Whrn (whirlin) - Rat Genome Database

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Gene: Whrn (whirlin) Rattus norvegicus
Analyze
Symbol: Whrn
Name: whirlin
RGD ID: 631330
Description: Enables protein domain specific binding activity. Predicted to be involved in several processes, including detection of mechanical stimulus involved in sensory perception of sound; nervous system development; and paranodal junction maintenance. Predicted to act upstream of or within establishment of localization in cell; establishment of protein localization; and positive regulation of gene expression. Located in several cellular components, including dendrite; stereocilia ankle link; and stereocilium tip. Colocalizes with neuronal cell body; photoreceptor connecting cilium; and photoreceptor inner segment. Human ortholog(s) of this gene implicated in Usher syndrome type 2D; autosomal recessive nonsyndromic deafness 31; and sensorineural hearing loss. Orthologous to human WHRN (whirlin); PARTICIPATES IN auditory mechanotransduction pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,6-dinitrotoluene; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: CASK-interacting protein CIP98; Cip98; deafness, autosomal recessive 31; Dfnb31
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
mRatBN7.2576,828,308 - 76,911,945 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl576,828,301 - 76,912,223 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx579,227,420 - 79,311,432 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0581,044,573 - 81,128,580 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0581,020,074 - 81,104,084 (-)NCBIRnor_WKY
Rnor_6.0579,235,541 - 79,317,206 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl579,234,950 - 79,317,206 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0583,349,720 - 83,431,410 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4580,382,665 - 80,464,817 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1580,387,779 - 80,469,930 (-)NCBI
Celera575,762,917 - 75,845,137 (-)NCBICelera
Cytogenetic Map5q24NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

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. Mechanotransduction by hair cells: models, molecules, and mechanisms. Gillespie PG and Muller U, Cell. 2009 Oct 2;139(1):33-44. doi: 10.1016/j.cell.2009.09.010.
3. Localization of PDZD7 to the stereocilia ankle-link associates this scaffolding protein with the Usher syndrome protein network. Grati M, etal., J Neurosci. 2012 Oct 10;32(41):14288-93. doi: 10.1523/JNEUROSCI.3071-12.2012.
4. Defects in whirlin, a PDZ domain molecule involved in stereocilia elongation, cause deafness in the whirler mouse and families with DFNB31. Mburu P, etal., Nat Genet. 2003 Aug;34(4):421-8.
5. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
6. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
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. The DFNB31 gene product whirlin connects to the Usher protein network in the cochlea and retina by direct association with USH2A and VLGR1. van Wijk E, etal., Hum Mol Genet. 2006 Mar 1;15(5):751-65. Epub 2006 Jan 24.
11. CIP98, a novel PDZ domain protein, is expressed in the central nervous system and interacts with calmodulin-dependent serine kinase. Yap CC, etal., J Neurochem 2003 Apr;85(1):123-34.
Additional References at PubMed
PMID:12124769   PMID:15590698   PMID:15590699   PMID:15654330   PMID:17171570   PMID:17326148   PMID:17567809   PMID:17906286   PMID:20016102   PMID:20502675   PMID:21212183   PMID:24011083  
PMID:24334608   PMID:25406310   PMID:26516054   PMID:27117407  


Genomics

Comparative Map Data
Whrn
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2576,828,308 - 76,911,945 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl576,828,301 - 76,912,223 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx579,227,420 - 79,311,432 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0581,044,573 - 81,128,580 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0581,020,074 - 81,104,084 (-)NCBIRnor_WKY
Rnor_6.0579,235,541 - 79,317,206 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl579,234,950 - 79,317,206 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0583,349,720 - 83,431,410 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4580,382,665 - 80,464,817 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1580,387,779 - 80,469,930 (-)NCBI
Celera575,762,917 - 75,845,137 (-)NCBICelera
Cytogenetic Map5q24NCBI
WHRN
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh389114,402,080 - 114,505,473 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl9114,402,080 - 114,505,473 (-)EnsemblGRCh38hg38GRCh38
GRCh379117,164,360 - 117,267,753 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 369116,204,181 - 116,307,551 (-)NCBINCBI36Build 36hg18NCBI36
Celera987,812,014 - 87,915,400 (-)NCBICelera
Cytogenetic Map9q32NCBI
HuRef986,769,691 - 86,872,943 (-)NCBIHuRef
CHM1_19117,311,097 - 117,414,443 (-)NCBICHM1_1
T2T-CHM13v2.09126,594,499 - 126,697,864 (-)NCBIT2T-CHM13v2.0
Whrn
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39463,333,145 - 63,414,320 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl463,333,147 - 63,414,228 (-)EnsemblGRCm39 Ensembl
GRCm38463,414,908 - 63,496,083 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl463,414,910 - 63,495,991 (-)EnsemblGRCm38mm10GRCm38
MGSCv37463,075,944 - 63,156,985 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36462,901,271 - 62,982,312 (-)NCBIMGSCv36mm8
Celera462,074,390 - 62,155,742 (-)NCBICelera
Cytogenetic Map4B3NCBI
cM Map433.97NCBI
Whrn
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541913,116,001 - 13,207,266 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495541913,116,001 - 13,207,266 (+)NCBIChiLan1.0ChiLan1.0
WHRN
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.19113,863,872 - 113,966,758 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl9113,863,872 - 113,966,758 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0985,500,222 - 85,604,417 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
WHRN
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11168,617,383 - 68,699,824 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1168,617,377 - 68,699,977 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1167,019,883 - 67,101,711 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01169,740,224 - 69,822,125 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1169,740,233 - 69,822,842 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11168,255,680 - 68,337,474 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01168,297,095 - 68,379,026 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01169,026,162 - 69,108,222 (-)NCBIUU_Cfam_GSD_1.0
Whrn
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947183,899,942 - 183,979,707 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364873,669,104 - 3,748,238 (-)EnsemblSpeTri2.0
SpeTri2.0NW_0049364873,668,465 - 3,748,234 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
WHRN
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1255,009,771 - 255,095,222 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11255,009,765 - 255,095,281 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21286,086,617 - 286,113,609 (-)NCBISscrofa10.2Sscrofa10.2susScr3
WHRN
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11225,087,286 - 25,189,982 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1225,087,295 - 25,189,985 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603517,635,394 - 17,737,856 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Whrn
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462476020,700,593 - 20,788,628 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462476020,700,632 - 20,788,628 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Whrn
349 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:97
Count of miRNA genes:78
Interacting mature miRNAs:83
Transcripts:ENSRNOT00000002309
Prediction methods:Microtar, Miranda, Rnahybrid
Result types:miRGate_prediction

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

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


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1331756Rf34Renal function QTL 344.16275kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)5190450412Rat
70212Niddm25Non-insulin dependent diabetes mellitus QTL 253.54blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)51131345958Rat
1331771Rf35Renal function QTL 354.36965kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)572947086724018Rat
1576314Eutr1Estrogen induced uterine response QTL 1uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)52138965166875058Rat
7394712Emca13Estrogen-induced mammary cancer QTL 13mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)5982326699753708Rat
634305Mamtr1Mammary tumor resistance QTL 10.0001mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)512789751113558310Rat
2290448Scl54Serum cholesterol level QTL 542.93blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)531663789131345958Rat
1598807Glom12Glomerulus QTL 122.7kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)53321566578215665Rat
1298067Scl15Serum cholesterol level QTL 154.80.001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)53321566578215665Rat
1302786Kidm8Kidney mass QTL 828.15kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)53321566578215665Rat
1576317Eutr2Estrogen induced uterine response QTL 20.01uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)534730116104251008Rat
2316959Gluco59Glucose level QTL 594.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)534944474113558310Rat
1641912Alcrsp18Alcohol response QTL 18response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)535189153141643988Rat
1549845Scl44Serum cholesterol level QTL 446blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)540128307148607290Rat
1331773Scl26Serum cholesterol level QTL 263.065blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)54372665686724018Rat
1331801Rf33Renal function QTL 334.149kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)543726656129132602Rat
1578766Tcas11Tongue tumor susceptibility QTL 114.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)546711509161317411Rat
1300115Hrtrt7Heart rate QTL 72.76heart pumping trait (VT:2000009)heart rate (CMO:0000002)54786906290099692Rat
9589025Epfw7Epididymal fat weight QTL 720.660.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)54946360094463600Rat
7411561Bw134Body weight QTL 134240.001body mass (VT:0001259)body weight gain (CMO:0000420)54946360094463600Rat
1576312Emca8Estrogen-induced mammary cancer QTL 84.1mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)550328551141643988Rat
2303615Vencon7Ventilatory control QTL 70.001respiration trait (VT:0001943)respiration rate (CMO:0000289)55098389595983895Rat
2303574Gluco42Glucose level QTL 422blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)55349671998496719Rat
61359EaexExperimental allergic encephalomyelitis QTL x3nervous system integrity trait (VT:0010566)post-insult time to onset of experimental autoimmune encephalomyelitis (CMO:0001422)555715622100715622Rat
70189Mcs5Mammary carcinoma susceptibility QTL 510.51mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)555805606132207589Rat
1358895Bp254Blood pressure QTL 2543.60.0003arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)558829236128034027Rat
61426Scl2Serum cholesterol level QTL 27.30.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)559793399143070159Rat
2316954Rf57Renal function QTL 570kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)55979352890450144Rat
2316957Pur21Proteinuria QTL 216.2urine protein amount (VT:0005160)urine protein level (CMO:0000591)559793528113558156Rat
61386Bp49Blood pressure QTL 4916.6cerebrum integrity trait (VT:0010549)brain infarction volume (CMO:0001013)56029343498603051Rat
61393Bp7Blood pressure QTL 74.50.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)560293434161481680Rat
2290005Mcs24Mammary carcinoma susceptibility QTL 24mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)564719390109719390Rat
2306971Anxrr21Anxiety related response QTL 219.47fear/anxiety-related behavior trait (VT:1000241)number of entries into a discrete space in an experimental apparatus (CMO:0000960)566174080124160948Rat
2312671Scl64Serum cholesterol level QTL 640.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)568984307104251008Rat
61380Edpm5Estrogen-dependent pituitary mass QTL 54.50.92pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)568984307104251008Rat
1357396Bw44Body weight QTL 444.19body mass (VT:0001259)body weight (CMO:0000012)568984307104251008Rat
1357402Bw46Body weight QTL 464.47body mass (VT:0001259)body mass index (BMI) (CMO:0000105)568984307104251008Rat
2302381Bw84Body weight QTL 844.47body mass (VT:0001259)body mass index (BMI) (CMO:0000105)568984307104251008Rat
1354598Srn6Serum renin concentration QTL 63.8blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)569540295151018848Rat
1598845Mcs14Mammary carcinoma susceptibility QTL 140.0001mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)57636977680813390Rat

Markers in Region
RH134143  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2576,841,130 - 76,841,310 (+)MAPPERmRatBN7.2
Rnor_6.0579,247,803 - 79,247,982NCBIRnor6.0
Rnor_5.0583,361,982 - 83,362,161UniSTSRnor5.0
RGSC_v3.4580,394,929 - 80,395,108UniSTSRGSC3.4
Celera575,775,179 - 75,775,358UniSTS
RH 3.4 Map5582.8UniSTS
Cytogenetic Map5q24UniSTS
AW530332  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2576,828,470 - 76,828,614 (+)MAPPERmRatBN7.2
Rnor_6.0579,235,144 - 79,235,287NCBIRnor6.0
Rnor_5.0583,349,323 - 83,349,466UniSTSRnor5.0
RGSC_v3.4580,382,270 - 80,382,413UniSTSRGSC3.4
Celera575,762,520 - 75,762,663UniSTS
RH 3.4 Map5579.5UniSTS
Cytogenetic Map5q24UniSTS


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 2 27 9 7 66 27 32 1
Low 1 16 47 40 12 40 2 4 8 8 9 10 2
Below cutoff 1 1 1 6 7 6

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000002309   ⟹   ENSRNOP00000002309
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl576,828,301 - 76,912,223 (-)Ensembl
Rnor_6.0 Ensembl579,235,539 - 79,317,206 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000082513   ⟹   ENSRNOP00000072172
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl576,828,301 - 76,912,223 (-)Ensembl
Rnor_6.0 Ensembl579,234,950 - 79,317,110 (-)Ensembl
RefSeq Acc Id: NM_001389267   ⟹   NP_001376196
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2576,828,308 - 76,911,878 (-)NCBI
RefSeq Acc Id: NM_181088   ⟹   NP_851602
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2576,828,308 - 76,911,878 (-)NCBI
Rnor_6.0579,235,541 - 79,317,206 (-)NCBI
Rnor_5.0583,349,720 - 83,431,410 (-)NCBI
RGSC_v3.4580,382,665 - 80,464,817 (-)RGD
Celera575,762,917 - 75,845,137 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039109873   ⟹   XP_038965801
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2576,828,308 - 76,911,945 (-)NCBI
RefSeq Acc Id: XM_039109874   ⟹   XP_038965802
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2576,828,308 - 76,911,945 (-)NCBI
RefSeq Acc Id: XM_039109875   ⟹   XP_038965803
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2576,828,308 - 76,911,945 (-)NCBI
RefSeq Acc Id: XM_039109876   ⟹   XP_038965804
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2576,828,308 - 76,911,945 (-)NCBI
RefSeq Acc Id: XM_039109877   ⟹   XP_038965805
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2576,828,308 - 76,911,945 (-)NCBI
RefSeq Acc Id: XM_039109878   ⟹   XP_038965806
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2576,828,878 - 76,911,945 (-)NCBI
RefSeq Acc Id: XM_039109879   ⟹   XP_038965807
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2576,829,033 - 76,911,945 (-)NCBI
RefSeq Acc Id: XM_039109880   ⟹   XP_038965808
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2576,828,955 - 76,911,945 (-)NCBI
RefSeq Acc Id: XM_039109881   ⟹   XP_038965809
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2576,842,309 - 76,911,945 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_851602   ⟸   NM_181088
- Peptide Label: isoform 1
- UniProtKB: G3V675 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000072172   ⟸   ENSRNOT00000082513
RefSeq Acc Id: ENSRNOP00000002309   ⟸   ENSRNOT00000002309
RefSeq Acc Id: XP_038965804   ⟸   XM_039109876
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038965805   ⟸   XM_039109877
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038965803   ⟸   XM_039109875
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038965802   ⟸   XM_039109874
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038965801   ⟸   XM_039109873
- Peptide Label: isoform X1
RefSeq Acc Id: NP_001376196   ⟸   NM_001389267
- Peptide Label: isoform 2
RefSeq Acc Id: XP_038965806   ⟸   XM_039109878
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038965808   ⟸   XM_039109880
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038965807   ⟸   XM_039109879
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038965809   ⟸   XM_039109881
- Peptide Label: isoform X8
Protein Domains
PDZ

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q810W9-F1-model_v2 AlphaFold Q810W9 1-920 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:631330 AgrOrtholog
BioCyc Gene G2FUF-41064 BioCyc
Ensembl Genes ENSRNOG00000001700 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000002309 ENTREZGENE
  ENSRNOP00000002309.2 UniProtKB/TrEMBL
  ENSRNOP00000072172 ENTREZGENE
  ENSRNOP00000072172.2 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000002309 ENTREZGENE
  ENSRNOT00000002309.3 UniProtKB/TrEMBL
  ENSRNOT00000082513 ENTREZGENE
  ENSRNOT00000082513.2 UniProtKB/TrEMBL
Gene3D-CATH 2.30.42.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro PDZ UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PDZ_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Whirlin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:313255 UniProtKB/Swiss-Prot
NCBI Gene 313255 ENTREZGENE
PANTHER PTHR23116:SF37 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam PDZ UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Whrn PhenoGen
PROSITE PDZ UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART PDZ UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF50156 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2K2B2_RAT UniProtKB/TrEMBL
  G3V675 ENTREZGENE, UniProtKB/TrEMBL
  Q810W9 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-05-26 Whrn  whirlin  Dfnb31  deafness, autosomal recessive 31  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-04-20 Dfnb31  deafness, autosomal recessive 31  Cip98  CASK-interacting protein CIP98  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-02-11 Cip98  CASK-interacting protein CIP98      Symbol and Name status set to approved 625702 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_expression expressed in specific neuronal subtypes such as pyramidal cells of the cerebral cortex and cerebellar interneurons 632479