Cfap97 (cilia and flagella associated protein 97) - Rat Genome Database

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Gene: Cfap97 (cilia and flagella associated protein 97) Rattus norvegicus
Analyze
Symbol: Cfap97
Name: cilia and flagella associated protein 97
RGD ID: 1307325
Description: Predicted to be involved in spermatogenesis. Orthologous to human CFAP97 (cilia and flagella associated protein 97); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; acrylamide; all-trans-retinoic acid.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: cilia- and flagella-associated protein 97; hypothetical protein LOC306469; LOC306469; RGD1307325; similar to RIKEN cDNA 4933411K20; UPF0501 protein KIAA1430 homolog
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81652,818,693 - 52,867,775 (-)NCBIGRCr8
mRatBN7.21646,086,104 - 46,135,194 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1646,086,111 - 46,125,933 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1651,488,064 - 51,526,311 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01654,856,970 - 54,895,293 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01650,127,441 - 50,165,688 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01649,280,076 - 49,329,029 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1649,280,084 - 49,318,383 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01648,994,772 - 49,036,466 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41649,366,648 - 49,404,995 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11649,366,726 - 49,405,070 (-)NCBI
Celera1644,085,392 - 44,123,736 (-)NCBICelera
Cytogenetic Map16q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

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
3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.

Genomics

Comparative Map Data
Cfap97
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81652,818,693 - 52,867,775 (-)NCBIGRCr8
mRatBN7.21646,086,104 - 46,135,194 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1646,086,111 - 46,125,933 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1651,488,064 - 51,526,311 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01654,856,970 - 54,895,293 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01650,127,441 - 50,165,688 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01649,280,076 - 49,329,029 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1649,280,084 - 49,318,383 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01648,994,772 - 49,036,466 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41649,366,648 - 49,404,995 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11649,366,726 - 49,405,070 (-)NCBI
Celera1644,085,392 - 44,123,736 (-)NCBICelera
Cytogenetic Map16q11NCBI
CFAP97
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh384185,159,665 - 185,210,248 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl4185,159,665 - 185,209,504 (-)EnsemblGRCh38hg38GRCh38
GRCh374186,080,819 - 186,125,154 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 364186,317,813 - 186,362,176 (-)NCBINCBI36Build 36hg18NCBI36
Celera4183,407,734 - 183,452,112 (-)NCBICelera
Cytogenetic Map4q35.1NCBI
HuRef4181,834,833 - 181,879,202 (-)NCBIHuRef
CHM1_14186,057,322 - 186,101,698 (-)NCBICHM1_1
T2T-CHM13v2.04188,503,345 - 188,553,963 (-)NCBIT2T-CHM13v2.0
Cfap97
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39846,615,515 - 46,648,627 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl846,604,808 - 46,648,627 (+)EnsemblGRCm39 Ensembl
GRCm38846,162,095 - 46,195,590 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl846,151,771 - 46,195,590 (+)EnsemblGRCm38mm10GRCm38
MGSCv37847,254,910 - 47,280,944 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36847,668,373 - 47,694,407 (+)NCBIMGSCv36mm8
Celera848,851,052 - 48,877,083 (+)NCBICelera
Cytogenetic Map8B1.1NCBI
cM Map826.16NCBI
Cfap97
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540323,821,592 - 23,861,803 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540323,821,502 - 23,864,809 (+)NCBIChiLan1.0ChiLan1.0
CFAP97
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v23182,899,357 - 182,945,446 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan14183,247,644 - 183,292,269 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v04177,327,415 - 177,371,772 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.14189,546,941 - 189,589,810 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl4189,546,941 - 189,589,810 (-)Ensemblpanpan1.1panPan2
CFAP97
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11645,412,156 - 45,446,514 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1645,418,785 - 45,453,500 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1645,899,850 - 45,935,531 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01647,628,894 - 47,664,731 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1647,628,896 - 47,663,240 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11645,596,529 - 45,631,849 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01646,208,885 - 46,244,899 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01646,340,635 - 46,376,559 (+)NCBIUU_Cfam_GSD_1.0
Cfap97
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494333,988,959 - 34,022,443 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365544,092,903 - 4,118,300 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365544,087,680 - 4,121,033 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CFAP97
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1546,207,787 - 46,267,521 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11546,207,781 - 46,257,478 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21552,936,770 - 53,049,583 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CFAP97
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.17131,119,280 - 131,166,195 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl7131,118,761 - 131,165,847 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666037111,381,770 - 111,426,624 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cfap97
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462476916,007,002 - 16,041,001 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462476916,007,923 - 16,050,819 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Cfap97
171 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:143
Count of miRNA genes:113
Interacting mature miRNAs:118
Transcripts:ENSRNOT00000045721
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2300163Bmd64Bone mineral density QTL 645.30.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)163775215682752156Rat
1600378Arunc4Aerobic running capacity QTL 40.03exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)1638024580345693Rat
70215Niddm29Non-insulin dependent diabetes mellitus QTL 293.54blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)161900443575226532Rat
1578768Stresp22Stress response QTL 222.8thymus mass (VT:0004954)thymus wet weight (CMO:0000855)163528887080288870Rat
737826Alc11Alcohol consumption QTL 113.2consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)16422760960252231Rat
2302057Pia29Pristane induced arthritis QTL 293.60.001blood autoantibody amount (VT:0003725)serum immunoglobulin M-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002111)162173597566735975Rat
7205510Activ5Activity QTL 53.780.00028locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)164239634584729064Rat
737819Hcas4Hepatocarcinoma susceptibility QTL 44.43liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)16422760946975965Rat
631833Sach2Saccharin preference QTL 240.01consumption behavior trait (VT:0002069)calculated saccharin drink intake rate (CMO:0001613)164302484250166018Rat
8694453Bw172Body weight QTL 1728.330.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)162432551369325513Rat
1298529Arunc1Aerobic running capacity QTL 14exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)163195152060148445Rat
2312663Slep9Serum leptin concentration QTL 90.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)1683223659492508Rat
2312660Bw95Body weight QTL 950.05inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)1683223659492508Rat
6903294Stl30Serum triglyceride level QTL 302.60.0013blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)162515279370152793Rat
2293690Bss45Bone structure and strength QTL 455.130.0001lumbar vertebra morphology trait (VT:0010494)lumbar vertebra cortical cross-sectional area (CMO:0001690)163775215682752156Rat
2312666Insul16Insulin level QTL 160.01blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1683223659492508Rat
61338Bp23Blood pressure QTL 234.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16422760949227609Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor diameter (CMO:0001889)161769679182635055Rat
61405Niddm6Non-insulin dependent diabetes mellitus QTL 63.660.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)16422760948972724Rat
2312669Stl23Serum triglyceride level QTL 230.01blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)1683223659492508Rat

Markers in Region
RH128104  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21646,086,380 - 46,086,568 (+)MAPPERmRatBN7.2
Rnor_6.01649,280,349 - 49,280,536NCBIRnor6.0
Rnor_5.01648,995,045 - 48,995,232UniSTSRnor5.0
RGSC_v3.41649,366,921 - 49,367,108UniSTSRGSC3.4
Celera1644,085,665 - 44,085,852UniSTS
Cytogenetic Map16q11UniSTS


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: ENSRNOT00000045721   ⟹   ENSRNOP00000042262
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1646,086,112 - 46,124,420 (-)Ensembl
Rnor_6.0 Ensembl1649,280,084 - 49,318,383 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000096068   ⟹   ENSRNOP00000085489
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1646,086,111 - 46,125,933 (-)Ensembl
RefSeq Acc Id: NM_001014001   ⟹   NP_001014023
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81652,818,693 - 52,857,000 (-)NCBI
mRatBN7.21646,086,108 - 46,124,420 (-)NCBI
Rnor_6.01649,280,076 - 49,318,383 (-)NCBI
Rnor_5.01648,994,772 - 49,036,466 (-)NCBI
RGSC_v3.41649,366,648 - 49,404,995 (-)RGD
Celera1644,085,392 - 44,123,736 (-)RGD
Sequence:
RefSeq Acc Id: XM_008771264   ⟹   XP_008769486
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81652,818,693 - 52,867,775 (-)NCBI
mRatBN7.21646,086,104 - 46,135,194 (-)NCBI
Rnor_6.01649,280,076 - 49,329,029 (-)NCBI
Sequence:
RefSeq Acc Id: XM_063275425   ⟹   XP_063131495
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81652,818,693 - 52,867,767 (-)NCBI
RefSeq Acc Id: XM_063275426   ⟹   XP_063131496
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81652,818,693 - 52,867,767 (-)NCBI
RefSeq Acc Id: XM_063275427   ⟹   XP_063131497
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81652,818,693 - 52,857,103 (-)NCBI
RefSeq Acc Id: NP_001014023   ⟸   NM_001014001
- UniProtKB: Q66H34 (UniProtKB/Swiss-Prot),   A6JPP3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008769486   ⟸   XM_008771264
- Peptide Label: isoform X4
- UniProtKB: Q66H34 (UniProtKB/Swiss-Prot),   A6JPP3 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000042262   ⟸   ENSRNOT00000045721
Ensembl Acc Id: ENSRNOP00000085489   ⟸   ENSRNOT00000096068
RefSeq Acc Id: XP_063131496   ⟸   XM_063275426
- Peptide Label: isoform X2
RefSeq Acc Id: XP_063131495   ⟸   XM_063275425
- Peptide Label: isoform X1
RefSeq Acc Id: XP_063131497   ⟸   XM_063275427
- Peptide Label: isoform X3

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q66H34-F1-model_v2 AlphaFold Q66H34 1-548 view protein structure

Transcriptome

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

Promoters
RGD ID:13700100
Promoter ID:EPDNEW_R10624
Type:initiation region
Name:Cfap97_1
Description:cilia and flagella associated protein 97
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_6.01649,318,422 - 49,318,482EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1307325 AgrOrtholog
BioCyc Gene G2FUF-11337 BioCyc
Ensembl Genes ENSRNOG00000032192 Ensembl, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ENSRNOG00055011596 UniProtKB/Swiss-Prot
  ENSRNOG00060009199 UniProtKB/Swiss-Prot
  ENSRNOG00065015897 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000045721.5 UniProtKB/Swiss-Prot
  ENSRNOT00000096068.1 UniProtKB/TrEMBL
  ENSRNOT00055019695 UniProtKB/Swiss-Prot
  ENSRNOT00060015521 UniProtKB/Swiss-Prot
  ENSRNOT00065026418 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7132121 IMAGE-MGC_LOAD
InterPro Cfap97/Hemingway UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Hmw/CFAP97 UniProtKB/TrEMBL, UniProtKB/Swiss-Prot
KEGG Report rno:306469 UniProtKB/Swiss-Prot
MGC_CLONE MGC:95202 IMAGE-MGC_LOAD
NCBI Gene 306469 ENTREZGENE
PANTHER CILIA- AND FLAGELLA-ASSOCIATED PROTEIN 97 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR23035 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Hmw_CFAP97 UniProtKB/TrEMBL, UniProtKB/Swiss-Prot
PhenoGen Cfap97 PhenoGen
RatGTEx ENSRNOG00000032192 RatGTEx
  ENSRNOG00055011596 RatGTEx
  ENSRNOG00060009199 RatGTEx
  ENSRNOG00065015897 RatGTEx
UniProt A0A8I6A3G7_RAT UniProtKB/TrEMBL
  A6JPP3 ENTREZGENE, UniProtKB/TrEMBL
  CFA97_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2014-08-06 Cfap97  cilia and flagella associated protein 97  RGD1307325  similar to RIKEN cDNA 4933411K20  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 RGD1307325  similar to RIKEN cDNA 4933411K20  RGD1307325_predicted  similar to RIKEN cDNA 4933411K20 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-20 RGD1307325_predicted  similar to RIKEN cDNA 4933411K20 (predicted)  LOC306469_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC306469_predicted  similar to RIKEN cDNA 4933411K20 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL