Chchd2 (coiled-coil-helix-coiled-coil-helix domain containing 2) - Rat Genome Database

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Pathways
Gene: Chchd2 (coiled-coil-helix-coiled-coil-helix domain containing 2) Mus musculus
Analyze
Symbol: Chchd2
Name: coiled-coil-helix-coiled-coil-helix domain containing 2
RGD ID: 1320362
MGI Page MGI
Description: Predicted to enable DNA-binding transcription factor binding activity and sequence-specific DNA binding activity. Predicted to be involved in several processes, including positive regulation of mitochondrial ATP synthesis coupled electron transport; positive regulation of transcription by RNA polymerase II; and regulation of cellular response to hypoxia. Located in mitochondrion. Is expressed in several structures, including diaphragm; gonad; head mesenchyme; heart ventricle; and vertebral axis musculature. Human ortholog(s) of this gene implicated in Parkinson's disease 22. Orthologous to several human genes including CHCHD2 (coiled-coil-helix-coiled-coil-helix domain containing 2).
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: AL033347; coiled-coil-helix-coiled-coil-helix domain-containing protein 2; coiled-coil-helix-coiled-coil-helix domain-containing protein 2, mitochondrial; ethanol induced 6; Etoh; Etohi6; MGC103085
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Related Pseudogenes: Chchd2-ps   Gm11978   Gm12350   Gm6222  
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm395129,910,002 - 129,916,311 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl5129,909,997 - 129,916,311 (-)EnsemblGRCm39 Ensembl
GRCm385129,881,161 - 129,887,470 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl5129,881,156 - 129,887,470 (-)EnsemblGRCm38mm10GRCm38
MGSCv375130,357,032 - 130,363,340 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv365130,165,865 - 130,172,173 (-)NCBIMGSCv36mm8
Celera5126,880,556 - 126,886,855 (-)NCBICelera
Cytogenetic Map5G1.3NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Functional annotation of a full-length mouse cDNA collection. Kawai J, etal., Nature. 2001 Feb 8;409(6821):685-90.
2. MGDs mouse GO annotations MGD data from the GO Consortium
3. Integrated analysis of protein composition, tissue diversity, and gene regulation in mouse mitochondria. Mootha VK, etal., Cell 2003 Nov 26;115(5):629-40.
4. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
5. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
6. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
7. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
8. Database resources of the National Center for Biotechnology Information. Wheeler DL, etal., Nucleic Acids Res 2001 Jan 1;29(1):11-6.
Additional References at PubMed
PMID:7671812   PMID:8889548   PMID:9502196   PMID:10349636   PMID:10922068   PMID:11042159   PMID:11076861   PMID:12477932   PMID:14595844   PMID:15489334   PMID:15782199   PMID:16141072  
PMID:16141073   PMID:16602821   PMID:17208939   PMID:17500595   PMID:18614015   PMID:19812375   PMID:21267068   PMID:21677750   PMID:21873635   PMID:27224923   PMID:28589937   PMID:30084972  
PMID:30550785   PMID:32325033   PMID:32338760   PMID:33631794   PMID:34791217   PMID:36322611   PMID:36477358  


Genomics

Comparative Map Data
Chchd2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm395129,910,002 - 129,916,311 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl5129,909,997 - 129,916,311 (-)EnsemblGRCm39 Ensembl
GRCm385129,881,161 - 129,887,470 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl5129,881,156 - 129,887,470 (-)EnsemblGRCm38mm10GRCm38
MGSCv375130,357,032 - 130,363,340 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv365130,165,865 - 130,172,173 (-)NCBIMGSCv36mm8
Celera5126,880,556 - 126,886,855 (-)NCBICelera
Cytogenetic Map5G1.3NCBI
CHCHD2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38756,101,573 - 56,106,476 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl756,101,573 - 56,106,476 (-)EnsemblGRCh38hg38GRCh38
GRCh37756,169,266 - 56,174,169 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36756,136,760 - 56,141,681 (-)NCBINCBI36Build 36hg18NCBI36
Build 34755,943,476 - 55,948,396NCBI
Celera767,222,175 - 67,227,096 (-)NCBICelera
Cytogenetic Map7p11.2NCBI
HuRef755,983,486 - 55,988,171 (-)NCBIHuRef
CHM1_1756,172,294 - 56,177,215 (-)NCBICHM1_1
T2T-CHM13v2.0756,261,388 - 56,266,291 (-)NCBIT2T-CHM13v2.0
CRA_TCAGchr7v2756,173,513 - 56,178,434 (-)NCBI
Chchd2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21226,828,738 - 26,834,762 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1226,828,736 - 26,834,755 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1227,966,904 - 27,972,907 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01228,577,441 - 28,583,445 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01227,638,927 - 27,644,930 (+)NCBIRnor_WKY
Rnor_6.01230,443,343 - 30,446,075 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01232,384,075 - 32,388,506 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera1228,535,027 - 28,540,873 (+)NCBICelera
Cytogenetic Map12q13NCBI
Chchd2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554568,255,898 - 8,265,488 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554568,260,533 - 8,265,488 (-)NCBIChiLan1.0ChiLan1.0
CHCHD2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan17109,278,455 - 109,283,547 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0756,714,583 - 56,719,640 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1757,136,723 - 57,141,765 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl757,134,303 - 57,141,765 (-)Ensemblpanpan1.1panPan2
CHCHD2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.16581,276 - 585,367 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl6581,280 - 585,301 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha62,280,745 - 2,284,839 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.06385,111 - 389,203 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl6385,115 - 389,137 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.16328,861 - 332,963 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.06322,956 - 327,041 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.06494,144 - 498,243 (-)NCBIUU_Cfam_GSD_1.0
Chchd2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024409344126,172,517 - 126,175,918 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365437,860,448 - 7,863,983 (+)EnsemblSpeTri2.0
SpeTri2.0NW_0049365437,860,432 - 7,864,050 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CHCHD2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl316,812,404 - 16,819,124 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1316,812,409 - 16,819,130 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2317,065,147 - 17,071,876 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CHCHD2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1212,675,522 - 2,680,406 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_023666041179,877,669 - 179,882,552 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Chchd2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247408,278,078 - 8,283,657 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247408,279,416 - 8,283,730 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Chchd2
301 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:172
Count of miRNA genes:157
Interacting mature miRNAs:164
Transcripts:ENSMUST00000094280, ENSMUST00000131645
Prediction methods:Miranda, Rnahybrid
Result types:miRGate_prediction

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

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


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
11341716Rvfs3_mRift Valley fever susceptibility 3 (mouse)526441234138455402Mouse
26884395Humsd2_mhumerus midshaft diameter 2, 10 week (mouse)570057343132528839Mouse
27226719Tibw6_mtibia width 6, proximal, 16 week (mouse)572857343139985755Mouse
25314315Mlh1fc4_mMLH1 foci count 4 (mouse)574460661132528839Mouse
13506928Recrq8_mrecombination rate in male meiosis QTL 8 (mouse)574460661132528839Mouse
1301362Prnr1_mprion resistance 1 (mouse)Not determined589418876146787935Mouse
1300940Actd3_mactivity-distance traveled 3 (mouse)Not determined596320385130320533Mouse
1300659Pcd8ts1_mp-glycoprotein positive CD8 T cell subset 1 (mouse)Not determined597021753131021986Mouse
1301858Smdq1_msegregation of mitochondrial DNA QTL 1 (mouse)Not determined597021753131021986Mouse
12904945Tammq2_mtibialis anterior muscle mass QTL 2 (mouse)5100665965134665965Mouse
12904959Smmq1_msoleus muscle mass QTL 1 (mouse)5100665965134665965Mouse
12859290Criq2_mCitrobacter rodentium infection QTL 2 (mouse)5101332579135332579Mouse
1301624Aevm2_mautoimmune extremity vasculitis in MRL mice 2 (mouse)Not determined5101863832135864028Mouse
14746986Manh58_mmandible shape 58 (mouse)5102446283136446283Mouse
11532736Sluc33b_msusceptibility to lung cancer 33b (mouse)5102945037136945196Mouse
10412202Bbaa26_mB.burgdorferi-associated arthritis 26 (mouse)Not determined5104583688138555455Mouse
10412239Alpq7_malcohol preference QTL 7 (mouse)Not determined5104705939138705939Mouse
10043890Trigq4_mtriglyceride QTL 4 (mouse)Not determined5107906299141906412Mouse
4142473Chlq11_mcirculating hormone level QTL 11 (mouse)Not determined5107906299141906412Mouse
13464243Ahl20_mage related hearing loss, early onset 20 (mouse)5107906299141906412Mouse
10412197Bbaa25_mB.burgdorferi-associated arthritis 25 (mouse)Not determined5109167240143167381Mouse
13464251Ahl21_mage related hearing loss, early onset 21 (mouse)5109167240143167381Mouse
1301543Hypch_mhypercholesterolemia (mouse)Not determined5109238624139118905Mouse
1300913Bwefm_mbody weight females and males day 10 (mouse)Not determined5109439348143439459Mouse
1301102Cia14_mcollagen induced arthritis 14 (mouse)Not determined5113320385138555455Mouse
1301226Bbaa2_mB.burgdorferi-associated arthritis 2 (mouse)Not determined5115156883149157015Mouse
1300827Cora1_mcorrelation in cytokine production 1 (mouse)Not determined5115156883149157015Mouse
1301857Bglq14_mbody growth late QTL 14 (mouse)Not determined5118948964151758149Mouse
10412191Bbaa24_mB.burgdorferi-associated arthritis 24 (mouse)Not determined5119945037141700466Mouse
4141081Nidd7k_mNidd7 on KK-A (mouse)Not determined119945037149347326Mouse
11528552Scram1_mspinal cord resistance to astrocytoma modifier 1 (mouse)5121455402151758149Mouse
1301986Bpq4_mblood pressure QTL 4 (mouse)Not determined5121555236151758149Mouse
1302079Lbw3_mlupus NZB x NZW 3 (mouse)Not determined5124700335151758149Mouse
1301363Pbwg13_mpostnatal body weight growth 13 (mouse)Not determined5125133457151758149Mouse
1301715Elmaz2_melevated maze behavior 2 (mouse)Not determined5125178229141700466Mouse
13464142Bbaa2a_mB.burgdorferi-associated arthritis 2a (mouse)5128571199130052971Mouse
4141218Ath24_matherosclerosis 24 (mouse)Not determined129520084151758149Mouse
12880406Jcdq2_mjoint cartilage degeneration QTL 2 (mouse)5129787831151758149Mouse

Markers in Region
RH124233  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map5G1.3UniSTS
UniSTS:235328  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm385129,883,246 - 129,883,545UniSTSGRCm38
MGSCv375130,359,117 - 130,359,416UniSTSGRCm37
Celera5126,882,639 - 126,882,938UniSTS
Cytogenetic Map5G1.3UniSTS


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts NM_024166 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC164071 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC242408 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK003399 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK012691 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK088374 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK145492 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK160762 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK160779 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK162133 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK166796 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK167593 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK210686 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK211922 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK216042 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC037682 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC042717 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC069887 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC082287 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC083126 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC084682 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSMUST00000094280   ⟹   ENSMUSP00000091835
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl5129,909,997 - 129,916,311 (-)Ensembl
GRCm38.p6 Ensembl5129,881,156 - 129,887,470 (-)Ensembl
RefSeq Acc Id: ENSMUST00000131645
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl5129,910,000 - 129,916,114 (-)Ensembl
GRCm38.p6 Ensembl5129,881,159 - 129,887,273 (-)Ensembl
RefSeq Acc Id: NM_024166   ⟹   NP_077128
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm395129,910,002 - 129,916,311 (-)NCBI
GRCm385129,881,161 - 129,887,470 (-)ENTREZGENE
MGSCv375130,357,032 - 130,363,340 (-)RGD
Celera5126,880,556 - 126,886,855 (-)RGD
cM Map5 ENTREZGENE
Sequence:
Reference Sequences
RefSeq Acc Id: NP_077128   ⟸   NM_024166
- Peptide Label: precursor
- UniProtKB: Q3TUG8 (UniProtKB/Swiss-Prot),   Q9D1L0 (UniProtKB/Swiss-Prot),   A0A6P5PW75 (UniProtKB/TrEMBL),   A0A8C6HQ94 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSMUSP00000091835   ⟸   ENSMUST00000094280
Protein Domains
CHCH

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9D1L0-F1-model_v2 AlphaFold Q9D1L0 1-153 view protein structure

Promoters
RGD ID:6888196
Promoter ID:EPDNEW_M7549
Type:initiation region
Name:Chchd2_1
Description:Mus musculus coiled-coil-helix-coiled-coil-helix domain containing2 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm385129,887,289 - 129,887,349EPDNEW
RGD ID:6837248
Promoter ID:MM_KWN:44223
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day1,   3T3L1_Day2,   3T3L1_Day3,   3T3L1_Day4,   3T3L1_Day6,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   ES_Cell,   Kidney,   Liver,   Lung,   MEF_B4,   MEF_B6,   Spleen
Transcripts:OTTMUST00000058725,   OTTMUST00000058726
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv365130,363,056 - 130,363,556 (-)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1261428 AgrOrtholog
Ensembl Genes ENSMUSG00000070493 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSMUSP00000091835 ENTREZGENE
  ENSMUSP00000091835.4 UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000094280 ENTREZGENE
  ENSMUST00000094280.4 UniProtKB/Swiss-Prot
KEGG Report mmu:14004 UniProtKB/Swiss-Prot
MGD MGI:1261428 ENTREZGENE
NCBI Gene 14004 ENTREZGENE
PANTHER COILED-COIL-HELIX-COILED-COIL-HELIX DOMAIN CONTAINING 2/NUR77 UniProtKB/Swiss-Prot
  COILED-COIL-HELIX-COILED-COIL-HELIX DOMAIN-CONTAINING PROTEIN 2-RELATED UniProtKB/Swiss-Prot
PhenoGen Chchd2 PhenoGen
PROSITE CHCH UniProtKB/Swiss-Prot
UniProt A0A6P5PW75 ENTREZGENE
  A0A8C6HQ94 ENTREZGENE
  CHCH2_MOUSE UniProtKB/Swiss-Prot
  Q3TUG8 ENTREZGENE
  Q9D1L0 ENTREZGENE
UniProt Secondary Q3TUG8 UniProtKB/Swiss-Prot