Chd6 (chromodomain helicase DNA binding protein 6) - Rat Genome Database

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Pathways
Gene: Chd6 (chromodomain helicase DNA binding protein 6) Rattus norvegicus
Analyze
Symbol: Chd6
Name: chromodomain helicase DNA binding protein 6
RGD ID: 1310465
Description: Predicted to enable several functions, including ATP hydrolysis activity; histone binding activity; and transcription coregulator binding activity. Predicted to be involved in cell redox homeostasis; chromatin remodeling; and positive regulation of transcription by RNA polymerase II. Predicted to be located in nucleoplasm. Predicted to be active in chromatin and nucleus. Orthologous to human CHD6 (chromodomain helicase DNA binding protein 6); PARTICIPATES IN nuclear factor, erythroid 2 like 2 signaling pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene; amphetamine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: ATP-dependent helicase CHD6; CHD-6; chromodomain-helicase-DNA-binding protein 6; LOC311607
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83170,016,204 - 170,177,480 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl3170,016,204 - 170,177,558 (-)EnsemblGRCr8
mRatBN7.23149,596,509 - 149,757,765 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3149,596,509 - 149,757,755 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx3153,409,455 - 153,571,162 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03161,908,858 - 162,070,560 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03159,648,665 - 159,809,906 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.03156,937,746 - 157,099,328 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3156,937,733 - 157,099,306 (-)Ensemblrn6Rnor6.0
Rnor_5.03163,164,938 - 163,324,764 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.43151,741,389 - 151,924,668 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera3148,269,027 - 148,429,163 (-)NCBICelera
RGSC_v3.13151,647,823 - 151,830,771 (-)NCBI
Cytogenetic Map3q42NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
chromatin  (IBA)
nucleoplasm  (IEA,ISO,ISS)
nucleus  (IBA,IEA)

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. The Nrf2 regulatory network provides an interface between redox and intermediary metabolism. Hayes JD and Dinkova-Kostova AT, Trends Biochem Sci. 2014 Apr;39(4):199-218. doi: 10.1016/j.tibs.2014.02.002. Epub 2014 Mar 16.
4. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
5. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
6. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:16314513   PMID:17027977  


Genomics

Comparative Map Data
Chd6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83170,016,204 - 170,177,480 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl3170,016,204 - 170,177,558 (-)EnsemblGRCr8
mRatBN7.23149,596,509 - 149,757,765 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3149,596,509 - 149,757,755 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx3153,409,455 - 153,571,162 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03161,908,858 - 162,070,560 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03159,648,665 - 159,809,906 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.03156,937,746 - 157,099,328 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3156,937,733 - 157,099,306 (-)Ensemblrn6Rnor6.0
Rnor_5.03163,164,938 - 163,324,764 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.43151,741,389 - 151,924,668 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera3148,269,027 - 148,429,163 (-)NCBICelera
RGSC_v3.13151,647,823 - 151,830,771 (-)NCBI
Cytogenetic Map3q42NCBI
CHD6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382041,402,083 - 41,618,377 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2041,402,083 - 41,618,449 (-)Ensemblhg38GRCh38
GRCh372040,030,723 - 40,247,016 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362039,464,584 - 39,680,547 (-)NCBIBuild 36Build 36hg18NCBI36
Build 342039,464,583 - 39,680,547NCBI
Celera2036,741,838 - 36,957,790 (-)NCBICelera
Cytogenetic Map20q12NCBI
HuRef2036,768,458 - 36,984,731 (-)NCBIHuRef
CHM1_12039,935,021 - 40,151,300 (-)NCBICHM1_1
T2T-CHM13v2.02043,133,884 - 43,350,249 (-)NCBIT2T-CHM13v2.0
Chd6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392160,788,898 - 160,951,006 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl2160,788,898 - 160,950,995 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm382160,946,978 - 161,109,086 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2160,946,978 - 161,109,075 (-)Ensemblmm10GRCm38
MGSCv372160,772,714 - 160,934,792 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv362160,638,419 - 160,800,497 (-)NCBIMGSCv36mm8
Celera2166,877,653 - 167,040,009 (-)NCBICelera
Cytogenetic Map2H2NCBI
cM Map280.98NCBI
Chd6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544515,360,025 - 15,560,988 (+)Ensembl
ChiLan1.0NW_00495544515,360,074 - 15,576,410 (+)NCBIChiLan1.0ChiLan1.0
CHD6
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22147,144,211 - 47,354,354 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12047,137,310 - 47,347,383 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02037,744,012 - 37,953,593 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12038,839,685 - 38,988,719 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2038,839,685 - 38,999,501 (-)EnsemblpanPan2panpan1.1
CHD6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12429,397,320 - 29,601,206 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2429,397,306 - 29,601,350 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2429,042,568 - 29,246,480 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02430,102,193 - 30,305,887 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2430,102,811 - 30,306,032 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12429,370,977 - 29,574,934 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02429,474,474 - 29,678,500 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02429,971,008 - 30,174,849 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Chd6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640178,354,920 - 178,570,711 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936561178,700 - 394,842 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_004936561238,307 - 394,082 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CHD6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1744,048,098 - 44,265,431 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11744,048,056 - 44,265,472 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21749,502,246 - 49,555,890 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CHD6
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1222,163,836 - 22,373,098 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl222,223,919 - 22,373,275 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366605070,981,245 - 71,189,656 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Chd6
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462479012,610,254 - 12,858,368 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462479012,610,418 - 12,858,062 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Chd6
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v15140,234,934 - 140,348,593 (-)NCBIRrattus_CSIRO_v1

miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:777
Count of miRNA genes:295
Interacting mature miRNAs:389
Transcripts:ENSRNOT00000022861
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

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

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


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
12879876Bw182Body weight QTL 1820.003body mass (VT:0001259)body weight (CMO:0000012)3141555229186555229Rat
2301411Bp320Blood pressure QTL 3200.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)3141555229186555229Rat
1582233Insul10Insulin level QTL 105.40.0015blood insulin amount (VT:0001560)serum insulin level times blood glucose level (CMO:0002040)3133259579178259579Rat
1300113Bp176Blood pressure QTL 1763.9arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)3166376089177728348Rat
12879872Cm97Cardiac mass QTL 970.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)3141555229186555229Rat
12879873Cm96Cardiac mass QTL 960.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)3141555229186555229Rat
1578653Vnigr3Vascular neointimal growth QTL 33.1artery morphology trait (VT:0002191)artery neointimal hyperplastic lesion area (CMO:0001414)3151075912189428310Rat
2302373Gluco39Glucose level QTL 395.01blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)3129154923182114333Rat
12879874Cm98Cardiac mass QTL 980.005heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)3141555229186555229Rat
12879875Kidm64Kidney mass QTL 640.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)3141555229186555229Rat
1298068Bp167Blood pressure QTL 1670.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3161492708189428310Rat
70216Cm14Cardiac mass QTL 142.1heart mass (VT:0007028)heart wet weight (CMO:0000069)351581665184004958Rat
8552791Vie2Viral induced encephalitis QTL 24.1brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)3166376089189428310Rat
61335Bp20Blood pressure QTL 203arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3161799493176036425Rat
1578754Stresp16Stress response QTL 1640.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)3133134628178134628Rat
1331726Bp208Blood pressure QTL 2083.129arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)3161799270187311134Rat
1582213Insul6Insulin level QTL 63.70.0009blood insulin amount (VT:0001560)calculated serum insulin level (CMO:0000359)3155759447189428310Rat
1598854Memor10Memory QTL 102exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)3166376089189428310Rat
9589106Insul23Insulin level QTL 2313.860.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)3152055202189428310Rat
10755461Coatc16Coat color QTL 16coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)3142898802187898802Rat
8662816Vetf4Vascular elastic tissue fragility QTL 44renal artery integrity trait (VT:0010642)number of ruptures of the internal elastic lamina of the renal arteries (CMO:0002563)379649560177741895Rat
1559282Emca5Estrogen-induced mammary cancer QTL 53.9mammary gland integrity trait (VT:0010552)percentage of study population developing mammary tumors during a period of time (CMO:0000948)3145335553189428310Rat
2303620Vencon4Ventilatory control QTL 43.9respiration trait (VT:0001943)tidal volume (CMO:0000222)3125116475170116475Rat
1582256Insul9Insulin level QTL 94.40.0016blood insulin amount (VT:0001560)absolute change in serum insulin level (CMO:0002038)3155759447189428310Rat
1576306Schws3Schwannoma susceptibility QTL 30.001nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)3139299381184299381Rat
1300159Kidm4Kidney mass QTL 43.83kidney mass (VT:0002707)right kidney wet weight to body weight ratio (CMO:0001953)3141508991177728348Rat
2301971Cm71Cardiac mass QTL 714.63heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)3131036586176036586Rat
631673Iddm13Insulin dependent diabetes mellitus QTL 131.30.663blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)3137114333182114333Rat
1582248Insul7Insulin level QTL 73.90.0041blood insulin amount (VT:0001560)calculated serum insulin level (CMO:0000359)3155759447189428310Rat
2301970Bw81Body weight QTL 815.19body mass (VT:0001259)body weight (CMO:0000012)3131036586176036586Rat
1578666Vnigr1Vascular neointimal growth QTL 14.6artery morphology trait (VT:0002191)artery lumen area (CMO:0001409)3151075912189428310Rat
1578656Vnigr2Vascular neointimal growth QTL 24.2artery morphology trait (VT:0002191)lesioned artery residual lumen area (CMO:0001417)3151075912189428310Rat
12879871Am7Aortic mass QTL 70.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)3141555229186555229Rat
631541Bp81Blood pressure QTL 814arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3144575244189428310Rat

Markers in Region
D3Mco22  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23149,662,152 - 149,662,411 (+)MAPPERmRatBN7.2
Rnor_6.03157,002,896 - 157,003,152NCBIRnor6.0
Rnor_5.03163,230,270 - 163,230,526UniSTSRnor5.0
RGSC_v3.43151,807,483 - 151,807,737RGDRGSC3.4
RGSC_v3.43151,807,481 - 151,807,737UniSTSRGSC3.4
Celera3148,334,584 - 148,334,840UniSTS
RGSC_v3.13151,713,519 - 151,713,773RGD
Cytogenetic Map3q42UniSTS
RH143820  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23149,598,826 - 149,598,947 (+)MAPPERmRatBN7.2
Rnor_6.03156,940,064 - 156,940,184NCBIRnor6.0
Rnor_5.03163,167,256 - 163,167,376UniSTSRnor5.0
RGSC_v3.43151,743,707 - 151,743,827UniSTSRGSC3.4
Celera3148,271,345 - 148,271,465UniSTS
RH 3.4 Map31366.6UniSTS
Cytogenetic Map3q42UniSTS
RH144348  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr83170,094,637 - 170,094,871 (+)Marker Load Pipeline
mRatBN7.23149,674,946 - 149,675,180 (+)MAPPERmRatBN7.2
Rnor_6.03157,015,687 - 157,015,920NCBIRnor6.0
Rnor_5.03163,243,061 - 163,243,294UniSTSRnor5.0
RGSC_v3.43151,820,272 - 151,820,505UniSTSRGSC3.4
Celera3148,347,375 - 148,347,608UniSTS
RH 3.4 Map31364.7UniSTS
Cytogenetic Map3q42UniSTS
AW522475  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23149,614,786 - 149,614,929 (+)MAPPERmRatBN7.2
Rnor_6.03156,955,991 - 156,956,133NCBIRnor6.0
Rnor_5.03163,183,211 - 163,183,353UniSTSRnor5.0
RGSC_v3.43151,759,971 - 151,760,113UniSTSRGSC3.4
Celera3148,287,265 - 148,287,407UniSTS
RH 3.4 Map31369.5UniSTS
Cytogenetic Map3q42UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 165 91 90 59 92 59 6 356 192 11 144 81 92 31 17 17

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001107797 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001434092 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006235482 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006235483 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006235484 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008762345 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008762346 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591790 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591791 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039105104 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039105105 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039105106 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039105107 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039105108 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039105109 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039105111 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039105112 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039105113 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039105114 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039105115 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039105116 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063283862 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063283863 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063283864 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063283865 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063283866 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063283867 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005501896 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005501897 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide CH474005 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ211572 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ230879 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000003 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000022861   ⟹   ENSRNOP00000022861
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl3170,016,204 - 170,177,435 (-)Ensembl
mRatBN7.2 Ensembl3149,596,509 - 149,757,755 (-)Ensembl
Rnor_6.0 Ensembl3156,937,746 - 157,099,306 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000089958   ⟹   ENSRNOP00000071893
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl3170,017,468 - 170,177,435 (-)Ensembl
mRatBN7.2 Ensembl3149,596,509 - 149,708,435 (-)Ensembl
Rnor_6.0 Ensembl3156,937,733 - 157,049,666 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000106235   ⟹   ENSRNOP00000093958
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl3170,016,204 - 170,177,435 (-)Ensembl
mRatBN7.2 Ensembl3149,596,509 - 149,757,755 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000107966   ⟹   ENSRNOP00000094454
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl3170,016,204 - 170,177,558 (-)Ensembl
mRatBN7.2 Ensembl3149,596,509 - 149,757,755 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000114568   ⟹   ENSRNOP00000086889
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl3170,016,204 - 170,102,044 (-)Ensembl
mRatBN7.2 Ensembl3149,596,509 - 149,682,505 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000119650   ⟹   ENSRNOP00000076519
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl3170,016,204 - 170,120,123 (-)Ensembl
mRatBN7.2 Ensembl3149,596,509 - 149,700,434 (-)Ensembl
RefSeq Acc Id: NM_001107797   ⟹   NP_001101267
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83170,016,204 - 170,177,435 (-)NCBI
mRatBN7.23149,596,509 - 149,757,755 (-)NCBI
Rnor_6.03156,937,746 - 157,099,306 (-)NCBI
Rnor_5.03163,164,938 - 163,324,764 (-)NCBI
RGSC_v3.43151,741,389 - 151,924,668 (-)RGD
Celera3148,269,027 - 148,429,163 (-)RGD
Sequence:
RefSeq Acc Id: XM_006235484   ⟹   XP_006235546
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83170,016,302 - 170,177,480 (-)NCBI
mRatBN7.23149,596,511 - 149,757,765 (-)NCBI
Rnor_6.03156,937,746 - 157,050,230 (-)NCBI
Rnor_5.03163,164,938 - 163,324,764 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008762345   ⟹   XP_008760567
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83170,016,302 - 170,177,480 (-)NCBI
mRatBN7.23149,596,511 - 149,757,765 (-)NCBI
Rnor_6.03156,937,746 - 157,099,328 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008762346   ⟹   XP_008760568
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83170,016,302 - 170,177,369 (-)NCBI
mRatBN7.23149,596,511 - 149,757,758 (-)NCBI
Rnor_6.03156,937,746 - 157,099,328 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017591790   ⟹   XP_017447279
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83170,016,302 - 170,177,480 (-)NCBI
mRatBN7.23149,596,511 - 149,757,765 (-)NCBI
Rnor_6.03156,937,746 - 157,050,230 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039105104   ⟹   XP_038961032
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83170,016,302 - 170,155,998 (-)NCBI
mRatBN7.23149,596,511 - 149,728,465 (-)NCBI
RefSeq Acc Id: XM_039105105   ⟹   XP_038961033
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83170,016,302 - 170,177,480 (-)NCBI
mRatBN7.23149,596,511 - 149,757,765 (-)NCBI
RefSeq Acc Id: XM_039105106   ⟹   XP_038961034
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83170,016,302 - 170,177,480 (-)NCBI
mRatBN7.23149,596,511 - 149,757,765 (-)NCBI
RefSeq Acc Id: XM_039105107   ⟹   XP_038961035
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83170,016,302 - 170,177,480 (-)NCBI
mRatBN7.23149,596,511 - 149,757,765 (-)NCBI
RefSeq Acc Id: XM_039105108   ⟹   XP_038961036
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83170,016,302 - 170,107,341 (-)NCBI
mRatBN7.23149,596,511 - 149,682,473 (-)NCBI
RefSeq Acc Id: XM_039105109   ⟹   XP_038961037
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83170,030,279 - 170,177,480 (-)NCBI
mRatBN7.23149,610,586 - 149,757,765 (-)NCBI
RefSeq Acc Id: XM_039105111   ⟹   XP_038961039
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83170,016,302 - 170,080,195 (-)NCBI
mRatBN7.23149,596,511 - 149,660,495 (-)NCBI
RefSeq Acc Id: XM_039105112   ⟹   XP_038961040
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83170,016,302 - 170,059,555 (-)NCBI
mRatBN7.23149,596,511 - 149,639,856 (-)NCBI
RefSeq Acc Id: XM_039105113   ⟹   XP_038961041
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83170,016,302 - 170,052,073 (-)NCBI
mRatBN7.23149,596,511 - 149,632,382 (-)NCBI
RefSeq Acc Id: XM_039105114   ⟹   XP_038961042
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83170,038,069 - 170,177,480 (-)NCBI
mRatBN7.23149,618,377 - 149,757,765 (-)NCBI
RefSeq Acc Id: XM_039105115   ⟹   XP_038961043
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83170,038,069 - 170,177,480 (-)NCBI
mRatBN7.23149,618,377 - 149,757,765 (-)NCBI
RefSeq Acc Id: XM_039105116   ⟹   XP_038961044
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83170,016,302 - 170,049,047 (-)NCBI
mRatBN7.23149,596,511 - 149,629,356 (-)NCBI
RefSeq Acc Id: XM_063283862   ⟹   XP_063139932
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83170,016,302 - 170,177,435 (-)NCBI
RefSeq Acc Id: XM_063283863   ⟹   XP_063139933
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83170,016,302 - 170,176,644 (-)NCBI
RefSeq Acc Id: XM_063283864   ⟹   XP_063139934
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83170,016,302 - 170,177,421 (-)NCBI
RefSeq Acc Id: XM_063283865   ⟹   XP_063139935
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83170,016,302 - 170,107,341 (-)NCBI
RefSeq Acc Id: XM_063283866   ⟹   XP_063139936
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83170,030,811 - 170,177,480 (-)NCBI
RefSeq Acc Id: XM_063283867   ⟹   XP_063139937
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83170,030,811 - 170,177,480 (-)NCBI
RefSeq Acc Id: XR_005501896
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83170,036,414 - 170,177,480 (-)NCBI
mRatBN7.23149,616,722 - 149,757,765 (-)NCBI
RefSeq Acc Id: XR_005501897
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83170,036,414 - 170,177,480 (-)NCBI
mRatBN7.23149,616,722 - 149,757,765 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001101267 (Get FASTA)   NCBI Sequence Viewer  
  NP_001421021 (Get FASTA)   NCBI Sequence Viewer  
  XP_006235546 (Get FASTA)   NCBI Sequence Viewer  
  XP_008760567 (Get FASTA)   NCBI Sequence Viewer  
  XP_008760568 (Get FASTA)   NCBI Sequence Viewer  
  XP_017447279 (Get FASTA)   NCBI Sequence Viewer  
  XP_038961032 (Get FASTA)   NCBI Sequence Viewer  
  XP_038961033 (Get FASTA)   NCBI Sequence Viewer  
  XP_038961034 (Get FASTA)   NCBI Sequence Viewer  
  XP_038961035 (Get FASTA)   NCBI Sequence Viewer  
  XP_038961036 (Get FASTA)   NCBI Sequence Viewer  
  XP_038961037 (Get FASTA)   NCBI Sequence Viewer  
  XP_038961039 (Get FASTA)   NCBI Sequence Viewer  
  XP_038961040 (Get FASTA)   NCBI Sequence Viewer  
  XP_038961041 (Get FASTA)   NCBI Sequence Viewer  
  XP_038961042 (Get FASTA)   NCBI Sequence Viewer  
  XP_038961043 (Get FASTA)   NCBI Sequence Viewer  
  XP_038961044 (Get FASTA)   NCBI Sequence Viewer  
  XP_063139932 (Get FASTA)   NCBI Sequence Viewer  
  XP_063139933 (Get FASTA)   NCBI Sequence Viewer  
  XP_063139934 (Get FASTA)   NCBI Sequence Viewer  
  XP_063139935 (Get FASTA)   NCBI Sequence Viewer  
  XP_063139936 (Get FASTA)   NCBI Sequence Viewer  
  XP_063139937 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein D3ZA12 (Get FASTA)   NCBI Sequence Viewer  
  EDL96607 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000022861
  ENSRNOP00000071893
  ENSRNOP00000076519
  ENSRNOP00000086889
  ENSRNOP00000093958
  ENSRNOP00000094454
RefSeq Acc Id: NP_001101267   ⟸   NM_001107797
- UniProtKB: D3ZA12 (UniProtKB/Swiss-Prot),   A0A8I5Y6Q9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006235546   ⟸   XM_006235484
- Peptide Label: isoform X6
- UniProtKB: A0A8I6AKM1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008760568   ⟸   XM_008762346
- Peptide Label: isoform X5
- UniProtKB: A0A8I6AKM1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008760567   ⟸   XM_008762345
- Peptide Label: isoform X1
- UniProtKB: A0A8L2QC41 (UniProtKB/TrEMBL),   A0A8I5Y6Q9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017447279   ⟸   XM_017591790
- Peptide Label: isoform X4
- UniProtKB: A0A8I6ARM3 (UniProtKB/TrEMBL),   A0A8I6AKM1 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000071893   ⟸   ENSRNOT00000089958
Ensembl Acc Id: ENSRNOP00000022861   ⟸   ENSRNOT00000022861
RefSeq Acc Id: XP_038961033   ⟸   XM_039105105
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038961035   ⟸   XM_039105107
- Peptide Label: isoform X8
- UniProtKB: A0A8I5Y6Q9 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038961034   ⟸   XM_039105106
- Peptide Label: isoform X7
- UniProtKB: A0A8I5Y6Q9 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038961032   ⟸   XM_039105104
- Peptide Label: isoform X1
- UniProtKB: A0A8L2QC41 (UniProtKB/TrEMBL),   A0A8I5Y6Q9 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038961036   ⟸   XM_039105108
- Peptide Label: isoform X9
- UniProtKB: A0A8I6A6R3 (UniProtKB/TrEMBL),   A0A8I6AKM1 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038961039   ⟸   XM_039105111
- Peptide Label: isoform X14
RefSeq Acc Id: XP_038961040   ⟸   XM_039105112
- Peptide Label: isoform X15
RefSeq Acc Id: XP_038961041   ⟸   XM_039105113
- Peptide Label: isoform X16
RefSeq Acc Id: XP_038961044   ⟸   XM_039105116
- Peptide Label: isoform X19
RefSeq Acc Id: XP_038961037   ⟸   XM_039105109
- Peptide Label: isoform X12
RefSeq Acc Id: XP_038961043   ⟸   XM_039105115
- Peptide Label: isoform X17
RefSeq Acc Id: XP_038961042   ⟸   XM_039105114
- Peptide Label: isoform X18
Ensembl Acc Id: ENSRNOP00000094454   ⟸   ENSRNOT00000107966
Ensembl Acc Id: ENSRNOP00000093958   ⟸   ENSRNOT00000106235
Ensembl Acc Id: ENSRNOP00000086889   ⟸   ENSRNOT00000114568
Ensembl Acc Id: ENSRNOP00000076519   ⟸   ENSRNOT00000119650
RefSeq Acc Id: XP_063139932   ⟸   XM_063283862
- Peptide Label: isoform X1
- UniProtKB: A0A8L2QC41 (UniProtKB/TrEMBL),   A0A8I5Y6Q9 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063139934   ⟸   XM_063283864
- Peptide Label: isoform X2
- UniProtKB: A0A0G2K1L7 (UniProtKB/TrEMBL),   A0A8I5Y6Q9 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063139933   ⟸   XM_063283863
- Peptide Label: isoform X1
- UniProtKB: A0A8L2QC41 (UniProtKB/TrEMBL),   A0A8I5Y6Q9 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063139935   ⟸   XM_063283865
- Peptide Label: isoform X10
- UniProtKB: A0A8I6AKM1 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063139937   ⟸   XM_063283867
- Peptide Label: isoform X13
RefSeq Acc Id: XP_063139936   ⟸   XM_063283866
- Peptide Label: isoform X11
Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZA12-F1-model_v2 AlphaFold D3ZA12 1-2698 view protein structure

Transcriptome

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

Promoters
RGD ID:13692629
Promoter ID:EPDNEW_R3152
Type:multiple initiation site
Name:Chd6_1
Description:chromodomain helicase DNA binding protein 6
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.03157,099,252 - 157,099,312EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1310465 AgrOrtholog
BioCyc Gene G2FUF-46962 BioCyc
Ensembl Genes ENSRNOG00000016744 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000022861 ENTREZGENE
  ENSRNOT00000089958 ENTREZGENE
  ENSRNOT00000106235 ENTREZGENE
  ENSRNOT00000107966 ENTREZGENE
  ENSRNOT00000114568 ENTREZGENE
  ENSRNOT00000119650 ENTREZGENE
Gene3D-CATH 2.40.50.40 UniProtKB/Swiss-Prot
  3.40.50.10810 UniProtKB/Swiss-Prot
  3.40.50.300 UniProtKB/Swiss-Prot
  Homeodomain-like UniProtKB/Swiss-Prot
InterPro BRK_domain UniProtKB/Swiss-Prot
  CHD UniProtKB/Swiss-Prot
  Chromo-like_dom_sf UniProtKB/Swiss-Prot
  Chromo/chromo_shadow_dom UniProtKB/Swiss-Prot
  Chromo_domain UniProtKB/Swiss-Prot
  DNA/RNA_helicase_DEAH_CS UniProtKB/Swiss-Prot
  Helicase_ATP-bd UniProtKB/Swiss-Prot
  Helicase_C UniProtKB/Swiss-Prot
  HTH_CHD6-9 UniProtKB/Swiss-Prot
  P-loop_NTPase UniProtKB/Swiss-Prot
  SNF2-like_sf UniProtKB/Swiss-Prot
  SNF2/RAD54-like_C UniProtKB/Swiss-Prot
  SNF2_N UniProtKB/Swiss-Prot
KEGG Report rno:311607 UniProtKB/Swiss-Prot
NCBI Gene 311607 ENTREZGENE
PANTHER CHROMODOMAIN-HELICASE-DNA-BINDING PROTEIN 9 UniProtKB/Swiss-Prot
  CHROMODOMAIN-HELICASE-DNA-BINDING PROTEIN 9 UniProtKB/Swiss-Prot
Pfam Chromo UniProtKB/Swiss-Prot
  Helicase_C UniProtKB/Swiss-Prot
  HTH_CHD8_8th UniProtKB/Swiss-Prot
  SNF2_N UniProtKB/Swiss-Prot
PhenoGen Chd6 PhenoGen
PROSITE CHROMO_2 UniProtKB/Swiss-Prot
  DEAH_ATP_HELICASE UniProtKB/Swiss-Prot
  HELICASE_ATP_BIND_1 UniProtKB/Swiss-Prot
  HELICASE_CTER UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000016744 RatGTEx
SMART BRK UniProtKB/Swiss-Prot
  CHROMO UniProtKB/Swiss-Prot
  DEXDc UniProtKB/Swiss-Prot
  HELICc UniProtKB/Swiss-Prot
Superfamily-SCOP SSF52540 UniProtKB/Swiss-Prot
  SSF54160 UniProtKB/Swiss-Prot
UniProt A0A0G2K1L7 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I5Y6Q9 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6A6R3 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6AKM1 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6ARM3 ENTREZGENE, UniProtKB/TrEMBL
  A0A8L2QC41 ENTREZGENE, UniProtKB/TrEMBL
  CHD6_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Chd6  chromodomain helicase DNA binding protein 6   Chd6_predicted  chromodomain helicase DNA binding protein 6 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Chd6_predicted  chromodomain helicase DNA binding protein 6 (predicted)      Symbol and Name status set to approved 70820 APPROVED