Anks6 (ankyrin repeat and sterile alpha motif domain containing 6) - Rat Genome Database

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Gene: Anks6 (ankyrin repeat and sterile alpha motif domain containing 6) Rattus norvegicus
Analyze
Symbol: Anks6
Name: ankyrin repeat and sterile alpha motif domain containing 6
RGD ID: 3334
Description: Enables identical protein binding activity. Predicted to act upstream of or within several processes, including determination of left/right symmetry; in utero embryonic development; and kidney development. Located in cytoplasm. Used to study polycystic kidney disease; proteinuria; and uremia. Human ortholog(s) of this gene implicated in nephronophthisis 16. Orthologous to human ANKS6 (ankyrin repeat and sterile alpha motif domain containing 6); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; acrylamide; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: ankyrin repeat and SAM domain-containing protein 6; LOC362515; MGC109646; Pkdr1; Pkdr1_mapped; polycystic kidney disease protein 1; polycystic kidney disease rat 1; polycystic kidney disease rat 1 (mapped); SAM domain-containing protein 6; samcystin; Samd6; sterile alpha motif domain containing 6; sterile alpha motif domain-containing protein 6
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Allele / Splice: Anks6PKD  
Genetic Models: SPRD-Anks6PKD/Rrrc SPRD-Anks6PKD/Fsn
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2561,309,183 - 61,350,596 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl561,309,183 - 61,350,596 (-)Ensembl
Rnor_6.0562,642,974 - 62,684,387 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl562,640,645 - 62,683,964 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0567,163,440 - 67,204,853 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4563,633,540 - 63,674,953 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1563,632,332 - 63,674,981 (-)NCBI
Celera559,865,938 - 59,907,349 (-)NCBICelera
Cytogenetic Map5q22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
# Reference Title Reference Citation
1. Location of the first genetic locus, PKDr1, controlling autosomal dominant polycystic kidney disease in Han:SPRD cy/+ rat. Bihoreau MT, etal., Hum Mol Genet 1997 Apr;6(4):609-13.
2. Missense mutation in sterile alpha motif of novel protein SamCystin is associated with polycystic kidney disease in (cy/+) rat. Brown JH, etal., J Am Soc Nephrol. 2005 Dec;16(12):3517-26. Epub 2005 Oct 5.
3. ANKS3 Co-Localises with ANKS6 in Mouse Renal Cilia and Is Associated with Vasopressin Signaling and Apoptosis In Vivo in Mice. Delestre L, etal., PLoS One. 2015 Sep 1;10(9):e0136781. doi: 10.1371/journal.pone.0136781. eCollection 2015.
4. 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.
5. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
6. Transgenic overexpression of Anks6(p.R823W) causes polycystic kidney disease in rats. Neudecker S, etal., Am J Pathol. 2010 Dec;177(6):3000-9. doi: 10.2353/ajpath.2010.100569.
7. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
8. Anks3 alters the sub-cellular localization of the Nek7 kinase. Ramachandran H, etal., Biochem Biophys Res Commun. 2015 Aug 28;464(3):901-7. doi: 10.1016/j.bbrc.2015.07.063. Epub 2015 Jul 15.
9. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
10. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
11. Comprehensive gene review and curation RGD comprehensive gene curation
12. Characterization of the Han:SPRD rat model for hereditary polycystic kidney disease. Schafer K, etal., Kidney Int 1994 Jul;46(1):134-52.
13. The Polycystic Kidney Disease-related Proteins Bicc1 and SamCystin Interact. Stagner EE, etal., Biochem Biophys Res Commun. 2009 Mar 23.
14. Anks3 interacts with nephronophthisis proteins and is required for normal renal development. Yakulov TA, etal., Kidney Int. 2015 Jun;87(6):1191-200. doi: 10.1038/ki.2015.17. Epub 2015 Feb 11.
Additional References at PubMed
PMID:12477932   PMID:15057822   PMID:18434273   PMID:20719982   PMID:25807483   PMID:27996060   PMID:29395339  


Genomics

Candidate Gene Status
Anks6 is a candidate Gene for QTL Kidm8
Comparative Map Data
Anks6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2561,309,183 - 61,350,596 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl561,309,183 - 61,350,596 (-)Ensembl
Rnor_6.0562,642,974 - 62,684,387 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl562,640,645 - 62,683,964 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0567,163,440 - 67,204,853 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4563,633,540 - 63,674,953 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1563,632,332 - 63,674,981 (-)NCBI
Celera559,865,938 - 59,907,349 (-)NCBICelera
Cytogenetic Map5q22NCBI
ANKS6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38998,732,009 - 98,796,555 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl998,731,329 - 98,796,965 (-)EnsemblGRCh38hg38GRCh38
GRCh379101,494,291 - 101,558,837 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 369100,534,112 - 100,598,615 (-)NCBINCBI36hg18NCBI36
Build 34998,573,856 - 98,638,050NCBI
Celera972,008,186 - 72,066,777 (-)NCBI
Cytogenetic Map9q22.33NCBI
HuRef971,093,661 - 71,157,912 (-)NCBIHuRef
CHM1_19101,640,709 - 101,705,196 (-)NCBICHM1_1
T2T-CHM13v2.09110,903,669 - 110,968,205 (-)NCBI
Anks6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39447,015,365 - 47,057,339 (-)NCBIGRCm39mm39
GRCm39 Ensembl447,015,669 - 47,057,427 (-)Ensembl
GRCm38447,015,365 - 47,057,327 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl447,015,669 - 47,057,427 (-)EnsemblGRCm38mm10GRCm38
MGSCv37447,028,561 - 47,070,178 (-)NCBIGRCm37mm9NCBIm37
MGSCv36447,036,789 - 47,078,406 (-)NCBImm8
MGSCv36445,863,232 - 45,905,550 (-)NCBImm8
Celera447,027,647 - 47,069,458 (-)NCBICelera
Cytogenetic Map4B1NCBI
Anks6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541926,801,925 - 26,851,627 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495541926,801,924 - 26,852,116 (+)NCBIChiLan1.0ChiLan1.0
ANKS6
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1997,941,270 - 98,002,933 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl997,941,935 - 98,005,795 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0969,818,669 - 69,886,618 (-)NCBIMhudiblu_PPA_v0panPan3
ANKS6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11155,845,695 - 55,893,253 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1155,847,808 - 55,893,257 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1154,278,371 - 54,325,978 (-)NCBI
ROS_Cfam_1.01156,955,274 - 57,003,309 (-)NCBI
ROS_Cfam_1.0 Ensembl1156,957,377 - 57,003,582 (-)Ensembl
UMICH_Zoey_3.11155,459,214 - 55,507,459 (-)NCBI
UNSW_CanFamBas_1.01155,483,554 - 55,531,201 (-)NCBI
UU_Cfam_GSD_1.01156,180,571 - 56,231,006 (-)NCBI
Anks6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947170,772,429 - 170,816,534 (-)NCBI
SpeTri2.0NW_0049365247,320,069 - 7,379,417 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ANKS6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1240,522,837 - 240,584,496 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11240,522,835 - 240,584,354 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21268,768,030 - 268,829,559 (-)NCBISscrofa10.2Sscrofa10.2susScr3
ANKS6
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11240,631,235 - 40,695,920 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl1240,631,467 - 40,697,393 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366603837,666,107 - 37,730,231 (+)NCBIVero_WHO_p1.0
Anks6
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248252,157,158 - 2,212,971 (+)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_0046248252,157,158 - 2,214,115 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
RH142576  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2561,309,566 - 61,309,723 (+)MAPPERmRatBN7.2
Rnor_6.0562,643,358 - 62,643,514NCBIRnor6.0
Rnor_5.0567,163,824 - 67,163,980UniSTSRnor5.0
RGSC_v3.4563,633,924 - 63,634,080UniSTSRGSC3.4
Celera559,866,322 - 59,866,478UniSTS
RH 3.4 Map5372.6UniSTS
Cytogenetic Map5q22UniSTS


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
8662454Vetf3Vascular elastic tissue fragility QTL 327.4artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)5228222669540447Rat
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
1600358Mamtr5Mammary tumor resistance QTL 5mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)51887394763873947Rat
1358353Srcrtb2Stress Responsive Cort Basal QTL 23.480.003blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)51887394774251464Rat
8552954Pigfal14Plasma insulin-like growth factor 1 level QTL 149blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)52122674466226744Rat
1578767Stresp17Stress response QTL 174.30.01blood aldosterone amount (VT:0005346)plasma aldosterone level (CMO:0000551)52795544072955440Rat
1578776Stresp18Stress response QTL 182.9thymus mass (VT:0004954)thymus wet weight (CMO:0000855)52795544072955440Rat
6903292Stl28Serum triglyceride level QTL 282.60.0073blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)52851548973515489Rat
6903306Scl35Serum cholesterol QTL 352.60.0073blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)52851548973515489Rat
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
1641922Alcrsp8Alcohol response QTL 8alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)53518915368564008Rat
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


Genetic Models
This gene Anks6 is modified in the following models/strains
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:241
Count of miRNA genes:143
Interacting mature miRNAs:175
Transcripts:ENSRNOT00000060005
Prediction methods: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 4 17 8
Low 3 43 22 6 19 6 5 8 70 18 33 11 5
Below cutoff 35 35 35 3 3 3

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001015028 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008763699 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008763700 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039110234 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039110235 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039110236 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039110237 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039110239 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039110240 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_353968 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_592494 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_592495 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_592496 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AY661303 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC091436 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000161 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000060005   ⟹   ENSRNOP00000056754
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl561,309,183 - 61,350,596 (-)Ensembl
Rnor_6.0 Ensembl562,640,645 - 62,683,964 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000095092   ⟹   ENSRNOP00000085061
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl561,309,183 - 61,350,596 (-)Ensembl
RefSeq Acc Id: NM_001015028   ⟹   NP_001015028
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2561,309,183 - 61,350,596 (-)NCBI
Rnor_6.0562,642,974 - 62,684,387 (-)NCBI
Rnor_5.0567,163,440 - 67,204,853 (-)NCBI
RGSC_v3.4563,633,540 - 63,674,953 (-)RGD
Celera559,865,938 - 59,907,349 (-)RGD
Sequence:
RefSeq Acc Id: XM_039110234   ⟹   XP_038966162
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2561,310,655 - 61,350,493 (-)NCBI
RefSeq Acc Id: XM_039110235   ⟹   XP_038966163
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2561,311,572 - 61,350,493 (-)NCBI
RefSeq Acc Id: XM_039110236   ⟹   XP_038966164
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2561,317,136 - 61,350,493 (-)NCBI
RefSeq Acc Id: XM_039110237   ⟹   XP_038966165
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2561,311,498 - 61,350,493 (-)NCBI
RefSeq Acc Id: XM_039110239   ⟹   XP_038966167
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2561,318,008 - 61,350,493 (-)NCBI
RefSeq Acc Id: XM_039110240   ⟹   XP_038966168
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2561,317,204 - 61,350,493 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_001015028   ⟸   NM_001015028
- UniProtKB: P0C0T2 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000056754   ⟸   ENSRNOT00000060005
RefSeq Acc Id: XP_038966162   ⟸   XM_039110234
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038966165   ⟸   XM_039110237
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038966163   ⟸   XM_039110235
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038966164   ⟸   XM_039110236
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038966168   ⟸   XM_039110240
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038966167   ⟸   XM_039110239
- Peptide Label: isoform X4
RefSeq Acc Id: ENSRNOP00000085061   ⟸   ENSRNOT00000095092
Protein Domains
SAM

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P0C0T2-F1-model_v2 AlphaFold P0C0T2 1-885 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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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)
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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
5 62676855 62676856 C T snv SHR/NHsd (RGD), SHRSP/Gcrc (RGD), WKY/NCrl (RGD), WKY/Gcrc (RGD), WKY/NHsd (RGD), WKY/N (2020), HXB31/IpcvMcwi (2019), HXB4/IpcvMcwi (2020), SHRSP/A3NCrl (2019), SHR/OlalpcvMcwi (2019), WKY/NCrl (2019), BXH2/CubMcwi (2020)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:3334 AgrOrtholog
BioCyc Gene G2FUF-41392 BioCyc
Ensembl Genes ENSRNOG00000023309 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000056754 ENTREZGENE
  ENSRNOP00000056754.4 UniProtKB/TrEMBL
  ENSRNOP00000085061.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000060005 ENTREZGENE
  ENSRNOT00000060005.5 UniProtKB/TrEMBL
  ENSRNOT00000095092.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.150.50 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  1.25.40.20 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro Ankyrin_rpt UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ankyrin_rpt-contain_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SAM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SAM/pointed_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:362515 UniProtKB/Swiss-Prot
NCBI Gene 362515 ENTREZGENE
Pfam Ank UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ank_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SAM_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Anks6 PhenoGen
PRINTS ANKYRIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE ANK_REP_REGION UniProtKB/Swiss-Prot
  ANK_REPEAT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SAM_DOMAIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART ANK UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SAM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF47769 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF48403 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2JSX8_RAT UniProtKB/TrEMBL
  A0A8I5ZZA2_RAT UniProtKB/TrEMBL
  ANKS6_RAT UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary Q2VWC0 UniProtKB/Swiss-Prot
  Q5BJL2 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2007-09-17 Anks6  ankyrin repeat and sterile alpha motif domain containing 6  Pkdr1_mapped  polycystic kidney disease rat 1 (mapped)  Symbol and Name updated to reflect Human and Mouse nomenclature 1299863 APPROVED
2007-09-17 Pkdr1_mapped  polycystic kidney disease rat 1 (mapped)  Samd6  sterile alpha motif domain containing 6  Data Merged 737654 APPROVED
2005-12-06 Samd6  sterile alpha motif domain containing 6  Samd6_predicted  sterile alpha motif domain containing 6 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-11-17 Pkdr1_mapped  polycystic kidney disease rat 1 (mapped)  Pkdr1  polycystic kidney disease rat 1  Symbol and Name updated 1556543 APPROVED
2005-01-12 Samd6_predicted  sterile alpha motif domain containing 6 (predicted)      Symbol and Name status set to approved 70820 APPROVED
2002-06-10 Pkdr1  Polycystic kidney disease rat 1      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_mapping associated with a QTL controlling kidney mass, plasma urea concentration, and polycystic kidney disease 629573