RGSC_v3.4473,005,177 - 73,005,355UniSTSRGSC3.4
RGSC_v3.1473,281,307 - 73,281,485RGD
Celera468,877,807 - 68,877,985UniSTS
RH 3.4 Map4443.2RGD
RH 3.4 Map4443.2UniSTS
RH 2.0 Map4465.6RGD
SHRSP x BN Map436.3RGD
Cytogenetic Map4q24UniSTS
D4Arb30  
Rat AssemblyChrPosition (strand)SourceJBrowse
RGSC_v3.4473,972,454 - 73,972,591UniSTSRGSC3.4
RGSC_v3.4473,972,453 - 73,972,591RGDRGSC3.4
RGSC_v3.1474,248,583 - 74,248,721RGD
Celera469,789,851 - 69,789,980UniSTS
RH 3.4 Map4465.4RGD
RH 3.4 Map4465.4UniSTS
RH 2.0 Map4512.0RGD
SHRSP x BN Map437.38RGD
FHH x ACI Map445.77RGD
Cytogenetic Map4q24UniSTS
D4Rat263  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2476,047,610 - 76,047,808 (+)MAPPER
Rnor_6.0476,707,162 - 76,707,359NCBIRnor6.0
Rnor_5.04141,380,766 - 141,380,963UniSTSRnor5.0
RGSC_v3.4475,121,733 - 75,121,931RGDRGSC3.4
RGSC_v3.4475,121,734 - 75,121,931UniSTSRGSC3.4
RGSC_v3.1475,397,864 - 75,398,061RGD
Celera470,861,003 - 70,861,200UniSTS
RH 3.4 Map4457.1RGD
RH 3.4 Map4457.1UniSTS
RH 2.0 Map4509.2RGD
SHRSP x BN Map438.62RGD
Cytogenetic Map4q24UniSTS
D4Got54  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2475,763,961 - 75,764,152 (+)MAPPER
Rnor_6.0476,422,794 - 76,422,984NCBIRnor6.0
Rnor_5.04141,097,257 - 141,097,447UniSTSRnor5.0
RGSC_v3.4474,819,527 - 74,819,718RGDRGSC3.4
RGSC_v3.4474,819,528 - 74,819,718UniSTSRGSC3.4
RGSC_v3.1475,095,657 - 75,095,848RGD
Celera470,593,082 - 70,593,272UniSTS
RH 3.4 Map4461.2UniSTS
RH 3.4 Map4461.2RGD
RH 2.0 Map4513.8RGD
Cytogenetic Map4q24UniSTS
D4Got57  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2475,324,733 - 75,324,869 (+)MAPPER
Rnor_6.0475,961,951 - 75,962,086NCBIRnor6.0
Rnor_5.04140,637,032 - 140,637,167UniSTSRnor5.0
RGSC_v3.4474,358,801 - 74,358,937RGDRGSC3.4
RGSC_v3.4474,358,802 - 74,358,937UniSTSRGSC3.4
RGSC_v3.1474,634,932 - 74,635,067RGD
Celera470,164,353 - 70,164,488UniSTS
RH 3.4 Map4462.8UniSTS
RH 3.4 Map4462.8RGD
RH 2.0 Map4518.4RGD
Cytogenetic Map4q24UniSTS
D4Got56  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2474,506,665 - 74,506,834 (+)MAPPER
Rnor_6.0475,127,593 - 75,127,761NCBIRnor6.0
Rnor_5.04139,810,323 - 139,810,491UniSTSRnor5.0
RGSC_v3.4473,525,824 - 73,525,994RGDRGSC3.4
RGSC_v3.4473,525,826 - 73,525,994UniSTSRGSC3.4
RGSC_v3.1473,801,954 - 73,802,124RGD
Celera469,370,463 - 69,370,641UniSTS
RH 3.4 Map4449.5UniSTS
RH 3.4 Map4449.5RGD
RH 2.0 Map4518.5RGD
Cytogenetic Map4q24UniSTS
D4Got53  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2476,112,515 - 76,112,706 (+)MAPPER
Rnor_6.0476,772,995 - 76,773,185NCBIRnor6.0
Rnor_5.04141,445,977 - 141,446,167UniSTSRnor5.0
RGSC_v3.4475,188,431 - 75,188,626RGDRGSC3.4
RGSC_v3.4475,188,432 - 75,188,626UniSTSRGSC3.4
RGSC_v3.1475,464,562 - 75,464,756RGD
Celera470,925,885 - 70,926,075UniSTS
RH 3.4 Map4464.8RGD
RH 3.4 Map4464.8UniSTS
Cytogenetic Map4q24UniSTS
D4Got55  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2475,591,261 - 75,591,515 (+)MAPPER
Rnor_6.0476,244,952 - 76,245,203NCBIRnor6.0
Rnor_5.04140,920,959 - 140,921,210UniSTSRnor5.0
RGSC_v3.4474,632,585 - 74,632,836UniSTSRGSC3.4
RGSC_v3.4474,632,585 - 74,632,836RGDRGSC3.4
RGSC_v3.1474,908,715 - 74,908,966RGD
Celera470,429,253 - 70,429,504UniSTS
RH 3.4 Map4466.2UniSTS
RH 3.4 Map4466.2RGD
Cytogenetic Map4q24UniSTS
D4Got279  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2474,429,629 - 74,429,764 (+)MAPPER
Rnor_6.0475,040,263 - 75,040,397NCBIRnor6.0
Rnor_5.04139,723,624 - 139,723,758UniSTSRnor5.0
RGSC_v3.4473,446,775 - 73,446,909UniSTSRGSC3.4
Celera469,293,792 - 69,293,926UniSTS
Cytogenetic Map4q24UniSTS
D5Got305  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2474,471,239 - 74,471,355 (+)MAPPER
Rnor_6.0475,081,473 - 75,081,589NCBIRnor6.0
Rnor_5.04139,764,834 - 139,764,950UniSTSRnor5.0
RGSC_v3.4473,489,841 - 73,489,959UniSTSRGSC3.4
Celera469,335,048 - 69,335,167UniSTS
Cytogenetic Map4q24UniSTS
AW523771  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2474,159,507 - 74,159,669 (+)MAPPER
Rnor_6.0474,755,772 - 74,755,933NCBIRnor6.0
Rnor_5.04139,443,183 - 139,443,344UniSTSRnor5.0
RGSC_v3.4473,173,705 - 73,173,866UniSTSRGSC3.4
Celera469,026,257 - 69,026,418UniSTS
RH 3.4 Map4438.6UniSTS
Cytogenetic Map4q24UniSTS
RH142692  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2475,086,690 - 75,086,940 (+)MAPPER
Rnor_6.0475,711,575 - 75,711,824NCBIRnor6.0
Rnor_5.04140,387,135 - 140,387,384UniSTSRnor5.0
RGSC_v3.4474,122,013 - 74,122,262UniSTSRGSC3.4
Celera469,933,817 - 69,934,066UniSTS
RH 3.4 Map4468.4UniSTS
Cytogenetic Map4q24UniSTS
BE095511  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2474,173,920 - 74,174,111 (+)MAPPER
Rnor_6.0474,770,184 - 74,770,374NCBIRnor6.0
Rnor_5.04139,457,595 - 139,457,785UniSTSRnor5.0
RGSC_v3.4473,188,118 - 73,188,308UniSTSRGSC3.4
Celera469,040,672 - 69,040,862UniSTS
RH 3.4 Map4435.0UniSTS
Cytogenetic Map4q24UniSTS
RH137515  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2476,361,071 - 76,361,282 (+)MAPPER
Rnor_6.0477,022,556 - 77,022,766NCBIRnor6.0
Rnor_5.04141,695,057 - 141,695,267UniSTSRnor5.0
RGSC_v3.4475,440,293 - 75,440,503UniSTSRGSC3.4
Celera471,167,659 - 71,167,869UniSTS
Cytogenetic Map4q24UniSTS
RH138106  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2475,086,537 - 75,086,720 (+)MAPPER
Rnor_6.0475,711,422 - 75,711,604NCBIRnor6.0
Rnor_5.04140,386,982 - 140,387,164UniSTSRnor5.0
RGSC_v3.4474,121,860 - 74,122,042UniSTSRGSC3.4
Celera469,933,664 - 69,933,846UniSTS
Cytogenetic Map4q24UniSTS
AU048430  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2475,741,991 - 75,742,100 (+)MAPPER
Rnor_6.0476,400,432 - 76,400,540NCBIRnor6.0
Rnor_5.04141,074,895 - 141,075,003UniSTSRnor5.0
RGSC_v3.4474,797,554 - 74,797,662UniSTSRGSC3.4
Celera470,571,112 - 70,571,220UniSTS
Cytogenetic Map4q24UniSTS
AU049338  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0476,822,528 - 76,822,658NCBIRnor6.0
Rnor_5.04141,496,081 - 141,496,211UniSTSRnor5.0
RGSC_v3.4475,237,432 - 75,237,590UniSTSRGSC3.4
Celera470,967,640 - 70,967,782UniSTS
Cytogenetic Map4q24UniSTS
GDB:1318422  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2476,036,046 - 76,036,234 (+)MAPPER
Rnor_6.0476,695,599 - 76,695,786NCBIRnor6.0
Rnor_5.04141,369,203 - 141,369,390UniSTSRnor5.0
RGSC_v3.4475,110,141 - 75,110,328UniSTSRGSC3.4
Cytogenetic Map4q24UniSTS
px-50f10  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2475,366,050 - 75,366,227 (+)MAPPER
Rnor_6.0476,003,237 - 76,003,413NCBIRnor6.0
Rnor_5.04140,678,318 - 140,678,494UniSTSRnor5.0
RGSC_v3.4474,400,118 - 74,400,294UniSTSRGSC3.4
Celera470,205,666 - 70,205,842UniSTS
Cytogenetic Map4q24UniSTS
G46753  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2474,122,978 - 74,123,242 (+)MAPPER
Rnor_6.0474,714,063 - 74,714,326NCBIRnor6.0
Rnor_5.04139,401,517 - 139,401,780UniSTSRnor5.0
RGSC_v3.4473,134,226 - 73,134,489UniSTSRGSC3.4
Celera468,997,911 - 68,998,174UniSTS
Cytogenetic Map4q24UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
619616Bp79Blood pressure QTL 790.0292arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)4304323179575658Rat
2303168Bp330Blood pressure QTL 3304.250.017arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)43043231145254791Rat
631261Tcas3Tongue tumor susceptibility QTL 36.88tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)4734240492484039Rat
2316958Gluco58Glucose level QTL 5810blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)47850904182171018Rat
10755501Bp390Blood pressure QTL 3902.5arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)423850384169318094Rat
6909122Insul22Insulin level QTL 224.63blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)42399172176238799Rat
6909128Pancm4Pancreatic morphology QTL 411.35pancreas mass (VT:0010144)pancreas wet weight (CMO:0000626)42399172176238799Rat
8655906Rf60Renal function QTL 603.8blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)42665474981874227Rat
12798520Anxrr55Anxiety related response QTL 554.450.01locomotor behavior trait (VT:0001392)number of rearing movements with lid-pushing in an experimental apparatus (CMO:0002715)429549895112807890Rat
8552782Vie1Viral induced encephalitis QTL 126.4brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)43182556083531021Rat
8552801Bw143Body weight QTL 1437.3body mass (VT:0001259)change in body weight to body weight ratio (CMO:0002216)43182556083531021Rat
8552809Vie5Viral induced encephalitis QTL 525.3brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)43182556083531021Rat
8655961Kidm43Kidney mass QTL 4318kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)43427793299067150Rat
1358352Srcrt3Stress Responsive Cort QTL 32.29blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)436615599145611886Rat
1331807Rf31Renal function QTL 312.988urine potassium amount (VT:0010539)urine potassium level (CMO:0000128)43770327275345433Rat
1300139Hrtrt6Heart rate QTL 62.85heart pumping trait (VT:2000009)heart rate (CMO:0000002)437703272115372927Rat
61445Strs3Sensitivity to stroke QTL 33cerebrum integrity trait (VT:0010549)post-insult time to onset of cerebrovascular lesion (CMO:0002343)43920822284208222Rat
8694439Bw168Body weight QTL 1689.570.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)43920824784208247Rat
6893678Bw108Body weight QTL 1082.60.006body mass (VT:0001259)body weight (CMO:0000012)44241577787415777Rat
1576305Emca6Estrogen-induced mammary cancer QTL 65.8mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)443414605155469929Rat
1354660Salc1Saline consumption QTL 111.26drinking behavior trait (VT:0001422)saline drink intake rate (CMO:0001627)443414792146942075Rat
1354612Foco1Food consumption QTL 18.87eating behavior trait (VT:0001431)food intake rate (CMO:0000427)443414792146942075Rat
1298082Stresp4Stress response QTL 4blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)446898276145611886Rat
2312567Glom19Glomerulus QTL 191.90.006kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)449906054145611886Rat
4889969Bss96Bone structure and strength QTL 964.9tibia size trait (VT:0100001)tibia cortical bone volume (CMO:0001725)45532485779575658Rat
4889972Bss97Bone structure and strength QTL 975.6tibia size trait (VT:0100001)tibia total bone volume (CMO:0001724)45532485779575658Rat
5685009Bmd86Bone mineral density QTL 863.7tibia mineral mass (VT:1000283)bone mineral density (CMO:0001226)45532485779575658Rat
5685012Bmd87Bone mineral density QTL 875.1tibia mineral mass (VT:1000283)bone mineral content (CMO:0001554)45532485779575658Rat
70200Alc18Alcohol consumption QTL 189.2drinking behavior trait (VT:0001422)ethanol intake volume to total fluid intake volume ratio (CMO:0001591)455324953148360954Rat
1641833Alc21Alcohol consumption QTL 218.60.0001drinking behavior trait (VT:0001422)ethanol drink intake rate (CMO:0001407)455375865125671711Rat
634311Sach7Saccharin preference QTL 7taste sensitivity trait (VT:0001986)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)45579156482134846Rat
631546Bp86Blood pressure QTL 863.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)45579156492484312Rat
61336Bp21Blood pressure QTL 214.6arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)45579183479557856Rat
1578657Bss12Bone structure and strength QTL 128.9femur morphology trait (VT:0000559)femoral neck cross-sectional area (CMO:0001697)456092756101092756Rat
1578658Bss13Bone structure and strength QTL 138femur strength trait (VT:0010010)femoral neck polar moment of inertia (CMO:0001670)456092756101092756Rat
1558651Swd3Spike wave discharge measurement QTL 34.620.000024brain electrophysiology trait (VT:0010557)brain spike-and-wave discharge frequency (CMO:0001742)45710107792990863Rat
631671Iddm11Insulin dependent diabetes mellitus QTL 113.60.0012blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)45730707579578854Rat
1358363Sradr3Stress Responsive Adrenal Weight QTL 36.19adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)458166424103166424Rat
738009Sach4Saccharine consumption QTL 44.90.000016consumption behavior trait (VT:0002069)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)458640017154427984Rat
738016Alc16Alcohol consumption QTL 163.60.00015consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)458640017154427984Rat
738031Alc14Alcohol consumption QTL 147.60.00003consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)458640017154427984Rat
1549843Bw53Body weight QTL 530.0001body mass (VT:0001259)body weight gain (CMO:0000420)46043912799066957Rat
1549839Bw52Body weight QTL 520.0001body mass (VT:0001259)body weight gain (CMO:0000420)460439127113416139Rat
61418Pia5Pristane induced arthritis QTL 54.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)461038901127777403Rat
7394826Bw126Body weight QTL 1260.002body mass (VT:0001259)body weight gain (CMO:0000420)46170810388565113Rat
8552807Vie4Viral induced encephalitis QTL 47.3brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)46170834183531021Rat
70192BpQTLcluster5Blood pressure QTL cluster 54.183arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)461708341113100992Rat
70192BpQTLcluster5Blood pressure QTL cluster 54.183arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)461708341113100992Rat
70192BpQTLcluster5Blood pressure QTL cluster 54.183arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)461708341113100992Rat
70192BpQTLcluster5Blood pressure QTL cluster 54.183arterial blood pressure trait (VT:2000000)percent change in mean arterial blood pressure (CMO:0002035)461708341113100992Rat
70192BpQTLcluster5Blood pressure QTL cluster 54.183arterial blood pressure trait (VT:2000000)percent change in systolic blood pressure (CMO:0000747)461708341113100992Rat
70192BpQTLcluster5Blood pressure QTL cluster 54.183arterial blood pressure trait (VT:2000000)absolute change in pulse pressure (CMO:0001882)461708341113100992Rat
70192BpQTLcluster5Blood pressure QTL cluster 54.183arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)461708341113100992Rat
2300179Bmd50Bone mineral density QTL 505.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)461975371106975371Rat
1641919Alc22Alcohol consumption QTL 220.0005drinking behavior trait (VT:0001422)ethanol drink intake rate (CMO:0001407)462947687125671711Rat
631674Iddm14Insulin dependent diabetes mellitus QTL 14blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)463537179157286626Rat
6478684Anxrr30Anxiety related response QTL 300.00087defecation behavior trait (VT:0010462)defecation rate (CMO:0000998)463812687108812687Rat
6478743Anxrr40Anxiety related response QTL 400.83076defecation behavior trait (VT:0010462)defecation rate (CMO:0000998)463812687108812687Rat
6478772Anxrr49Anxiety related response QTL 490.15488defecation behavior trait (VT:0010462)defecation rate (CMO:0000998)463812687108812687Rat
631651Bp124Blood pressure QTL 1243arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)463938412108938412Rat
2312569Pur19Proteinuria QTL 193.40.001total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)46598924397759057Rat
61330Eau1Experimental allergic uveoretinitis QTL 10.0003uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)470773471132455556Rat
634344Hcar7Hepatocarcinoma resistance QTL 77.8liver integrity trait (VT:0010547)liver tumorous lesion area to total liver area ratio (CMO:0001075)471476518116476518Rat
634344Hcar7Hepatocarcinoma resistance QTL 77.8liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)471476518116476518Rat
631646Stl4Serum triglyceride level QTL 46.50.0001blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)473786419132455556Rat
724522Bp146Blood pressure QTL 1462.20.0021arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)475258970120258970Rat
2302051Pia28Pristane induced arthritis QTL 285.30.001blood autoantibody amount (VT:0003725)serum immunoglobulin G-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002112)475258970120258970Rat
738015Pia9Pristane induced arthritis QTL 94.50.048joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)476567036121567036Rat


Genetic Models
This gene Cntnap2 is modified in the following models/strains

Expression


Sequence


Reference Sequences
RefSeq Acc Id: XM_008762930   ⟹   XP_008761152
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0474,700,539 - 77,025,463 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008775708   ⟹   XP_008773930
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera468,984,397 - 71,173,021 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039109025   ⟹   XP_038964953
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2474,109,455 - 76,366,434 (+)NCBI
RefSeq Acc Id: XM_039109026   ⟹   XP_038964954
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2475,230,128 - 76,366,434 (+)NCBI
RefSeq Acc Id: XM_039109027   ⟹   XP_038964955
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2475,194,919 - 76,366,434 (+)NCBI
RefSeq Acc Id: XM_039109028   ⟹   XP_038964956
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2475,194,919 - 76,366,434 (+)NCBI
RefSeq Acc Id: XM_039109029   ⟹   XP_038964957
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2476,305,808 - 76,366,434 (+)NCBI
Reference Sequences
RefSeq Acc Id: XP_008773930   ⟸   XM_008775708
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_008761152   ⟸   XM_008762930
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_038964953   ⟸   XM_039109025
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038964956   ⟸   XM_039109028
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038964955   ⟸   XM_039109027
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038964954   ⟸   XM_039109026
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038964957   ⟸   XM_039109029
- Peptide Label: isoform X4

Transcriptome

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


Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1307076 AgrOrtholog
Ensembl Genes ENSRNOG00000006617 ENTREZGENE
NCBI Gene Cntnap2 ENTREZGENE
PhenoGen Cntnap2 PhenoGen


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-05-17 Cntnap2  contactin associated protein-like 2  LOC100364190  mKIAA0868 protein-like  Data Merged 737654 APPROVED
2010-05-06 LOC100364190  mKIAA0868 protein-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2008-04-30 Cntnap2  contactin associated protein-like 2   Cntnap2_predicted  contactin associated protein-like 2 (predicted)  'predicted' is removed 2292626 APPROVED
2006-11-19 LOC500105  similar to contactin associated protein-like 2 isoform a      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-01-12 Cntnap2_predicted  contactin associated protein-like 2 (predicted)      Symbol and Name status set to approved 70820 APPROVED