C2cd4d (C2 calcium-dependent domain containing 4D) - Rat Genome Database

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Gene: C2cd4d (C2 calcium-dependent domain containing 4D) Mus musculus
Analyze
Symbol: C2cd4d
Name: C2 calcium-dependent domain containing 4D
RGD ID: 1621991
MGI Page MGI
Description: Orthologous to human C2CD4D (C2 calcium dependent domain containing 4D).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: C2 calcium-dependent domain-containing protein 4D; Gm659
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39394,269,720 - 94,271,874 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl394,269,745 - 94,271,873 (+)EnsemblGRCm39 Ensembl
GRCm38394,362,444 - 94,364,567 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl394,362,438 - 94,364,566 (+)EnsemblGRCm38mm10GRCm38
MGSCv37394,166,366 - 94,168,489 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36394,448,662 - 94,449,971 (+)NCBIMGSCv36mm8
Celera395,808,801 - 95,810,925 (+)NCBICelera
Cytogenetic Map3F2.1NCBI
cM Map340.55NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:19468303   PMID:27349930  


Genomics

Comparative Map Data
C2cd4d
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39394,269,720 - 94,271,874 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl394,269,745 - 94,271,873 (+)EnsemblGRCm39 Ensembl
GRCm38394,362,444 - 94,364,567 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl394,362,438 - 94,364,566 (+)EnsemblGRCm38mm10GRCm38
MGSCv37394,166,366 - 94,168,489 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36394,448,662 - 94,449,971 (+)NCBIMGSCv36mm8
Celera395,808,801 - 95,810,925 (+)NCBICelera
Cytogenetic Map3F2.1NCBI
cM Map340.55NCBI
C2CD4D
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381151,837,818 - 151,840,557 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1151,837,818 - 151,840,557 (-)EnsemblGRCh38hg38GRCh38
GRCh371151,810,294 - 151,813,033 (-)NCBIGRCh37GRCh37hg19GRCh37
Celera1124,925,032 - 124,927,726 (-)NCBICelera
Cytogenetic Map1q21.3NCBI
HuRef1123,187,327 - 123,190,021 (-)NCBIHuRef
CHM1_11153,205,664 - 153,208,358 (-)NCBICHM1_1
T2T-CHM13v2.01150,961,316 - 150,964,055 (-)NCBIT2T-CHM13v2.0
C2cd4d
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82184,688,815 - 184,690,978 (+)NCBIGRCr8
mRatBN7.22181,999,778 - 182,001,941 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2181,997,078 - 182,002,087 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2189,662,988 - 189,665,139 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02187,467,196 - 187,469,359 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02182,295,453 - 182,297,604 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.02195,599,706 - 195,604,730 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2195,603,599 - 195,604,624 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02215,081,866 - 215,083,424 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42189,335,833 - 189,336,858 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera2174,547,099 - 174,552,378 (+)NCBICelera
Cytogenetic Map2q34NCBI
C2cd4d
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_004955589582,261 - 583,519 (+)NCBIChiLan1.0ChiLan1.0
C2CD4D
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2197,983,554 - 97,985,905 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1197,735,874 - 97,737,089 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01127,196,449 - 127,197,682 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
C2CD4D
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Dog10K_Boxer_Tasha1760,288,685 - 60,291,850 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01761,866,098 - 61,867,021 (-)NCBIROS_Cfam_1.0
UMICH_Zoey_3.11760,692,885 - 60,693,803 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01760,776,794 - 60,779,975 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01761,505,943 - 61,509,090 (-)NCBIUU_Cfam_GSD_1.0
C2CD4D
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl497,368,453 - 97,369,514 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1497,367,372 - 97,369,598 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.24106,390,857 - 106,394,113 (+)NCBISscrofa10.2Sscrofa10.2susScr3
C2CD4D
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12011,846,708 - 11,847,963 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2011,846,792 - 11,847,853 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603811,405,244 - 11,407,210 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
C2cd4d
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462477219,507,028 - 19,508,062 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462477219,506,927 - 19,508,062 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:114
Count of miRNA genes:111
Interacting mature miRNAs:114
Transcripts:ENSMUST00000169433
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
26884378Skwq6_mskull length QTL 6, 10 week (mouse)351907421102307316Mouse
1302052Etohcta4_methanol conditioned taste aversion 4 (mouse)Not determined391000105125008748Mouse
11049572Lmr11c_mleishmaniasis resistance 11c (mouse)372139967106140094Mouse
1357583Sle18_msystematic lupus erythematosus susceptibility 18 (mouse)Not determined387208904125316236Mouse
1300595Tmevd2_mTheiler's murine encephalomyelitis virus induced demyelinating disease susceptibility 2 (mouse)Not determined375463302109463549Mouse
12738440Twq3_mtestis weight QTL 3 (mouse)387228015121228015Mouse
26884380Skwq1_mskull length QTL 1, 5 week (mouse)343954435101607316Mouse
1301904Iba2_minduction of brown adipocytes 2 (mouse)Not determined382147043116147184Mouse
11041900Lmr11a_mleishmaniasis resistance 11a (mouse)383463991117464137Mouse
11039511Ltpr3c_mLeishmania tropica response 3c (mouse)383463991117464137Mouse
1301398Rapop3_mradiation-induced apoptosis 3 (mouse)Not determined390511217100464137Mouse
11039509Ltpr3e_mLeishmania tropica response 3e (mouse)383463991117464137Mouse
4142178Ctrq2_mC. trachomatis resistance QTL 2 (mouse)Not determined389139967137453008Mouse
11039507Ltpr3g_mLeishmania tropica response 3g (mouse)383463991117464137Mouse
4142099Cq3_mcholesterol QTL 3 (mouse)Not determined384888918118889067Mouse
1301349Pgia26_mproteoglycan induced arthritis 26 (mouse)Not determined392251533126251650Mouse
4142399Aec1_mautoimmune exocrinopathy 1 (mouse)Not determined7586174102690034Mouse
26884427Cvht4_mcranial vault height 4, 10 week (mouse)316054164109707316Mouse
25314313Syncl1_msynaptonemal complex length 1 (mouse)367907333128393649Mouse
10766455Sle22_msystematic lupus erythematosus susceptibility 22 (mouse)390376936124377072Mouse
13207570Tcq12_mtotal cholesterol QTL 12 (mouse)316504164130163649Mouse
13208566Bmiq5_mbody mass index QTL 5 (mouse)340954435115793649Mouse
1301947Pcfm3_mperiosteal circumference and femur length 3 (mouse)Not determined381084652115084797Mouse
14746984Manh54_mmandible shape 54 (mouse)385289152119289152Mouse
11251721Ewc3_methanol withdrawal and consumption 3 (mouse)369568554103568554Mouse
26884382Bzwq1_mbi-zygomatic width QTL 1, 5 week (mouse)352207421137205761Mouse
11039519Ltpr3_mLeishmania tropica response 3 (mouse)356704102100464137Mouse
4141294Bmd24_mbone mineral density 24 (mouse)Not determined36174006195740241Mouse
11039512Ltpr3b_mLeishmania tropica response 3b (mouse)383463991117464137Mouse
1301392Eae3_msusceptibility to experimental allergic encephalomyelitis 3 (mouse)Not determined379548730113548837Mouse
11039510Ltpr3d_mLeishmania tropica response 3d (mouse)383463991117464137Mouse
1301422Sle11_msystematic lupus erythematosus susceptibility 11 (mouse)Not determined370208904104209042Mouse
1300982Lmr11_mleishmaniasis resistance 11 (mouse)Not determined372139967106140094Mouse
1301272Cfsw1_mcystic fibrosis survival to weaning 1 (mouse)Not determined383882912117883044Mouse
14747001Mancz4_mmandible centroid size 4 (mouse)390378017124378017Mouse
26884436Zlq3_mzygomatic length QTL 3, 10 week (mouse)33265060142405761Mouse
26884422Cvht7_mcranial vault height 7, 16 week (mouse)328954149118893649Mouse
1302056Orgwq4_morgan weight QTL 4 (mouse)Not determined330067588147304689Mouse
1301705Sles3_msystemic lupus erythmatosus suppressor 3 (mouse)Not determined337174862143353183Mouse
1301971Cia5_mcollagen induced arthritis QTL 5 (mouse)Not determined366046658100046795Mouse
1301791Char4_mP. chabaudi malaria resistance QTL 4 (mouse)Not determined369625509100655290Mouse
11039508Ltpr3f_mLeishmania tropica response 3f (mouse)383463991117464137Mouse


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001136117 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC164562 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSMUST00000169433   ⟹   ENSMUSP00000128182
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl394,269,745 - 94,271,873 (+)Ensembl
GRCm38.p6 Ensembl394,362,438 - 94,364,566 (+)Ensembl
RefSeq Acc Id: ENSMUST00000197526
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl394,269,810 - 94,270,471 (+)Ensembl
GRCm38.p6 Ensembl394,362,503 - 94,363,164 (+)Ensembl
RefSeq Acc Id: NM_001136117   ⟹   NP_001129589
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39394,269,720 - 94,271,874 (+)NCBI
GRCm38394,362,444 - 94,364,567 (+)ENTREZGENE
MGSCv37394,166,366 - 94,168,489 (+)RGD
Celera395,808,801 - 95,810,925 (+)RGD
cM Map3 ENTREZGENE
Sequence:
Protein Sequences
Protein RefSeqs NP_001129589 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSMUSP00000128182
  ENSMUSP00000128182.2
GenBank Protein P0CG09 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: NP_001129589   ⟸   NM_001136117
- UniProtKB: P0CG09 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSMUSP00000128182   ⟸   ENSMUST00000169433
Protein Domains
C2

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P0CG09-F1-model_v2 AlphaFold P0CG09 1-341 view protein structure


Additional Information

Database Acc Id Source(s)
AGR Gene MGI:2685505 AgrOrtholog
Ensembl Genes ENSMUSG00000091648 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000169433 ENTREZGENE
  ENSMUST00000169433.3 UniProtKB/Swiss-Prot
Gene3D-CATH 2.60.40.150 UniProtKB/Swiss-Prot
InterPro C2_dom UniProtKB/Swiss-Prot
  C2_domain_sf UniProtKB/Swiss-Prot
  C2C4C/C2C4D UniProtKB/Swiss-Prot
KEGG Report mmu:271944 UniProtKB/Swiss-Prot
MGD MGI:2685505 ENTREZGENE
NCBI Gene 271944 ENTREZGENE
PANTHER C2 CALCIUM-DEPENDENT DOMAIN-CONTAINING PROTEIN 4D UniProtKB/Swiss-Prot
  PTHR46291 UniProtKB/Swiss-Prot
Pfam PF00168 UniProtKB/Swiss-Prot
PhenoGen C2cd4d PhenoGen
PROSITE PS50004 UniProtKB/Swiss-Prot
SMART SM00239 UniProtKB/Swiss-Prot
Superfamily-SCOP SSF49562 UniProtKB/Swiss-Prot
UniProt C2C4D_MOUSE UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2011-07-27 C2cd4d  C2 calcium-dependent domain containing 4D  Gm659  predicted gene 659  Symbol and/or name change 5135510 APPROVED