CFAP90 (cilia and flagella associated protein 90) - Rat Genome Database

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Gene: CFAP90 (cilia and flagella associated protein 90) Sus scrofa
Analyze
Symbol: CFAP90
Name: cilia and flagella associated protein 90
RGD ID: 13870588
Description: FOUND IN axonemal B tubule inner sheath (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: C16H5orf49; chromosome 16 C5orf49 homolog; uncharacterized protein C5orf49 homolog
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1674,288,049 - 74,302,047 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11674,288,038 - 74,302,052 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21680,340,678 - 80,355,084 (+)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

Genomics

Comparative Map Data
CFAP90
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1674,288,049 - 74,302,047 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11674,288,038 - 74,302,052 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21680,340,678 - 80,355,084 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CFAP90
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3857,830,378 - 7,851,133 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl57,830,378 - 7,851,151 (-)EnsemblGRCh38hg38GRCh38
GRCh3757,830,491 - 7,851,246 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3657,884,511 - 7,904,264 (-)NCBINCBI36Build 36hg18NCBI36
Celera57,872,579 - 7,892,308 (-)NCBICelera
Cytogenetic Map5p15.31NCBI
HuRef57,812,253 - 7,833,342 (-)NCBIHuRef
CHM1_157,830,570 - 7,851,693 (-)NCBICHM1_1
T2T-CHM13v2.057,769,514 - 7,790,256 (-)NCBIT2T-CHM13v2.0
Cfap90
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391368,745,558 - 68,762,350 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1368,745,540 - 68,762,350 (+)EnsemblGRCm39 Ensembl
GRCm381368,597,439 - 68,614,231 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1368,597,421 - 68,614,231 (+)EnsemblGRCm38mm10GRCm38
MGSCv371368,736,316 - 68,753,108 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361369,064,801 - 69,081,603 (+)NCBIMGSCv36mm8
Celera1370,957,259 - 70,973,445 (+)NCBICelera
Cytogenetic Map13B3NCBI
cM Map1335.55NCBI
Cfap90
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8136,654,287 - 36,678,303 (-)NCBIGRCr8
mRatBN7.2134,825,894 - 34,849,916 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl134,825,894 - 34,850,138 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx134,687,213 - 34,711,254 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0140,678,065 - 40,702,106 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0134,852,793 - 34,876,807 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0137,702,041 - 37,726,162 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl137,702,041 - 37,726,151 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0139,083,665 - 39,107,716 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4175,044,084 - 5,069,032 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1175,044,090 - 5,069,662 (-)NCBI
Celera133,395,288 - 33,419,581 (-)NCBICelera
Cytogenetic Map1p11NCBI
Cfap90
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555045,380,575 - 5,395,166 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555045,380,575 - 5,395,166 (-)NCBIChiLan1.0ChiLan1.0
CFAP90
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v248,085,098 - 8,106,587 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan156,236,535 - 6,260,196 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v058,156,838 - 8,178,329 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.157,978,684 - 7,999,876 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl57,978,684 - 7,999,876 (-)Ensemblpanpan1.1panPan2
CFAP90
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1346,132,731 - 6,136,340 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl346,133,267 - 6,136,301 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3410,628,123 - 10,644,465 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0346,025,559 - 6,041,883 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl346,025,601 - 6,041,844 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1346,075,303 - 6,091,642 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0346,056,069 - 6,072,370 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0346,268,962 - 6,285,310 (+)NCBIUU_Cfam_GSD_1.0
Cfap90
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213239,042,699 - 239,060,481 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936643342,561 - 359,902 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936643342,292 - 359,984 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CFAP90
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.147,418,409 - 7,439,389 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl47,419,593 - 7,438,946 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366606421,177,185 - 21,198,839 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cfap90
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247515,413,401 - 5,428,093 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247515,409,850 - 5,428,096 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in CFAP90
783 total Variants

Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system hemolymphoid system musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium 2
Low 4 1 3 2 2 21 2
Below cutoff 4 1 1 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSSSCT00000018616   ⟹   ENSSSCP00000018115
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1674,288,049 - 74,302,047 (+)Ensembl
RefSeq Acc Id: XM_003134147   ⟹   XP_003134195
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11674,288,038 - 74,302,052 (+)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: XP_003134195   ⟸   XM_003134147
- UniProtKB: A0A4X1TJ73 (UniProtKB/TrEMBL),   F1S0T3 (UniProtKB/TrEMBL),   A0A8D1RMV4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000018115   ⟸   ENSSSCT00000018616


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000017098 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00025014626 UniProtKB/TrEMBL
  ENSSSCG00035014472 UniProtKB/TrEMBL
  ENSSSCG00040033565 UniProtKB/TrEMBL
  ENSSSCG00045038413 UniProtKB/TrEMBL
  ENSSSCG00050072481 UniProtKB/TrEMBL
  ENSSSCG00055021575 UniProtKB/TrEMBL
  ENSSSCG00060008346 UniProtKB/TrEMBL
  ENSSSCG00065045223 UniProtKB/TrEMBL
  ENSSSCG00070010390 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000018616 ENTREZGENE
  ENSSSCT00000018616.3 UniProtKB/TrEMBL
  ENSSSCT00025019498.1 UniProtKB/TrEMBL
  ENSSSCT00035018343.1 UniProtKB/TrEMBL
  ENSSSCT00040045192.1 UniProtKB/TrEMBL
  ENSSSCT00045066618.1 UniProtKB/TrEMBL
  ENSSSCT00050098951.1 UniProtKB/TrEMBL
  ENSSSCT00055042387.1 UniProtKB/TrEMBL
  ENSSSCT00060010665.1 UniProtKB/TrEMBL
  ENSSSCT00065061866.1 UniProtKB/TrEMBL
  ENSSSCT00070020218.1 UniProtKB/TrEMBL
InterPro DUF4541 UniProtKB/TrEMBL
NCBI Gene C16H5orf49 ENTREZGENE
PANTHER LOC361192 UniProtKB/TrEMBL
  PTHR34444 UniProtKB/TrEMBL
Pfam DUF4541 UniProtKB/TrEMBL
UniProt A0A4X1TJ73 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D1RMV4 ENTREZGENE, UniProtKB/TrEMBL
  F1S0T3 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:85953 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-10-03 CFAP90  cilia and flagella associated protein 90  C16H5orf49  chromosome 16 C5orf49 homolog  Symbol and/or name change 19259463 PROVISIONAL