Ccdc13 (coiled-coil domain containing 13) - Rat Genome Database
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Gene: Ccdc13 (coiled-coil domain containing 13) Mus musculus
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Symbol: Ccdc13
Name: coiled-coil domain containing 13
RGD ID: 1621875
MGI Page MGI
Description: Predicted to be involved in cellular response to DNA damage stimulus; cytoplasmic microtubule organization; and non-motile cilium assembly. Predicted to localize to centriolar satellite; cytosol; and nucleoplasm. Is expressed in submandibular gland primordium. Orthologous to human CCDC13 (coiled-coil domain containing 13); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; carbon nanotube; pentachlorophenol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: 2900041A11Rik; coiled-coil domain-containing protein 13; Gm188; MGC182513
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
GRCm399121,626,690 - 121,668,581 (-)NCBIGRCm39mm39
GRCm389121,797,624 - 121,839,515 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl9121,797,627 - 121,839,461 (-)EnsemblGRCm38mm10GRCm38
MGSCv379121,706,745 - 121,725,836 (-)NCBIGRCm37mm9NCBIm37
MGSCv369121,726,480 - 121,745,639 (-)NCBImm8
Celera9122,271,004 - 122,290,099 (-)NCBICelera
Cytogenetic Map9F4NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

References - curated
1. RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:11812828   PMID:12040188   PMID:12466851   PMID:12477932   PMID:16141072   PMID:16141073   PMID:21267068   PMID:21677750  
PMID:21873635   PMID:27914912   PMID:28671696  


Genomics

Comparative Map Data
Ccdc13
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm399121,626,690 - 121,668,581 (-)NCBIGRCm39mm39
GRCm389121,797,624 - 121,839,515 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl9121,797,627 - 121,839,461 (-)EnsemblGRCm38mm10GRCm38
MGSCv379121,706,745 - 121,725,836 (-)NCBIGRCm37mm9NCBIm37
MGSCv369121,726,480 - 121,745,639 (-)NCBImm8
Celera9122,271,004 - 122,290,099 (-)NCBICelera
Cytogenetic Map9F4NCBI
CCDC13
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl342,705,756 - 42,773,253 (-)EnsemblGRCh38hg38GRCh38
GRCh38342,704,118 - 42,773,253 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37342,749,764 - 42,814,745 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36342,724,878 - 42,789,749 (-)NCBINCBI36hg18NCBI36
Build 34342,724,885 - 42,789,748NCBI
Celera342,690,269 - 42,755,122 (-)NCBI
Cytogenetic Map3p22.1NCBI
HuRef342,795,514 - 42,860,384 (-)NCBIHuRef
CHM1_1342,701,048 - 42,765,907 (-)NCBICHM1_1
Ccdc13
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.08130,436,529 - 130,475,521 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8130,437,157 - 130,475,320 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08129,615,611 - 129,653,317 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48127,098,740 - 127,139,377 (+)NCBIRGSC3.4rn4RGSC3.4
Celera8120,592,355 - 120,623,289 (-)NCBICelera
Cytogenetic Map8q32NCBI
Ccdc13
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495542028,061,460 - 28,107,509 (+)NCBIChiLan1.0ChiLan1.0
CCDC13
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1343,679,176 - 43,743,253 (-)NCBIpanpan1.1PanPan1.1panPan2
Mhudiblu_PPA_v0342,615,424 - 42,680,102 (-)NCBIMhudiblu_PPA_v0panPan3
CCDC13
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl2311,820,749 - 11,873,713 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.12311,835,075 - 11,886,892 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Ccdc13
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049366952,350,668 - 2,404,882 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CCDC13
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.11326,220,622 - 26,265,699 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21328,888,378 - 28,933,894 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CCDC13
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1224,164,828 - 4,228,692 (-)NCBI
Ccdc13
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473076,963,296 - 76,998,464 (+)NCBI

Position Markers
D9Mit152  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm389121,812,590 - 121,812,724UniSTSGRCm38
MGSCv379121,721,708 - 121,721,842UniSTSGRCm37
Celera9122,285,961 - 122,286,095UniSTS
Cytogenetic Map9F4UniSTS
cM Map973.0UniSTS
Whitehead Genetic969.9UniSTS
Whitehead/MRC_RH91217.17UniSTS


QTLs in Region (GRCm38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
12880422V25Dq6_mvitamin D inactive form serum level QTL 6 (mouse)987800000121800000Mouse
10412242Alpq8_malcohol preference QTL 8 (mouse)Not determined989284925123284925Mouse
1301649Psl1_mpromotion susceptibility QTL 1 (mouse)Not determined989412277123412396Mouse
18182932Metl3_mmetabolite locus 3, N-acetylglutamate (mouse)989563342123563342Mouse
12910770Splic1_mspleen iron content 1 (mouse)991413879124595110Mouse
12910772Lvic6_mliver iron content 6 (mouse)991413879124595110Mouse
12910773Splic3_mspleen iron content 3 (mouse)991413879124595110Mouse
1558767Skmw11_mskeletal muscle weight 11 (mouse)Not determined991641084124595110Mouse
13463474Hbbcq5_mhemoglobin concentration QTL 5 (mouse)991641084124595110Mouse
13463475Hctq7_mhematocrit QTL 7 (mouse)991641084124595110Mouse
13463477Rbc9_mred blood cell count 9 (mouse)991641084124595110Mouse
13463478Mchq18_mmean corpuscular hemoglobin QTL 18 (mouse)991641084124595110Mouse
13463480Mchcq2_mmean corpuscular hemoglobin concentration QTL 2 (mouse)991641084124595110Mouse
12904937Edlmmq9_mextensor digitorum longus muscle mass QTL 9 (mouse)991683173124595110Mouse
12904947Tammq7_mtibialis anterior muscle mass QTL 7 (mouse)991683173124595110Mouse
12904961Gmmq7_mgastrocnemius muscle mass QTL 7 (mouse)991683173124595110Mouse
1302001Bdln5_mbody length 5 (mouse)Not determined993762590124595110Mouse
1301484Bwq6_mbody weight (mouse)Not determined993762590124595110Mouse
14746992Manh67_mmandible shape 67 (mouse)994036768124595110Mouse
11537364Cnes5_mC. neoformans susceptibility locus 5 (mouse)996917590124595110Mouse
1301297Lcho1_mliver cholesterol 1 (mouse)Not determined9101060861124595110Mouse
1357627Tgq2_mtriglyceride QTL 2 (mouse)Not determined9102000187124595110Mouse
1357648Obq18_mobesity QTL 18 (mouse)Not determined9102000187124595110Mouse
1301789Pbwg4_mpostnatal body weight growth 4 (mouse)Not determined9103289445124595110Mouse
10412290Pvacm1l_mplasma vascular cell adhesion molecule 1 levels (mouse)Not determined9103289445124595110Mouse
12879896Berr3_mberghei resistance locus 3 (mouse)9103289445124595110Mouse

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:1486
Count of miRNA genes:526
Interacting mature miRNAs:623
Transcripts:ENSMUST00000070702, ENSMUST00000126851, ENSMUST00000135986, ENSMUST00000140929, ENSMUST00000142783, ENSMUST00000146716, ENSMUST00000155511
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

Nucleotide Sequences
RefSeq Transcripts NM_028384 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006511904 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006511906 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_011242925 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_011242926 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_030243930 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_036154496 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_036154497 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_036154498 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_004935288 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_004935289 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_004935290 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_379845 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC165080 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK013632 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK038868 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK158659 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AW911821 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BB762565 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BB857029 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC147354 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BG800529 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BM949737 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BY082969 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BY296983 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH466587 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSMUST00000126851
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl9121,798,168 - 121,810,310 (-)Ensembl
RefSeq Acc Id: ENSMUST00000135986   ⟹   ENSMUSP00000114787
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl9121,797,627 - 121,839,461 (-)Ensembl
RefSeq Acc Id: ENSMUST00000140929
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl9121,799,092 - 121,810,249 (-)Ensembl
RefSeq Acc Id: ENSMUST00000142783   ⟹   ENSMUSP00000130887
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl9121,798,581 - 121,810,146 (-)Ensembl
RefSeq Acc Id: ENSMUST00000146716
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl9121,817,362 - 121,831,079 (-)Ensembl
RefSeq Acc Id: ENSMUST00000155511   ⟹   ENSMUSP00000128061
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl9121,797,633 - 121,810,164 (-)Ensembl
RefSeq Acc Id: NM_028384   ⟹   NP_082660
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm399121,626,693 - 121,668,527 (-)NCBI
GRCm389121,797,627 - 121,839,461 (-)NCBI
Celera9122,271,004 - 122,313,496 (-)ENTREZGENE
cM Map9 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_006511904   ⟹   XP_006511967
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm399121,626,690 - 121,668,573 (-)NCBI
GRCm389121,797,624 - 121,839,508 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006511906   ⟹   XP_006511969
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm399121,639,294 - 121,668,581 (-)NCBI
GRCm389121,810,228 - 121,839,515 (-)NCBI
Sequence:
RefSeq Acc Id: XM_011242925   ⟹   XP_011241227
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm399121,626,690 - 121,668,569 (-)NCBI
GRCm389121,797,624 - 121,839,506 (-)NCBI
Sequence:
RefSeq Acc Id: XM_011242926   ⟹   XP_011241228
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm399121,641,908 - 121,668,581 (-)NCBI
GRCm389121,812,842 - 121,839,515 (-)NCBI
Sequence:
RefSeq Acc Id: XM_030243930   ⟹   XP_030099790
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm399121,641,908 - 121,668,578 (-)NCBI
GRCm389121,812,842 - 121,839,512 (-)NCBI
Sequence:
RefSeq Acc Id: XM_036154496   ⟹   XP_036010389
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm399121,626,690 - 121,668,580 (-)NCBI
RefSeq Acc Id: XM_036154497   ⟹   XP_036010390
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm399121,626,692 - 121,648,897 (-)NCBI
RefSeq Acc Id: XM_036154498   ⟹   XP_036010391
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm399121,626,690 - 121,649,700 (-)NCBI
RefSeq Acc Id: XR_004935288
RefSeq Status:
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm399121,626,690 - 121,668,581 (-)NCBI
RefSeq Acc Id: XR_004935289
RefSeq Status:
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm399121,626,690 - 121,668,581 (-)NCBI
RefSeq Acc Id: XR_004935290
RefSeq Status:
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm399121,626,690 - 121,668,581 (-)NCBI
RefSeq Acc Id: XR_379845
RefSeq Status:
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm399121,628,121 - 121,668,581 (-)NCBI
GRCm389121,799,056 - 121,839,515 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_082660   ⟸   NM_028384
- UniProtKB: D3YV10 (UniProtKB/Swiss-Prot),   Q3TYG3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006511967   ⟸   XM_006511904
- Peptide Label: isoform X1
- UniProtKB: D3YV10 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006511969   ⟸   XM_006511906
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_011241227   ⟸   XM_011242925
- Peptide Label: isoform X1
- UniProtKB: D3YV10 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_011241228   ⟸   XM_011242926
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_030099790   ⟸   XM_030243930
- Peptide Label: isoform X4
RefSeq Acc Id: ENSMUSP00000114787   ⟸   ENSMUST00000135986
RefSeq Acc Id: ENSMUSP00000130887   ⟸   ENSMUST00000142783
RefSeq Acc Id: ENSMUSP00000128061   ⟸   ENSMUST00000155511
RefSeq Acc Id: XP_036010389   ⟸   XM_036154496
- Peptide Label: isoform X2
RefSeq Acc Id: XP_036010391   ⟸   XM_036154498
- Peptide Label: isoform X5
RefSeq Acc Id: XP_036010390   ⟸   XM_036154497
- Peptide Label: isoform X5

Promoters
RGD ID:8671274
Promoter ID:EPDNEW_M13667
Type:initiation region
Name:Ccdc13_1
Description:Mus musculus coiled-coil domain containing 13 , 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
GRCm389121,839,431 - 121,839,491EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1920144 AgrOrtholog
Ensembl Genes ENSMUSG00000079235 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSMUSP00000114787 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUSP00000128061 UniProtKB/TrEMBL
  ENSMUSP00000130887 UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000135986 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUST00000142783 UniProtKB/TrEMBL
  ENSMUST00000155511 UniProtKB/TrEMBL
InterPro CCDC13 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:100502861 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGD MGI:1920144 ENTREZGENE
NCBI Gene 100502861 ENTREZGENE
PANTHER PTHR31935 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Ccdc13 PhenoGen
UniGene Mm.335550 ENTREZGENE
UniProt CCD13_MOUSE UniProtKB/Swiss-Prot, ENTREZGENE
  F6RL14_MOUSE UniProtKB/TrEMBL
  Q3TYG3 ENTREZGENE, UniProtKB/TrEMBL
  Q8BYN7_MOUSE UniProtKB/TrEMBL
  Q9D6H4_MOUSE UniProtKB/TrEMBL