Chd5 (chromodomain helicase DNA binding protein 5) - Rat Genome Database

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Gene: Chd5 (chromodomain helicase DNA binding protein 5) Rattus norvegicus
Analyze
Symbol: Chd5
Name: chromodomain helicase DNA binding protein 5
RGD ID: 1582725
Description: Enables chromatin binding activity. Involved in transcription by RNA polymerase II. Located in chromatin and nucleus. Orthologous to human CHD5 (chromodomain helicase DNA binding protein 5); PARTICIPATES IN CHD family mediated chromatin remodeling pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 4,4'-sulfonyldiphenol; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: ATP-dependent helicase CHD5; CHD-5; chromodomain-helicase-DNA-binding protein 5; LOC691589; similar to chromodomain helicase DNA binding protein 5
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
GRCr85168,130,851 - 168,181,705 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl5168,130,575 - 168,179,441 (+)EnsemblGRCr8
mRatBN7.25162,848,273 - 162,898,997 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5162,848,394 - 162,896,291 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx5165,551,428 - 165,599,452 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.05167,373,028 - 167,421,054 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.05167,335,230 - 167,383,257 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.05169,519,212 - 169,572,059 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5169,519,212 - 169,567,107 (+)Ensemblrn6Rnor6.0
Rnor_5.05173,072,537 - 173,124,329 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.45169,570,804 - 169,616,812 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera5161,089,207 - 161,126,951 (+)NCBICelera
Cytogenetic Map5q36NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
chromatin  (IBA,IDA,IEA)
chromosome  (IEA)
heterochromatin  (ISO,ISS)
nuclear speck  (IEA,ISO)
nucleoplasm  (IEA,ISO)
nucleus  (IBA,IDA,IEA,ISO)
NuRD complex  (IBA,ISO,ISS)

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. The nucleosome remodeling and deacetylase complex in development and disease. Basta J and Rauchman M, Transl Res. 2014 May 10. pii: S1931-5244(14)00166-2. doi: 10.1016/j.trsl.2014.05.003.
2. 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.
3. CHD5, a brain-specific paralog of Mi2 chromatin remodeling enzymes, regulates expression of neuronal genes. Potts RC, etal., PLoS One. 2011;6(9):e24515. doi: 10.1371/journal.pone.0024515. Epub 2011 Sep 13.
4. GOA pipeline RGD automated data pipeline
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
7. Comprehensive gene review and curation RGD comprehensive gene curation
8. Identification of a transcriptionally active peroxisome proliferator-activated receptor alpha -interacting cofactor complex in rat liver and characterization of PRIC285 as a coactivator. Surapureddi S, etal., Proc Natl Acad Sci U S A 2002 Sep 3;99(18):11836-41.
9. Mutual regulation between CHD5 and EZH2 in hepatocellular carcinoma. Xie CR, etal., Oncotarget. 2015 Dec 1;6(38):40940-52. doi: 10.18632/oncotarget.5724.
Additional References at PubMed
PMID:17289567   PMID:19946888   PMID:23318260   PMID:23948251   PMID:24252660  


Genomics

Comparative Map Data
Chd5
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr85168,130,851 - 168,181,705 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl5168,130,575 - 168,179,441 (+)EnsemblGRCr8
mRatBN7.25162,848,273 - 162,898,997 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5162,848,394 - 162,896,291 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx5165,551,428 - 165,599,452 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.05167,373,028 - 167,421,054 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.05167,335,230 - 167,383,257 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.05169,519,212 - 169,572,059 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5169,519,212 - 169,567,107 (+)Ensemblrn6Rnor6.0
Rnor_5.05173,072,537 - 173,124,329 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.45169,570,804 - 169,616,812 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera5161,089,207 - 161,126,951 (+)NCBICelera
Cytogenetic Map5q36NCBI
CHD5
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3816,101,787 - 6,180,321 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl16,101,787 - 6,180,321 (-)Ensemblhg38GRCh38
GRCh3716,161,847 - 6,240,381 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3616,084,440 - 6,162,770 (-)NCBIBuild 36Build 36hg18NCBI36
Build 3416,096,118 - 6,174,449NCBI
Celera15,276,664 - 5,354,707 (-)NCBICelera
Cytogenetic Map1p36.31NCBI
HuRef15,310,665 - 5,388,563 (-)NCBIHuRef
CHM1_116,150,226 - 6,228,570 (-)NCBICHM1_1
T2T-CHM13v2.015,627,473 - 5,705,967 (-)NCBIT2T-CHM13v2.0
Chd5
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm394152,423,103 - 152,474,651 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl4152,423,108 - 152,474,651 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm384152,338,646 - 152,390,194 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl4152,338,651 - 152,390,194 (+)Ensemblmm10GRCm38
MGSCv374151,712,760 - 151,764,303 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv364151,182,451 - 151,233,994 (+)NCBIMGSCv36mm8
Celera4154,635,153 - 154,677,359 (+)NCBICelera
Cytogenetic Map4E2NCBI
cM Map483.04NCBI
Chd5
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554866,320,380 - 6,369,065 (+)Ensembl
ChiLan1.0NW_0049554866,320,380 - 6,369,020 (+)NCBIChiLan1.0ChiLan1.0
CHD5
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21222,043,405 - 222,123,005 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11220,684,439 - 220,764,049 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v014,867,636 - 4,947,401 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.116,121,040 - 6,190,367 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl16,125,525 - 6,191,991 (-)EnsemblpanPan2panpan1.1
CHD5
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1560,022,451 - 60,080,663 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl560,025,602 - 60,081,148 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha560,035,909 - 60,094,034 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0560,241,590 - 60,299,755 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl560,238,759 - 60,299,714 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1560,241,294 - 60,299,358 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0560,107,975 - 60,166,057 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0560,509,416 - 60,567,561 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Chd5
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505830,503,185 - 30,559,221 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936623991,193 - 1,046,969 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_004936623988,423 - 1,046,969 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CHD5
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl667,017,417 - 67,086,711 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1667,017,410 - 67,086,685 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2661,940,486 - 62,084,194 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CHD5
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.120125,558,640 - 125,635,748 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl20125,558,713 - 125,631,277 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366605429,664,099 - 29,783,593 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Chd5
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248185,203,304 - 5,249,033 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046248185,203,200 - 5,251,057 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Chd5
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v118,355,786 - 8,402,236 (-)NCBIRrattus_CSIRO_v1

miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:241
Count of miRNA genes:141
Interacting mature miRNAs:150
Transcripts:ENSRNOT00000024732, ENSRNOT00000067364, ENSRNOT00000067892
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
1576312Emca8Estrogen-induced mammary cancer QTL 84.1mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)555124766172190305Rat
10053720Scort26Serum corticosterone level QTL 262.060.0147blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)5130249266172190305Rat
1354583Despr3Despair related QTL34.980.0002locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)5132930505172190305Rat
61444Strs2Sensitivity to stroke QTL 24.7cerebrum integrity trait (VT:0010549)post-insult time to onset of cerebrovascular lesion (CMO:0002343)5141212838172190305Rat
1300119Bp180Blood pressure QTL 1803.82arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)5149642129171146538Rat
724525Bp147Blood pressure QTL 1474.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5131708216172190305Rat
1549904Neuinf1Neuroinflammation QTL 130nervous system integrity trait (VT:0010566)blood T lymphocyte count (CMO:0000110)5160111176171146538Rat
61452Ciaa5CIA Autoantibody QTL 53.5blood autoantibody amount (VT:0003725)calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)599905133172190305Rat
8552908Pigfal4Plasma insulin-like growth factor 1 level QTL 46.6blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)5133789363172190305Rat
1331803Rf32Renal function QTL 322.798kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)5134369199172190305Rat
7794791Mcs33Mammary carcinoma susceptibility QTL 331.93mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)5136631198172190305Rat
1354631Swd2Spike wave discharge measurement QTL 23.640.0002brain electrophysiology trait (VT:0010557)brain total spike-and-wave discharge duration (CMO:0001740)5156396728172190305Rat
1598861Cm64Cardiac mass QTL 642.9heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)5133081618172190305Rat
631505Bp103Blood pressure QTL 1033.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5138002522170842766Rat
1581505Rf54Renal function QTL 54kidney physiology trait (VT:0002136)kidney 20-HETE level (CMO:0001854)5133270647172190305Rat
1298090Bp155Blood pressure QTL 1553.8arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)5156289283171137955Rat
1641920Colcs1Colorectal carcinoma susceptibility QTL 12.990.0055intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)5160071170172129029Rat
2317753Glom24Glomerulus QTL 243.1kidney glomerulus integrity trait (VT:0010546)kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)5141764300172190305Rat
1598819Bp292Blood pressure QTL 2924.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5133081618172190305Rat
8694169Bw148Body weight QTL 14850.001body mass (VT:0001259)body weight gain (CMO:0000420)5133789363172190305Rat
1331721Bp210Blood pressure QTL 2103.413arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)5148093485172129029Rat
1581510Cm54Cardiac mass QTL 543.40.05heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)5125969677172190305Rat

Markers in Region
D5S619  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_5.05173,086,343 - 173,086,624NCBIRnor5.0
Rnor_5.01014,056,298 - 14,056,408NCBIRnor5.0
RGSC_v3.41014,127,391 - 14,127,500UniSTSRGSC3.4
RGSC_v3.45169,584,067 - 169,584,347UniSTSRGSC3.4
Celera1013,578,514 - 13,578,623UniSTS
Celera5161,092,523 - 161,092,803UniSTS
Cytogenetic Map10q12UniSTS
Cytogenetic Map5q36UniSTS
AU046936  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr85168,165,387 - 168,165,564 (+)Marker Load Pipeline
mRatBN7.25162,882,670 - 162,882,847 (+)MAPPERmRatBN7.2
Rnor_6.05169,553,487 - 169,553,663NCBIRnor6.0
Rnor_5.05173,107,150 - 173,107,326UniSTSRnor5.0
RGSC_v3.45169,604,873 - 169,605,049UniSTSRGSC3.4
Celera5161,113,329 - 161,113,505UniSTS
Cytogenetic Map5q36UniSTS


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 42 160 68 67 36 76 36 6 291 150 10 135 81 89 31 17 17

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001271226 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593639 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593640 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593641 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593642 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593643 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593644 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593645 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593646 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593647 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593648 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593649 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039110813 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039110815 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063288455 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063288457 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063288458 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC097926 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC135674 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000005 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000024732   ⟹   ENSRNOP00000024732
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl5168,130,575 - 168,179,008 (+)Ensembl
mRatBN7.2 Ensembl5162,848,394 - 162,896,291 (+)Ensembl
Rnor_6.0 Ensembl5169,519,212 - 169,567,107 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000067892   ⟹   ENSRNOP00000060241
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl5168,141,057 - 168,177,408 (+)Ensembl
mRatBN7.2 Ensembl5162,858,339 - 162,894,691 (+)Ensembl
Rnor_6.0 Ensembl5169,521,179 - 169,565,421 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000101172   ⟹   ENSRNOP00000084279
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl5168,133,717 - 168,179,441 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000101697   ⟹   ENSRNOP00000086830
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl5168,131,112 - 168,179,008 (+)Ensembl
mRatBN7.2 Ensembl5162,848,394 - 162,896,291 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000112715   ⟹   ENSRNOP00000087017
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl5168,131,112 - 168,179,008 (+)Ensembl
mRatBN7.2 Ensembl5162,848,394 - 162,896,291 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000170038   ⟹   ENSRNOP00000099286
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl5168,130,575 - 168,179,441 (+)Ensembl
RefSeq Acc Id: NM_001271226   ⟹   NP_001258155
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr85168,131,112 - 168,179,008 (+)NCBI
mRatBN7.25162,848,394 - 162,896,291 (+)NCBI
Rnor_6.05169,519,212 - 169,567,107 (+)NCBI
Rnor_5.05173,072,537 - 173,124,329 (+)NCBI
Celera5161,089,207 - 161,126,951 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017593639   ⟹   XP_017449128
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr85168,130,851 - 168,181,705 (+)NCBI
mRatBN7.25162,848,274 - 162,898,997 (+)NCBI
Rnor_6.05169,519,218 - 169,572,059 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017593640   ⟹   XP_017449129
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr85168,130,851 - 168,181,705 (+)NCBI
mRatBN7.25162,848,274 - 162,898,997 (+)NCBI
Rnor_6.05169,519,234 - 169,572,059 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017593641   ⟹   XP_017449130
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr85168,130,851 - 168,181,705 (+)NCBI
mRatBN7.25162,848,274 - 162,898,997 (+)NCBI
Rnor_6.05169,519,218 - 169,572,059 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017593642   ⟹   XP_017449131
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr85168,130,851 - 168,181,705 (+)NCBI
mRatBN7.25162,848,274 - 162,898,997 (+)NCBI
Rnor_6.05169,519,234 - 169,572,059 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017593643   ⟹   XP_017449132
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr85168,130,851 - 168,181,705 (+)NCBI
mRatBN7.25162,848,274 - 162,898,997 (+)NCBI
Rnor_6.05169,519,234 - 169,572,059 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017593644   ⟹   XP_017449133
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr85168,133,796 - 168,181,705 (+)NCBI
mRatBN7.25162,851,073 - 162,898,997 (+)NCBI
Rnor_6.05169,521,976 - 169,572,059 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017593645   ⟹   XP_017449134
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr85168,130,851 - 168,178,591 (+)NCBI
mRatBN7.25162,848,274 - 162,895,816 (+)NCBI
Rnor_6.05169,519,234 - 169,566,582 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017593646   ⟹   XP_017449135
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr85168,130,851 - 168,178,492 (+)NCBI
mRatBN7.25162,848,274 - 162,898,997 (+)NCBI
Rnor_6.05169,519,234 - 169,572,059 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017593647   ⟹   XP_017449136
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr85168,130,851 - 168,181,705 (+)NCBI
mRatBN7.25162,848,274 - 162,898,997 (+)NCBI
Rnor_6.05169,519,234 - 169,566,640 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017593648   ⟹   XP_017449137
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr85168,130,851 - 168,181,705 (+)NCBI
mRatBN7.25162,848,274 - 162,898,997 (+)NCBI
Rnor_6.05169,519,234 - 169,566,640 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017593649   ⟹   XP_017449138
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr85168,130,851 - 168,181,705 (+)NCBI
mRatBN7.25162,848,274 - 162,898,997 (+)NCBI
Rnor_6.05169,519,234 - 169,566,640 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039110813   ⟹   XP_038966741
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr85168,130,851 - 168,181,705 (+)NCBI
mRatBN7.25162,848,274 - 162,898,997 (+)NCBI
RefSeq Acc Id: XM_039110815   ⟹   XP_038966743
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr85168,130,851 - 168,171,358 (+)NCBI
mRatBN7.25162,848,273 - 162,888,642 (+)NCBI
RefSeq Acc Id: XM_063288455   ⟹   XP_063144525
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr85168,130,851 - 168,181,705 (+)NCBI
RefSeq Acc Id: XM_063288457   ⟹   XP_063144527
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr85168,130,851 - 168,181,705 (+)NCBI
RefSeq Acc Id: XM_063288458   ⟹   XP_063144528
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr85168,130,851 - 168,181,705 (+)NCBI
RefSeq Acc Id: NP_001258155   ⟸   NM_001271226
- UniProtKB: D3ZD32 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_017449128   ⟸   XM_017593639
- Peptide Label: isoform X1
- UniProtKB: D3ZD32 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_017449130   ⟸   XM_017593641
- Peptide Label: isoform X3
- UniProtKB: D3ZD32 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_017449135   ⟸   XM_017593646
- Peptide Label: isoform X7
- UniProtKB: D3ZD32 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_017449129   ⟸   XM_017593640
- Peptide Label: isoform X2
- UniProtKB: D3ZD32 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_017449131   ⟸   XM_017593642
- Peptide Label: isoform X4
- UniProtKB: D3ZD32 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_017449132   ⟸   XM_017593643
- Peptide Label: isoform X5
- UniProtKB: D3ZD32 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_017449136   ⟸   XM_017593647
- Peptide Label: isoform X8
- UniProtKB: D3ZD32 (UniProtKB/Swiss-Prot),   A0A8I6A737 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017449137   ⟸   XM_017593648
- Peptide Label: isoform X11
- UniProtKB: D3ZD32 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_017449138   ⟸   XM_017593649
- Peptide Label: isoform X12
- UniProtKB: D3ZD32 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_017449134   ⟸   XM_017593645
- Peptide Label: isoform X6
- UniProtKB: D3ZD32 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_017449133   ⟸   XM_017593644
- Peptide Label: isoform X15
- UniProtKB: A0A0H2UHP5 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000060241   ⟸   ENSRNOT00000067892
Ensembl Acc Id: ENSRNOP00000024732   ⟸   ENSRNOT00000024732
RefSeq Acc Id: XP_038966743   ⟸   XM_039110815
- Peptide Label: isoform X16
RefSeq Acc Id: XP_038966741   ⟸   XM_039110813
- Peptide Label: isoform X10
- UniProtKB: D3ZD32 (UniProtKB/Swiss-Prot)
Ensembl Acc Id: ENSRNOP00000086830   ⟸   ENSRNOT00000101697
Ensembl Acc Id: ENSRNOP00000087017   ⟸   ENSRNOT00000112715
RefSeq Acc Id: XP_063144527   ⟸   XM_063288457
- Peptide Label: isoform X13
- UniProtKB: D3ZD32 (UniProtKB/Swiss-Prot)
RefSeq Acc Id: XP_063144525   ⟸   XM_063288455
- Peptide Label: isoform X9
- UniProtKB: D3ZD32 (UniProtKB/Swiss-Prot)
RefSeq Acc Id: XP_063144528   ⟸   XM_063288458
- Peptide Label: isoform X14
- UniProtKB: D3ZD32 (UniProtKB/Swiss-Prot)
Ensembl Acc Id: ENSRNOP00000099286   ⟸   ENSRNOT00000170038
Ensembl Acc Id: ENSRNOP00000084279   ⟸   ENSRNOT00000101172
Protein Domains
Chromo   Helicase ATP-binding   Helicase C-terminal   PHD-type

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZD32-F1-model_v2 AlphaFold D3ZD32 1-1948 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:1582725 AgrOrtholog
BioCyc Gene G2FUF-39012 BioCyc
Ensembl Genes ENSRNOG00000011268 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000101172 ENTREZGENE
  ENSRNOT00000101697 ENTREZGENE
  ENSRNOT00000112715 ENTREZGENE
  ENSRNOT00000170038 ENTREZGENE
Gene3D-CATH 2.40.50.40 UniProtKB/Swiss-Prot
  3.30.40.10 UniProtKB/Swiss-Prot
  3.40.50.10810 UniProtKB/Swiss-Prot
  3.40.50.300 UniProtKB/Swiss-Prot
  Homeodomain-like UniProtKB/Swiss-Prot
InterPro CHD5 UniProtKB/Swiss-Prot
  CHD_C2 UniProtKB/Swiss-Prot
  CHD_N 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
  DUF1086 UniProtKB/Swiss-Prot
  DUF1087 UniProtKB/Swiss-Prot
  Helicase_ATP-bd UniProtKB/Swiss-Prot
  Helicase_C 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
  Zinc_finger_PHD-type_CS UniProtKB/Swiss-Prot
  Znf_FYVE_PHD UniProtKB/Swiss-Prot
  Znf_PHD UniProtKB/Swiss-Prot
  Znf_PHD-finger UniProtKB/Swiss-Prot
  Znf_RING/FYVE/PHD UniProtKB/Swiss-Prot
NCBI Gene 691589 ENTREZGENE
PANTHER CHROMODOMAIN-HELICASE-DNA-BINDING PROTEIN 3-RELATED-RELATED UniProtKB/Swiss-Prot
  PTHR45623:SF6 UniProtKB/Swiss-Prot
Pfam CHDCT2 UniProtKB/Swiss-Prot
  CHDNT UniProtKB/Swiss-Prot
  Chromo UniProtKB/Swiss-Prot
  DUF1086 UniProtKB/Swiss-Prot
  DUF1087 UniProtKB/Swiss-Prot
  Helicase_C UniProtKB/Swiss-Prot
  PHD UniProtKB/Swiss-Prot
  SNF2_N UniProtKB/Swiss-Prot
PhenoGen Chd5 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
  ZF_PHD_1 UniProtKB/Swiss-Prot
  ZF_PHD_2 UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000011268 RatGTEx
SMART CHROMO UniProtKB/Swiss-Prot
  DEXDc UniProtKB/Swiss-Prot
  DUF1086 UniProtKB/Swiss-Prot
  DUF1087 UniProtKB/Swiss-Prot
  HELICc UniProtKB/Swiss-Prot
  PHD UniProtKB/Swiss-Prot
Superfamily-SCOP SSF52540 UniProtKB/Swiss-Prot
  SSF54160 UniProtKB/Swiss-Prot
  SSF57903 UniProtKB/Swiss-Prot
UniProt A0A0H2UHP5 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I5ZZ60_RAT UniProtKB/TrEMBL
  A0A8I6A2F7_RAT UniProtKB/TrEMBL
  A0A8I6A737 ENTREZGENE, UniProtKB/TrEMBL
  A0ABK0KXM5_RAT UniProtKB/TrEMBL
  CHD5_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  D3ZR50_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-06 Chd5  chromodomain helicase DNA binding protein 5  LOC691589  similar to chromodomain helicase DNA binding protein 5  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-01-09 LOC691589  similar to chromodomain helicase DNA binding protein 5  LOC686986  similar to chromodomain helicase DNA binding protein 5  Data merged from RGD:1591235 1643240 APPROVED
2006-11-20 LOC686986  similar to chromodomain helicase DNA binding protein 5      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-19 LOC691589  similar to chromodomain helicase DNA binding protein 5      Symbol and Name status set to provisional 70820 PROVISIONAL