Ccdc149 (coiled-coil domain containing 149) - Rat Genome Database

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Gene: Ccdc149 (coiled-coil domain containing 149) Rattus norvegicus
Analyze
Symbol: Ccdc149
Name: coiled-coil domain containing 149
RGD ID: 1582968
Description: Orthologous to human CCDC149 (coiled-coil domain containing 149); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; bisphenol A; cadmium dichloride.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: coiled-coil domain-containing protein 149; LOC688939; similar to CG14868-PA
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81462,722,567 - 62,817,778 (+)NCBIGRCr8
mRatBN7.21458,509,583 - 58,605,017 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1458,509,811 - 58,604,696 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.01460,857,924 - 60,953,504 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1460,857,989 - 60,952,088 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01460,971,449 - 61,066,225 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41463,279,907 - 63,382,130 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1457,607,651 - 57,702,630 (+)NCBICelera
Cytogenetic Map14q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


References

References - curated
# Reference Title Reference Citation
1. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
Ccdc149
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81462,722,567 - 62,817,778 (+)NCBIGRCr8
mRatBN7.21458,509,583 - 58,605,017 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1458,509,811 - 58,604,696 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.01460,857,924 - 60,953,504 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1460,857,989 - 60,952,088 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01460,971,449 - 61,066,225 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41463,279,907 - 63,382,130 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1457,607,651 - 57,702,630 (+)NCBICelera
Cytogenetic Map14q11NCBI
CCDC149
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38424,803,514 - 24,980,204 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl424,803,514 - 24,980,204 (-)EnsemblGRCh38hg38GRCh38
GRCh37424,805,136 - 24,981,826 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36424,437,679 - 24,590,924 (-)NCBINCBI36Build 36hg18NCBI36
Celera425,257,207 - 25,430,723 (-)NCBICelera
Cytogenetic Map4p15.2NCBI
HuRef424,150,242 - 24,322,736 (-)NCBIHuRef
CHM1_1424,807,112 - 24,981,193 (-)NCBICHM1_1
T2T-CHM13v2.0424,785,445 - 24,962,121 (-)NCBIT2T-CHM13v2.0
Ccdc149
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39552,531,993 - 52,629,018 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl552,531,993 - 52,628,863 (-)EnsemblGRCm39 Ensembl
GRCm38552,374,651 - 52,471,578 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl552,374,651 - 52,471,521 (-)EnsemblGRCm38mm10GRCm38
MGSCv37552,765,890 - 52,766,880 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36552,765,890 - 52,766,880 (-)NCBIMGSCv36mm8
Celera549,743,205 - 49,744,195 (-)NCBICelera
Cytogenetic Map5C1NCBI
cM Map527.94NCBI
Ccdc149
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955480188,705 - 250,200 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955480156,614 - 252,370 (+)NCBIChiLan1.0ChiLan1.0
CCDC149
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2325,050,513 - 25,161,392 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1425,247,290 - 25,356,666 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0419,206,568 - 19,313,342 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1424,491,644 - 24,597,728 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl424,491,644 - 24,580,468 (-)Ensemblpanpan1.1panPan2
CCDC149
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1385,309,141 - 85,375,958 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl385,273,916 - 85,373,659 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha387,786,773 - 87,889,791 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0386,248,090 - 86,351,110 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl386,247,630 - 86,348,811 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1385,381,336 - 85,483,958 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0385,486,378 - 85,589,460 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0385,872,327 - 85,974,985 (+)NCBIUU_Cfam_GSD_1.0
Ccdc149
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440528550,870,514 - 50,933,000 (+)NCBIHiC_Itri_2
SpeTri2.0NW_0049364774,572,206 - 4,634,666 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CCDC149
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl818,807,739 - 18,914,080 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1818,807,730 - 18,914,123 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2819,168,736 - 19,303,263 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CCDC149
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12725,444,831 - 25,549,161 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2725,444,896 - 25,551,752 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604771,962,878 - 72,068,761 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ccdc149
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247557,415,445 - 7,531,710 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Ccdc149
600 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:67
Count of miRNA genes:57
Interacting mature miRNAs:61
Transcripts:ENSRNOT00000034411
Prediction methods:Microtar, 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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2313089Bss81Bone structure and strength QTL 813.40.0001body length (VT:0001256)body length, nose to rump (CMO:0000079)143766971982669719Rat
1581500Renag1Renal agenesis QTL 1kidney development trait (VT:0000527)percentage of study population developing unilateral renal agenesis during a period of time (CMO:0000940)14817066868298175Rat
9590294Uminl4Urine mineral level QTL 45.660.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)1455624247100624247Rat
2300197Scl59Serum cholesterol level QTL 59blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1455147478100147478Rat
10755459Coatc15Coat color QTL 150.01681coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)141983694464836944Rat
70214Niddm28Non-insulin dependent diabetes mellitus QTL 284.06blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)143999825175582726Rat
1300154Bp189Blood pressure QTL 1893.04arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)143088377768757901Rat
70187Pancm5Pancreatic morphology QTL 516.7pancreas mass (VT:0010144)pancreas weight to body weight ratio (CMO:0000630)143032009280829842Rat
631523Pia13Pristane induced arthritis QTL 133.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)144079346098037301Rat
2313100Bss82Bone structure and strength QTL 8230.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)143766971982669719Rat
634328Hc5Hypercalciuria QTL 52.3urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1458184885103184885Rat
7387267Uae42Urinary albumin excretion QTL 420.61urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)142216796767167967Rat
2317879Alcrsp27Alcohol response QTL 273.30.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)1456631369101631369Rat
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)141103062295876975Rat
2313397Coatc1Coat color QTL1coat/hair pigmentation trait (VT:0010463)coat/hair color measurement (CMO:0001808)141854133263541332Rat
9589034Epfw11Epididymal fat weight QTL 1160.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)1455624247100624247Rat
2313048Bss84Bone structure and strength QTL 843.10.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)143766971982669719Rat
1300136Rf22Renal function QTL 223.9renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)144226252995023211Rat
1549834Scl45Serum cholesterol level QTL 455.8blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)145002321195023211Rat
738037Hcas6Hepatocarcinoma susceptibility QTL 62.93liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)143905723783368335Rat
2313084Bss83Bone structure and strength QTL 832.90.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)143766971982669719Rat

Markers in Region
RH131829  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21458,604,631 - 58,604,830 (+)MAPPERmRatBN7.2
Rnor_6.01460,953,119 - 60,953,317NCBIRnor6.0
Rnor_5.01461,065,840 - 61,066,038UniSTSRnor5.0
RGSC_v3.41463,375,975 - 63,376,173UniSTSRGSC3.4
Celera1457,702,245 - 57,702,443UniSTS
RH 3.4 Map14486.47UniSTS
Cytogenetic Map14q11UniSTS
RH143025  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21458,604,007 - 58,604,122 (+)MAPPERmRatBN7.2
Rnor_6.01460,952,495 - 60,952,609NCBIRnor6.0
Rnor_5.01461,065,216 - 61,065,330UniSTSRnor5.0
RGSC_v3.41463,375,351 - 63,375,465UniSTSRGSC3.4
Celera1457,701,621 - 57,701,735UniSTS
RH 3.4 Map14488.48UniSTS
Cytogenetic Map14q11UniSTS
AU046356  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21458,594,379 - 58,594,506 (+)MAPPERmRatBN7.2
Rnor_6.01460,942,860 - 60,942,986NCBIRnor6.0
Rnor_5.01461,055,865 - 61,055,991UniSTSRnor5.0
RGSC_v3.41463,365,403 - 63,365,529UniSTSRGSC3.4
Celera1457,692,087 - 57,692,213UniSTS
Cytogenetic Map14q11UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31

Sequence


Ensembl Acc Id: ENSRNOT00000034411   ⟹   ENSRNOP00000029437
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1458,509,811 - 58,604,696 (+)Ensembl
Rnor_6.0 Ensembl1460,857,989 - 60,952,088 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000097645   ⟹   ENSRNOP00000094579
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1458,539,938 - 58,604,696 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000118912   ⟹   ENSRNOP00000088058
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1458,509,811 - 58,604,696 (+)Ensembl
RefSeq Acc Id: XM_006251034   ⟹   XP_006251096
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81462,722,567 - 62,817,778 (+)NCBI
mRatBN7.21458,509,646 - 58,605,017 (+)NCBI
Rnor_6.01460,857,924 - 60,953,504 (+)NCBI
Rnor_5.01460,971,449 - 61,066,225 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039092757   ⟹   XP_038948685
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81462,722,587 - 62,817,778 (+)NCBI
mRatBN7.21458,509,583 - 58,605,017 (+)NCBI
RefSeq Acc Id: XM_063273760   ⟹   XP_063129830
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81462,722,590 - 62,817,778 (+)NCBI
RefSeq Acc Id: XM_063273761   ⟹   XP_063129831
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81462,722,590 - 62,817,778 (+)NCBI
RefSeq Acc Id: XP_006251096   ⟸   XM_006251034
- Peptide Label: isoform X2
- Sequence:
Ensembl Acc Id: ENSRNOP00000029437   ⟸   ENSRNOT00000034411
RefSeq Acc Id: XP_038948685   ⟸   XM_039092757
- Peptide Label: isoform X1
Ensembl Acc Id: ENSRNOP00000088058   ⟸   ENSRNOT00000118912
Ensembl Acc Id: ENSRNOP00000094579   ⟸   ENSRNOT00000097645
RefSeq Acc Id: XP_063129830   ⟸   XM_063273760
- Peptide Label: isoform X3
RefSeq Acc Id: XP_063129831   ⟸   XM_063273761
- Peptide Label: isoform X4

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-F1LVF5-F1-model_v2 AlphaFold F1LVF5 1-535 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13699343
Promoter ID:EPDNEW_R9861
Type:multiple initiation site
Name:Ccdc149_1
Description:coiled-coil domain containing 149
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01460,857,928 - 60,857,988EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1582968 AgrOrtholog
BioCyc Gene G2FUF-15591 BioCyc
Ensembl Genes ENSRNOG00000024454 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000034411.5 UniProtKB/TrEMBL
  ENSRNOT00000097645.1 UniProtKB/TrEMBL
  ENSRNOT00000118912.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.287.1490 UniProtKB/TrEMBL
InterPro Coiled-coil_dom-contain_pr_149 UniProtKB/TrEMBL
KEGG Report rno:688939 UniProtKB/TrEMBL
NCBI Gene 688939 ENTREZGENE
PANTHER COILED-COIL DOMAIN-CONTAINING PROTEIN 149 UniProtKB/TrEMBL
  PTHR21682 UniProtKB/TrEMBL
Pfam DUF2353 UniProtKB/TrEMBL
PhenoGen Ccdc149 PhenoGen
RatGTEx ENSRNOG00000024454 RatGTEx
UniProt A0A8I6ARX4 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6GFS3 ENTREZGENE, UniProtKB/TrEMBL
  F1LVF5 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-09-16 Ccdc149  coiled-coil domain containing 149  LOC688939  similar to CG14868-PA  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-01-09 LOC688939  similar to CG14868-PA  LOC679439  similar to CG14868-PA  Data merged from RGD:1588324 1643240 APPROVED
2006-11-19 LOC688939  similar to CG14868-PA      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-19 LOC679439  similar to CG14868-PA      Symbol and Name status set to provisional 70820 PROVISIONAL