Cfap184 (cilia and flagella associated protein 184) - Rat Genome Database

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Gene: Cfap184 (cilia and flagella associated protein 184) Rattus norvegicus
Analyze
Symbol: Cfap184 (Ensembl: Ccdc96)
Name: cilia and flagella associated protein 184 (Ensembl:coiled-coil domain containing 96)
RGD ID: 1305153
Description: Predicted to be involved in cilium assembly. Predicted to be located in cilium. Predicted to be active in axoneme and ciliary basal body. Orthologous to human CFAP184 (cilia and flagella associated protein 184); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; amphetamine; atrazine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: Ccdc96; coiled-coil domain containing 96; coiled-coil domain-containing protein 96; LOC289716; RGD1305153; similar to RIKEN cDNA 4921513E08
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81478,501,256 - 78,503,715 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1478,486,414 - 78,507,808 (-)EnsemblGRCr8
mRatBN7.21474,276,568 - 74,279,072 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1474,276,960 - 74,278,888 (-)EnsemblmRatBN7.2
Rnor_6.01479,443,151 - 79,445,591 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1479,443,543 - 79,445,471 (-)Ensemblrn6Rnor6.0
Rnor_5.01479,082,161 - 79,084,549 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41479,857,379 - 79,859,699 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1473,214,778 - 73,217,218 (-)NCBICelera
RGSC_v3.11479,860,160 - 79,862,090 (-)NCBI
Cytogenetic Map14q21NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
axoneme  (IBA)
ciliary basal body  (IBA)
cilium  (IEA)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
Cfap184
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81478,501,256 - 78,503,715 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1478,486,414 - 78,507,808 (-)EnsemblGRCr8
mRatBN7.21474,276,568 - 74,279,072 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1474,276,960 - 74,278,888 (-)EnsemblmRatBN7.2
Rnor_6.01479,443,151 - 79,445,591 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1479,443,543 - 79,445,471 (-)Ensemblrn6Rnor6.0
Rnor_5.01479,082,161 - 79,084,549 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41479,857,379 - 79,859,699 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1473,214,778 - 73,217,218 (-)NCBICelera
RGSC_v3.11479,860,160 - 79,862,090 (-)NCBI
Cytogenetic Map14q21NCBI
CFAP184
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3847,040,849 - 7,043,001 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl47,040,849 - 7,043,001 (-)Ensemblhg38GRCh38
GRCh3747,042,576 - 7,044,728 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3647,093,477 - 7,095,629 (-)NCBIBuild 36Build 36hg18NCBI36
Celera46,945,993 - 6,948,145 (-)NCBICelera
Cytogenetic Map4p16.1NCBI
HuRef46,969,791 - 6,971,943 (-)NCBIHuRef
CHM1_147,041,153 - 7,043,305 (-)NCBICHM1_1
T2T-CHM13v2.047,012,684 - 7,014,836 (-)NCBIT2T-CHM13v2.0
Ccdc96
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39536,641,932 - 36,645,515 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl536,641,932 - 36,645,516 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm38536,484,588 - 36,488,171 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl536,484,588 - 36,488,172 (+)Ensemblmm10GRCm38
MGSCv37536,827,237 - 36,830,820 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36536,801,683 - 36,805,266 (+)NCBIMGSCv36mm8
Celera533,965,575 - 33,969,160 (+)NCBICelera
Cytogenetic Map5B3NCBI
cM Map519.14NCBI
Cfap184
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049555143,478,667 - 3,480,747 (+)NCBIChiLan1.0ChiLan1.0
CFAP184
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v237,305,425 - 7,309,589 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan147,236,208 - 7,238,626 (-)NCBINHGRI_mPanPan1
PanPan1.147,108,106 - 7,110,318 (-)NCBIPanPan1.1PanPan1.1panPan2
CFAP184
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1359,105,113 - 59,108,866 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl359,105,544 - 59,106,566 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha361,751,518 - 61,754,233 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0359,576,271 - 59,578,986 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl359,577,178 - 59,580,489 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1359,073,571 - 59,076,285 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0359,275,482 - 59,278,197 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0359,629,793 - 59,632,508 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Cfap184
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440528565,161,461 - 65,166,781 (-)NCBIHiC_Itri_2
SpeTri2.0NW_00493647718,864,940 - 18,868,473 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CFAP184
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.183,828,389 - 3,831,310 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.283,377,817 - 3,380,598 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CFAP184
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12743,150,557 - 43,157,211 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604790,009,631 - 90,012,037 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cfap184
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462475523,257,680 - 23,262,292 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Cfap184
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11168,619,601 - 68,621,923 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Cfap184
16 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:32
Count of miRNA genes:30
Interacting mature miRNAs:31
Transcripts:ENSRNOT00000008601
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.


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)143802371083023710Rat
1582236Gluco22Glucose level QTL 223.30.0164blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)147764007196755654Rat
9590294Uminl4Urine mineral level QTL 45.660.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)1459848686104848686Rat
2300197Scl59Serum cholesterol level QTL 59blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1477914838104348525Rat
70214Niddm28Non-insulin dependent diabetes mellitus QTL 284.06blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)143900944484009444Rat
70153Bp59Blood pressure QTL 593.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)147297021087582095Rat
70187Pancm5Pancreatic morphology QTL 516.7pancreas mass (VT:0010144)pancreas weight to body weight ratio (CMO:0000630)143067446985041098Rat
631523Pia13Pristane induced arthritis QTL 133.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1433424686102238540Rat
1582259Gluco23Glucose level QTL 233.10.0008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1474255551109089856Rat
1582197Gluco27Glucose level QTL 273.40.0006blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)147764007196755654Rat
2313100Bss82Bone structure and strength QTL 8230.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)143802371083023710Rat
634328Hc5Hypercalciuria QTL 52.3urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1462398852107398852Rat
1582250Gluco26Glucose level QTL 263.30.0009blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1477640071100078267Rat
2317879Alcrsp27Alcohol response QTL 273.30.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)1460854936105854936Rat
1641900Alcrsp11Alcohol response QTL 11alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)1474255551109089856Rat
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1411334716100078267Rat
1582255Gluco29Glucose level QTL 293.10.0025blood glucose amount (VT:0000188)absolute change in blood glucose level area under curve (CMO:0002034)147764007196755654Rat
9589034Epfw11Epididymal fat weight QTL 1160.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)1459848686104848686Rat
1582209Gluco20Glucose level QTL 203.80.0005blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)147764007196755654Rat
1300136Rf22Renal function QTL 223.9renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)144261625899224555Rat
2313048Bss84Bone structure and strength QTL 843.10.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)143802371083023710Rat
1549834Scl45Serum cholesterol level QTL 455.8blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)146592028399224555Rat
738037Hcas6Hepatocarcinoma susceptibility QTL 62.93liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)143941117087582095Rat
2313084Bss83Bone structure and strength QTL 832.90.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)143802371083023710Rat


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
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 11 65 160 86 86 55 80 55 6 332 176 9 140 77 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000008601   ⟹   ENSRNOP00000008601
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1478,500,640 - 78,503,768 (-)Ensembl
mRatBN7.2 Ensembl1474,276,960 - 74,278,888 (-)Ensembl
Rnor_6.0 Ensembl1479,443,543 - 79,445,471 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000125448   ⟹   ENSRNOP00000110973
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1478,486,414 - 78,503,970 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000168629   ⟹   ENSRNOP00000106211
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1478,499,529 - 78,507,808 (-)Ensembl
RefSeq Acc Id: XM_039092824   ⟹   XP_038948752
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81478,501,256 - 78,503,715 (-)NCBI
mRatBN7.21474,276,568 - 74,279,072 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001419724 (Get FASTA)   NCBI Sequence Viewer  
  XP_038948752 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM00045 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000008601.7
  ENSRNOP00000106211
  ENSRNOP00000106211.1
  ENSRNOP00000110973.1
GenBank Protein UDP68720 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Acc Id: ENSRNOP00000008601   ⟸   ENSRNOT00000008601
RefSeq Acc Id: XP_038948752   ⟸   XM_039092824
Ensembl Acc Id: ENSRNOP00000106211   ⟸   ENSRNOT00000168629
Ensembl Acc Id: ENSRNOP00000110973   ⟸   ENSRNOT00000125448
Protein Domains
CCDC113/CCDC96 coiled-coil

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3Z9F2-F1-model_v2 AlphaFold D3Z9F2 1-589 view protein structure

Transcriptome

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

Promoters
RGD ID:13699393
Promoter ID:EPDNEW_R9907
Type:multiple initiation site
Name:Ccdc96_1
Description:coiled-coil domain containing 96
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_6.01479,445,517 - 79,445,577EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1305153 AgrOrtholog
BioCyc Gene G2FUF-15334 BioCyc
Ensembl Genes ENSRNOG00000006575 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000008601.8 UniProtKB/TrEMBL
  ENSRNOT00000125448.1 UniProtKB/TrEMBL
  ENSRNOT00000168629 ENTREZGENE
  ENSRNOT00000168629.1 UniProtKB/TrEMBL
InterPro CC_domain-Cilium_Assoc UniProtKB/TrEMBL
  DUF4201 UniProtKB/TrEMBL
NCBI Gene 289716 ENTREZGENE
PANTHER COILED-COIL DOMAIN-CONTAINING PROTEIN 96 UniProtKB/TrEMBL
  UNCHARACTERIZED UniProtKB/TrEMBL
Pfam DUF4201 UniProtKB/TrEMBL
PhenoGen Cfap184 PhenoGen
RatGTEx ENSRNOG00000006575 RatGTEx
UniProt A0ABK0LNS6_RAT UniProtKB/TrEMBL
  A6IJY1 ENTREZGENE, UniProtKB/TrEMBL
  D3Z9F2 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2025-01-10 Cfap184  cilia and flagella associated protein 184  Ccdc96  coiled-coil domain containing 96  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-06 Ccdc96  coiled-coil domain containing 96  RGD1305153_predicted  similar to RIKEN cDNA 4921513E08 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 RGD1305153_predicted  similar to RIKEN cDNA 4921513E08 (predicted)  LOC289716_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC289716_predicted  similar to RIKEN cDNA 4921513E08 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL