Cc2d1a (coiled-coil and C2 domain containing 1A) - Rat Genome Database
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Gene: Cc2d1a (coiled-coil and C2 domain containing 1A) Mus musculus
Analyze
Symbol: Cc2d1a
Name: coiled-coil and C2 domain containing 1A
RGD ID: 1552526
MGI Page MGI
Description: Exhibits DNA-binding transcription repressor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Involved in negative regulation of transcription by RNA polymerase II. Predicted to localize to cytosol; fibrillar center; and plasma membrane. Is expressed in brain. Human ortholog(s) of this gene implicated in autosomal recessive non-syndromic intellectual disability and intellectual disability. Orthologous to human CC2D1A (coiled-coil and C2 domain containing 1A); INTERACTS WITH 1,2-dimethylhydrazine; 2,3,7,8-tetrachlorodibenzodioxine; 3,4-methylenedioxymethamphetamine.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: 5-HT1A receptor; BC016188; coiled-coil and C2 domain-containing protein 1A; five prime repressor element under dual repression-binding protein 1; five repressor element under dual repression-binding protein 1; five' repressor element under dual repression binding protein 1; FRE under dual repression-binding protein 1; Freud-; Freud-1; MGC27560; MGC38983; putative NFkB activating protein; Ta; Tape
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm38 - Mouse Genome Assembly GRCm38
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39884,859,457 - 84,874,546 (-)NCBIGRCm39mm39
GRCm38884,132,828 - 84,147,917 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl884,132,828 - 84,147,936 (-)EnsemblGRCm38mm10GRCm38
MGSCv37886,656,727 - 86,671,652 (-)NCBIGRCm37mm9NCBIm37
MGSCv36887,022,933 - 87,037,858 (-)NCBImm8
Celera888,433,223 - 88,448,143 (-)NCBICelera
Cytogenetic Map8C2NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


References

Additional References at PubMed
PMID:8889548   PMID:10922068   PMID:12477932   PMID:12904583   PMID:12917378   PMID:14756806   PMID:15489334   PMID:15782199   PMID:16033914   PMID:17084358   PMID:17535813   PMID:18799693  
PMID:21090244   PMID:21155902   PMID:21273312   PMID:21677750   PMID:21873635   PMID:22375002   PMID:22833682   PMID:26720614   PMID:26826102   PMID:29101244   PMID:29552027   PMID:30732858  
PMID:30992372   PMID:32325033   PMID:32514154  


Genomics

Comparative Map Data
Cc2d1a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39884,859,457 - 84,874,546 (-)NCBIGRCm39mm39
GRCm38884,132,828 - 84,147,917 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl884,132,828 - 84,147,936 (-)EnsemblGRCm38mm10GRCm38
MGSCv37886,656,727 - 86,671,652 (-)NCBIGRCm37mm9NCBIm37
MGSCv36887,022,933 - 87,037,858 (-)NCBImm8
Celera888,433,223 - 88,448,143 (-)NCBICelera
Cytogenetic Map8C2NCBI
CC2D1A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1913,906,201 - 13,930,879 (+)EnsemblGRCh38hg38GRCh38
GRCh381913,906,149 - 13,930,879 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371914,016,956 - 14,041,693 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361913,878,052 - 13,902,692 (+)NCBINCBI36hg18NCBI36
Celera1913,910,701 - 13,935,438 (+)NCBI
Cytogenetic Map19p13.12NCBI
HuRef1913,588,253 - 13,612,989 (+)NCBIHuRef
CHM1_11914,017,664 - 14,042,297 (+)NCBICHM1_1
Cc2d1a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.01925,246,912 - 25,261,965 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1925,246,913 - 25,261,946 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01936,224,012 - 36,239,076 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41925,695,784 - 25,710,783 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11925,700,609 - 25,715,608 (+)NCBI
Celera1923,560,276 - 23,575,275 (+)NCBICelera
Cytogenetic Map19q11NCBI
Cc2d1a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541532,668,066 - 32,682,571 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495541532,667,832 - 32,682,945 (+)NCBIChiLan1.0ChiLan1.0
CC2D1A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11914,210,594 - 14,219,550 (+)NCBIpanpan1.1PanPan1.1panPan2
Mhudiblu_PPA_v01913,468,650 - 13,493,308 (+)NCBIMhudiblu_PPA_v0panPan3
CC2D1A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl2048,549,591 - 48,565,828 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.12048,549,107 - 48,566,062 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Cc2d1a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049366592,611,621 - 2,627,071 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CC2D1A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl265,235,758 - 65,252,531 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1265,235,757 - 65,252,481 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2265,509,481 - 65,526,202 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CC2D1A
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1 Ensembl612,567,237 - 12,589,815 (+)Ensembl
ChlSab1.1612,567,165 - 12,589,680 (+)NCBI
Cc2d1a
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046249011,188,687 - 1,204,627 (+)NCBI


QTLs in Region (GRCm38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
4140967Bmd39_mbone mineral density 39 (mouse)Not determined832016544117238700Mouse
1558875Eae31_mexperimental allergic encephalomyelitis susceptibility 31 (mouse)Not determined834642776114837007Mouse
1301013Capsq4_mcapsaicin sensitivity related QTL 4 (mouse)Not determined83616300092728652Mouse
27226754Femd6_mfemur midshaft diameter 6, 10 week (mouse)837400000109600000Mouse
12904744Carcdq1_mcardiac collagen deposition QTL 1 (mouse)83970925694689598Mouse
14700686Civq3_mcerebral infarct volume QTL 3 (mouse)85188219185882191Mouse
1301506Aevm1_mautoimmune extremity vasculitis in MRL mice 1 (mouse)Not determined85428781788287993Mouse
1301952Im3_mimmunoregulatory 3 (mouse)Not determined85470661488706763Mouse
10412287Carg3_mCandida albicans resistance gene 3 (mouse)Not determined85554502889545028Mouse
11353828Gf7_mgonadal fat pad weight 7 (mouse)85820147992201479Mouse
10043975Obq31_mobesity QTL 31 (mouse)Not determined85840977692409776Mouse
1301688Orch6_mautoimmune orchitis resistance 6 (mouse)Not determined86078685094786976Mouse
4141285Tgq18_mtriglyceride QTL 18 (mouse)Not determined6346010797460107Mouse
4141797Skmw16_mskeletal muscle weight 16 (mouse)Not determined86393954797939696Mouse
1357787Vtbt5_mvertebral trabecular bone trait 5 (mouse)Not determined86535776899357920Mouse
10043992Hbnr11_mHeligmosomoides bakeri nematode resistance 11 (mouse)Not determined86560020799600347Mouse
1301767Fcsa2_mfemoral cross-sectional area 2 (mouse)Not determined870305375104305495Mouse
4142283Imraq2_mimmune response to AAV2 QTL 2 (mouse)Not determined870305375104305495Mouse
1558780Idd22_minsulin dependent diabetes susceptibility 22 (mouse)Not determined871102903105103009Mouse
4141395Char2a_mP. chabaudi malaria resistance QTL 2a (mouse)Not determined7113678390202598Mouse
4142023W3q5_mweight 3 weeks QTL 5 (mouse)Not determined71287817123895615Mouse
1357708Orq1_movulation rate QTL 1 (mouse)Not determined871287817123895615Mouse
1301872Cd4ts3_mCD4 T cell subset 3 (mouse)Not determined871396181105396393Mouse
1300920Pitm3_mprion incubation time 3 (mouse)Not determined873202495107202598Mouse
27095912Pglq14_mpelvic girdle length QTL 14, 16 week (mouse)873400000126100000Mouse
1558890Lith18_mlithogenic gene 18 (mouse)Not determined875675517109675623Mouse
1357470Obq16_mobesity QTL 16 (mouse)Not determined875685348109685497Mouse
1301808Nhdlq1_mnon-HDL QTL 1 (mouse)Not determined875685348109685497Mouse
1301874Hdlq16_mHDL QTL 16 (mouse)Not determined875685348109685497Mouse
10412234Nhdlq14_mnon-HDL QTL 14 (mouse)Not determined875685348109685497Mouse
1301099Cbm2_mcerebellum weight 2 (mouse)Not determined878518613112518703Mouse
1301581Char2_mP. chabaudi malaria resistance QTL 2 (mouse)Not determined879082178113082403Mouse
12904012Cfq10_mconditioned fear QTL 10 (mouse)88006677589014359Mouse
10755530Wbc2_mwhite blood cell count 2 (mouse)881092664115092664Mouse
10755519Wbc1_mwhite blood cell count 1 (mouse)881619151115619151Mouse

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:1007
Count of miRNA genes:437
Interacting mature miRNAs:500
Transcripts:ENSMUST00000040383, ENSMUST00000117424, ENSMUST00000126364, ENSMUST00000154029
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

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

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


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000040383   ⟹   ENSMUSP00000046449
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl884,132,828 - 84,147,936 (-)Ensembl
RefSeq Acc Id: ENSMUST00000117424   ⟹   ENSMUSP00000112556
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl884,132,828 - 84,147,865 (-)Ensembl
RefSeq Acc Id: ENSMUST00000126364
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl884,146,451 - 84,147,897 (-)Ensembl
RefSeq Acc Id: ENSMUST00000154029
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl884,132,837 - 84,136,788 (-)Ensembl
RefSeq Acc Id: NM_001381871   ⟹   NP_001368800
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39884,859,468 - 84,874,546 (-)NCBI
GRCm38884,132,839 - 84,147,917 (-)NCBI
RefSeq Acc Id: NM_001381872   ⟹   NP_001368801
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39884,859,468 - 84,874,546 (-)NCBI
GRCm38884,132,839 - 84,147,917 (-)NCBI
RefSeq Acc Id: NM_001381873   ⟹   NP_001368802
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39884,859,468 - 84,874,546 (-)NCBI
GRCm38884,132,839 - 84,147,917 (-)NCBI
RefSeq Acc Id: NM_145970   ⟹   NP_666082
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39884,859,457 - 84,874,546 (-)NCBI
GRCm38884,132,828 - 84,147,917 (-)NCBI
MGSCv37886,656,727 - 86,671,652 (-)RGD
Celera888,433,223 - 88,448,143 (-)RGD
cM Map8 ENTREZGENE
Sequence:
Reference Sequences
RefSeq Acc Id: NP_666082   ⟸   NM_145970
- Peptide Label: isoform 1
- UniProtKB: Q8K1A6 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001368801   ⟸   NM_001381872
- Peptide Label: isoform 3
RefSeq Acc Id: NP_001368800   ⟸   NM_001381871
- Peptide Label: isoform 2
RefSeq Acc Id: NP_001368802   ⟸   NM_001381873
- Peptide Label: isoform 4
RefSeq Acc Id: ENSMUSP00000046449   ⟸   ENSMUST00000040383
RefSeq Acc Id: ENSMUSP00000112556   ⟸   ENSMUST00000117424
Protein Domains
C2   DM14

Promoters
RGD ID:8667649
Promoter ID:EPDNEW_M11855
Type:initiation region
Name:Cc2d1a_1
Description:Mus musculus coiled-coil and C2 domain containing 1A , 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
GRCm38884,147,799 - 84,147,859EPDNEW
RGD ID:6842893
Promoter ID:MM_KWN:55055
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:BoneMarrow_0Hour
Transcripts:UC009MMB.1
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36886,660,206 - 86,660,706 (-)MPROMDB
RGD ID:6842527
Promoter ID:MM_KWN:55056
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day1,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   ES_Cell,   Kidney,   Liver,   Lung,   MEF_B4,   MEF_B6,   Spleen
Transcripts:ENSMUST00000117424,   NM_001163752,   NM_029045,   NM_145970,   OTTMUST00000075710,   OTTMUST00000075714
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36886,671,586 - 86,672,086 (+)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:2384831 AgrOrtholog
Ensembl Genes ENSMUSG00000036686 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSMUSP00000046449 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUSP00000112556 UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000040383 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUST00000117424 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.150 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro C2_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  C2_domain_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  C2_Freud UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CC2D1A/B UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  DM14 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:212139 UniProtKB/Swiss-Prot
MGD MGI:2384831 ENTREZGENE
NCBI Gene 212139 ENTREZGENE
PANTHER PTHR13076 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam PF00168 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Cc2d1a PhenoGen
PROSITE PS50004 UniProtKB/Swiss-Prot
SMART DM14 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SM00239 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniGene Mm.41424 ENTREZGENE
UniProt C2D1A_MOUSE UniProtKB/Swiss-Prot
  E9PX94_MOUSE UniProtKB/TrEMBL
  Q8K1A6 ENTREZGENE
UniProt Secondary Q2MJB5 UniProtKB/Swiss-Prot
  Q8R3Z4 UniProtKB/Swiss-Prot