Chd7 (chromodomain helicase DNA binding protein 7) - Rat Genome Database

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Gene: Chd7 (chromodomain helicase DNA binding protein 7) Rattus norvegicus
Analyze
Symbol: Chd7
Name: chromodomain helicase DNA binding protein 7
RGD ID: 1311921
Description: Predicted to enable several functions, including ATP hydrolysis activity; ATP-dependent chromatin remodeler activity; and promoter-specific chromatin binding activity. Predicted to be involved in several processes, including face development; nervous system development; and regulation of growth hormone secretion. Predicted to act upstream of or within several processes, including circulatory system development; embryonic morphogenesis; and nervous system development. Predicted to be located in nucleolus and nucleoplasm. Predicted to be part of chromatin. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in CHARGE syndrome and hypogonadotropic hypogonadism 5 with or without anosmia. Orthologous to human CHD7 (chromodomain helicase DNA binding protein 7); PARTICIPATES IN Wnt signaling, non-canonical pathway; INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; 2,6-dinitrotoluene.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: chromodomain-helicase-DNA-binding protein 7; LOC312974
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8526,609,245 - 26,792,736 (+)NCBIGRCr8
mRatBN7.2521,812,007 - 21,995,358 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl521,812,070 - 21,995,358 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx524,042,693 - 24,226,869 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0525,632,041 - 25,815,380 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0525,412,324 - 25,595,635 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0521,769,087 - 21,952,036 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl521,830,882 - 21,950,696 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0526,520,706 - 26,702,242 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4522,549,237 - 22,710,257 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1522,591,442 - 22,710,257 (+)NCBI
Celera521,141,679 - 21,262,470 (+)NCBICelera
Cytogenetic Map5q13NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-epigallocatechin 3-gallate  (ISO)
17beta-estradiol  (EXP,ISO)
17beta-hydroxy-5alpha-androstan-3-one  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,6-dinitrotoluene  (EXP)
3,4-methylenedioxymethamphetamine  (ISO)
4,4'-sulfonyldiphenol  (ISO)
5-aza-2'-deoxycytidine  (ISO)
acrolein  (ISO)
acrylamide  (ISO)
alpha-pinene  (ISO)
alpha-Zearalanol  (EXP)
aristolochic acid A  (ISO)
atrazine  (EXP)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bisphenol A  (EXP,ISO)
cadmium dichloride  (EXP)
caffeine  (ISO)
CGP 52608  (ISO)
chlorpyrifos  (ISO)
ciguatoxin CTX1B  (ISO)
cisplatin  (ISO)
clobetasol  (ISO)
coumarin  (ISO)
dexamethasone  (ISO)
dicrotophos  (ISO)
doxorubicin  (ISO)
epoxiconazole  (ISO)
ethyl methanesulfonate  (ISO)
fenvalerate  (EXP)
formaldehyde  (ISO)
FR900359  (ISO)
fulvestrant  (ISO)
furan  (EXP)
genistein  (ISO)
gentamycin  (EXP)
lead diacetate  (ISO)
lead(0)  (ISO)
leflunomide  (ISO)
manganese atom  (ISO)
manganese(0)  (ISO)
mercury dichloride  (EXP)
methyl methanesulfonate  (ISO)
methylmercury chloride  (EXP)
N,N-diethyl-m-toluamide  (EXP)
nickel dichloride  (EXP)
oxaliplatin  (EXP)
ozone  (ISO)
paracetamol  (ISO)
perfluorooctanoic acid  (EXP)
permethrin  (EXP)
pirinixic acid  (ISO)
potassium chromate  (ISO)
propiconazole  (ISO)
quercetin  (ISO)
sodium arsenite  (EXP,ISO)
sotorasib  (ISO)
sunitinib  (ISO)
titanium dioxide  (ISO)
topotecan  (EXP)
trametinib  (ISO)
triptonide  (ISO)
troglitazone  (ISO)
tunicamycin  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
zinc protoporphyrin  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
adult heart development  (ISO)
adult walking behavior  (ISO)
aorta development  (ISO)
aorta morphogenesis  (ISO)
artery morphogenesis  (ISO)
atrioventricular canal development  (ISO)
biological_process  (ND)
blood circulation  (ISO)
blood vessel development  (ISO)
blood vessel remodeling  (ISO)
camera-type eye development  (ISO)
cardiac septum morphogenesis  (ISO)
central nervous system development  (IBA,ISO)
chordate embryonic development  (IBA)
chromatin remodeling  (IBA,ISO)
cognition  (ISO)
cranial nerve development  (IBA,ISO)
ear morphogenesis  (ISO)
embryonic hindlimb morphogenesis  (ISO)
epithelium development  (ISO)
face development  (ISO)
female genitalia development  (ISO)
genitalia development  (ISO)
heart morphogenesis  (IBA,ISO)
in utero embryonic development  (ISO)
inner ear morphogenesis  (IBA,ISO)
innervation  (ISO)
limb development  (ISO)
locomotory behavior  (ISO)
nose development  (ISO)
olfactory behavior  (ISO)
olfactory bulb development  (ISO)
olfactory nerve development  (ISO)
positive regulation of multicellular organism growth  (ISO)
positive regulation of transcription by RNA polymerase II  (ISO)
regulation of gene expression  (IBA)
regulation of growth hormone secretion  (ISO)
regulation of neurogenesis  (ISO)
regulation of release of sequestered calcium ion into cytosol by sarcoplasmic reticulum  (ISO)
response to bacterium  (ISO)
retina development in camera-type eye  (ISO)
right ventricular compact myocardium morphogenesis  (ISO)
roof of mouth development  (ISO)
secondary palate development  (ISO)
semicircular canal morphogenesis  (ISO)
sensory perception of sound  (ISO)
skeletal system development  (ISO)
T cell differentiation  (ISO)
tissue remodeling  (ISO)
transcription by RNA polymerase II  (ISO)
ventricular trabecula myocardium morphogenesis  (ISO)

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

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Complete screening of 50 patients with CHARGE syndrome for anomalies in the CHD7 gene using a denaturing high-performance liquid chromatography-based protocol: new guidelines and a proposal for routine diagnosis. Bilan F, etal., J Mol Diagn. 2012 Jan;14(1):46-55. doi: 10.1016/j.jmoldx.2011.08.003. Epub 2011 Oct 25.
2. Multiple mutations in mouse Chd7 provide models for CHARGE syndrome. Bosman EA, etal., Hum Mol Genet. 2005 Nov 15;14(22):3463-76. Epub 2005 Oct 5.
3. Genetic analysis of the CHD7 gene in Korean patients with CHARGE syndrome. Cho HJ, etal., Gene. 2013 Apr 1;517(2):164-8. doi: 10.1016/j.gene.2013.01.010. Epub 2013 Jan 17.
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. CHD7 deficiency in "Looper", a new mouse model of CHARGE syndrome, results in ossicle malformation, otosclerosis and hearing impairment. Ogier JM, etal., PLoS One. 2014 May 19;9(5):e97559. doi: 10.1371/journal.pone.0097559. eCollection 2014.
6. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
7. PID Annotation Import Pipeline Pipeline to import Pathway Interaction Database annotations from NCI into RGD
8. GOA pipeline RGD automated data pipeline
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. Molecular analysis of the CHD7 gene in CHARGE syndrome: identification of 22 novel mutations and evidence for a low contribution of large CHD7 deletions. Vuorela P, etal., Genet Med. 2007 Oct;9(10):690-4.
13. Novel CHD7 mutations contributing to the mutation spectrum in patients with CHARGE syndrome. Wessels K, etal., Eur J Med Genet. 2010 Sep-Oct;53(5):280-5. doi: 10.1016/j.ejmg.2010.07.002. Epub 2010 Jul 30.
14. CHD7 mutation spectrum in 28 Swedish patients diagnosed with CHARGE syndrome. Wincent J, etal., Clin Genet. 2008 Jul;74(1):31-8. doi: 10.1111/j.1399-0004.2008.01014.x. Epub 2008 Apr 28.
Additional References at PubMed
PMID:8889548   PMID:9556299   PMID:10932191   PMID:15300250   PMID:15353999   PMID:16155193   PMID:17684005   PMID:17937444   PMID:19279158   PMID:19855134   PMID:20453063   PMID:23012479  
PMID:23319608   PMID:26102480  


Genomics

Comparative Map Data
Chd7
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8526,609,245 - 26,792,736 (+)NCBIGRCr8
mRatBN7.2521,812,007 - 21,995,358 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl521,812,070 - 21,995,358 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx524,042,693 - 24,226,869 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0525,632,041 - 25,815,380 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0525,412,324 - 25,595,635 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0521,769,087 - 21,952,036 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl521,830,882 - 21,950,696 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0526,520,706 - 26,702,242 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4522,549,237 - 22,710,257 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1522,591,442 - 22,710,257 (+)NCBI
Celera521,141,679 - 21,262,470 (+)NCBICelera
Cytogenetic Map5q13NCBI
CHD7
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38860,678,740 - 60,868,028 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl860,678,740 - 60,868,028 (+)EnsemblGRCh38hg38GRCh38
GRCh37861,591,299 - 61,780,587 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36861,753,893 - 61,942,019 (+)NCBINCBI36Build 36hg18NCBI36
Celera857,580,946 - 57,769,196 (+)NCBICelera
Cytogenetic Map8q12.2NCBI
HuRef857,078,404 - 57,267,234 (+)NCBIHuRef
CHM1_1861,643,239 - 61,832,394 (+)NCBICHM1_1
T2T-CHM13v2.0861,102,480 - 61,291,800 (+)NCBIT2T-CHM13v2.0
Chd7
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3948,690,345 - 8,868,449 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl48,690,406 - 8,867,659 (+)EnsemblGRCm39 Ensembl
GRCm3848,690,402 - 8,868,449 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl48,690,406 - 8,867,659 (+)EnsemblGRCm38mm10GRCm38
MGSCv3748,618,068 - 8,793,957 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3648,617,551 - 8,793,957 (+)NCBIMGSCv36mm8
Celera48,587,948 - 8,703,577 (+)NCBICelera
Cytogenetic Map4A1NCBI
cM Map43.68NCBI
Chd7
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544417,858,771 - 18,067,248 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495544417,859,999 - 18,067,623 (-)NCBIChiLan1.0ChiLan1.0
CHD7
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2776,327,333 - 76,519,037 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1851,986,509 - 52,178,169 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0857,091,002 - 57,282,471 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1858,816,836 - 58,945,186 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl858,816,840 - 58,945,186 (+)Ensemblpanpan1.1panPan2
CHD7
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12911,115,865 - 11,284,713 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2911,156,340 - 11,283,627 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2911,408,517 - 11,599,846 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02911,188,422 - 11,379,518 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2911,188,394 - 11,379,154 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12911,181,435 - 11,372,486 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02911,318,005 - 11,509,173 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02911,586,964 - 11,778,508 (+)NCBIUU_Cfam_GSD_1.0
Chd7
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440530362,220,800 - 62,404,249 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493649612,381,126 - 12,505,150 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493649612,381,225 - 12,505,121 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CHD7
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl472,573,453 - 72,694,146 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1472,572,455 - 72,754,443 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2479,030,873 - 79,152,740 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CHD7
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1856,654,939 - 56,782,803 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl856,657,826 - 56,785,804 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603984,886,490 - 85,079,954 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Chd7
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474431,103,059 - 31,235,623 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474431,103,053 - 31,302,314 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Chd7
1320 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:29
Count of miRNA genes:16
Interacting mature miRNAs:24
Transcripts:ENSRNOT00000008901
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.


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
2312562Pur18Proteinuria QTL 182.60.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)5213896532656739Rat
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
2313085Bss59Bone structure and strength QTL 592.90.0001long bone metaphysis morphology trait (VT:0000133)tibia midshaft total cross-sectional area (CMO:0001715)5384401826141981Rat
1300117Hrtrt8Heart rate QTL 83.49heart pumping trait (VT:2000009)heart rate (CMO:0000002)5384401847869213Rat
61462Niddm10Non-insulin dependent diabetes mellitus QTL 103.90.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)5511215947171491Rat
2293666Bmd38Bone mineral density QTL 384.4femur size trait (VT:1000369)femoral neck cortical cross-sectional area (CMO:0001702)5894822853948228Rat
7394712Emca13Estrogen-induced mammary cancer QTL 13mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)5982326699753708Rat
1641903Alcrsp3Alcohol response QTL 3response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)51268928557689285Rat
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

Markers in Region
RH135218  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2521,871,847 - 21,872,066 (+)MAPPERmRatBN7.2
Rnor_6.0521,828,856 - 21,829,074NCBIRnor6.0
Rnor_5.0526,579,656 - 26,579,874UniSTSRnor5.0
RGSC_v3.4522,589,248 - 22,589,466UniSTSRGSC3.4
Celera521,139,657 - 21,139,875UniSTS
RH 3.4 Map5111.5UniSTS
Cytogenetic Map5q13UniSTS
AA998568  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2521,811,543 - 21,811,709 (+)MAPPERmRatBN7.2
Rnor_6.0521,768,564 - 21,768,729NCBIRnor6.0
Rnor_5.0526,520,231 - 26,520,396UniSTSRnor5.0
RGSC_v3.4522,528,906 - 22,529,071UniSTSRGSC3.4
Celera521,079,664 - 21,079,829UniSTS
Cytogenetic Map5q13UniSTS
AI231343  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2521,873,896 - 21,874,046 (+)MAPPERmRatBN7.2
Rnor_6.0521,830,905 - 21,831,054NCBIRnor6.0
Rnor_5.0526,581,705 - 26,581,854UniSTSRnor5.0
RGSC_v3.4522,591,297 - 22,591,446UniSTSRGSC3.4
Celera521,141,706 - 21,141,855UniSTS
RH 3.4 Map5114.8UniSTS
Cytogenetic Map5q13UniSTS


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 2 22 16 16 11 16 61 16 13 11
Low 1 21 41 25 8 25 8 11 13 19 28 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000008901   ⟹   ENSRNOP00000008901
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl521,812,070 - 21,995,358 (+)Ensembl
Rnor_6.0 Ensembl521,830,882 - 21,950,696 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000104102   ⟹   ENSRNOP00000093253
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl521,812,070 - 21,995,358 (+)Ensembl
RefSeq Acc Id: NM_001107906   ⟹   NP_001101376
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8526,609,407 - 26,792,734 (+)NCBI
mRatBN7.2521,812,010 - 21,995,358 (+)NCBI
RefSeq Acc Id: XM_006237848   ⟹   XP_006237910
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8526,609,245 - 26,792,736 (+)NCBI
mRatBN7.2521,812,007 - 21,993,257 (+)NCBI
Rnor_6.0521,769,087 - 21,952,036 (+)NCBI
Rnor_5.0526,520,706 - 26,702,242 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039109764   ⟹   XP_038965692
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8526,610,046 - 26,792,736 (+)NCBI
mRatBN7.2521,812,889 - 21,993,257 (+)NCBI
RefSeq Acc Id: XM_039109765   ⟹   XP_038965693
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8526,728,325 - 26,792,736 (+)NCBI
mRatBN7.2521,930,991 - 21,995,358 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001101376 (Get FASTA)   NCBI Sequence Viewer  
  XP_006237910 (Get FASTA)   NCBI Sequence Viewer  
  XP_038965692 (Get FASTA)   NCBI Sequence Viewer  
  XP_038965693 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM11649 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000008901
  ENSRNOP00000008901.7
  ENSRNOP00000093253.1
Reference Protein Sequences
RefSeq Acc Id: XP_006237910   ⟸   XM_006237848
- Peptide Label: isoform X2
- UniProtKB: D3ZAP7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000008901   ⟸   ENSRNOT00000008901
RefSeq Acc Id: NP_001101376   ⟸   NM_001107906
- UniProtKB: D3ZAP7 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038965692   ⟸   XM_039109764
- Peptide Label: isoform X1
- UniProtKB: D3ZAP7 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038965693   ⟸   XM_039109765
- Peptide Label: isoform X3
RefSeq Acc Id: ENSRNOP00000093253   ⟸   ENSRNOT00000104102
Protein Domains
BRK   Chromo   Helicase ATP-binding   Helicase C-terminal

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:1311921 AgrOrtholog
BioCyc Gene G2FUF-42020 BioCyc
Ensembl Genes ENSRNOG00000006689 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000008901 ENTREZGENE
  ENSRNOT00000008901.8 UniProtKB/TrEMBL
  ENSRNOT00000104102.1 UniProtKB/TrEMBL
Gene3D-CATH 2.40.50.40 UniProtKB/TrEMBL
  3.40.5.120 UniProtKB/TrEMBL
  3.40.50.10810 UniProtKB/TrEMBL
  3.40.50.300 UniProtKB/TrEMBL
  Homeodomain-like UniProtKB/TrEMBL
InterPro BRK_domain UniProtKB/TrEMBL
  BRK_sf UniProtKB/TrEMBL
  Chromo_domain UniProtKB/TrEMBL
  Chromodomain UniProtKB/TrEMBL
  Chromodomain-like UniProtKB/TrEMBL
  DEAD-like_N UniProtKB/TrEMBL
  DNA/RNA_helicase_C UniProtKB/TrEMBL
  P-loop_NTPase UniProtKB/TrEMBL
  SNF2-like_sf UniProtKB/TrEMBL
  SNF2/RAD54-like_C UniProtKB/TrEMBL
  SNF2_N UniProtKB/TrEMBL
NCBI Gene 312974 ENTREZGENE
PANTHER CHROMODOMAIN-HELICASE-DNA-BINDING PROTEIN 9 UniProtKB/TrEMBL
  DNA HELICASE UniProtKB/TrEMBL
  PTHR46850:SF2 UniProtKB/TrEMBL
Pfam BRK UniProtKB/TrEMBL
  Chromo UniProtKB/TrEMBL
  Helicase_C UniProtKB/TrEMBL
  SNF2_N UniProtKB/TrEMBL
PhenoGen Chd7 PhenoGen
PROSITE CHROMO_2 UniProtKB/TrEMBL
  HELICASE_ATP_BIND_1 UniProtKB/TrEMBL
  HELICASE_CTER UniProtKB/TrEMBL
RatGTEx ENSRNOG00000006689 RatGTEx
SMART BRK UniProtKB/TrEMBL
  CHROMO UniProtKB/TrEMBL
  DEXDc UniProtKB/TrEMBL
  HELICc UniProtKB/TrEMBL
Superfamily-SCOP Chromodomain-like UniProtKB/TrEMBL
  SSF160481 UniProtKB/TrEMBL
  SSF52540 UniProtKB/TrEMBL
UniProt A0A8I6AJI8_RAT UniProtKB/TrEMBL
  D3ZAP7 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Chd7  chromodomain helicase DNA binding protein 7   Chd7_predicted  chromodomain helicase DNA binding protein 7 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Chd7_predicted  chromodomain helicase DNA binding protein 7 (predicted)      Symbol and Name status set to approved 70820 APPROVED