Ift88 (intraflagellar transport 88) - Rat Genome Database

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Gene: Ift88 (intraflagellar transport 88) Rattus norvegicus
Analyze
Symbol: Ift88
Name: intraflagellar transport 88
RGD ID: 1309717
Description: Predicted to enable kinesin binding activity. Involved in response to silicon dioxide. Located in outer acrosomal membrane and trans-Golgi network. Biomarker of silicosis. Orthologous to human IFT88 (intraflagellar transport 88); PARTICIPATES IN Hedgehog signaling pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; amphetamine; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: intraflagellar transport 88 homolog; intraflagellar transport 88 homolog (Chlamydomonas); intraflagellar transport protein 88 homolog; LOC305918; tetratricopeptide repeat domain 10; Ttc10
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81535,685,678 - 35,786,875 (+)NCBIGRCr8
mRatBN7.21531,573,325 - 31,666,068 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1531,573,376 - 31,672,147 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1533,564,745 - 33,657,387 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01534,715,428 - 34,808,071 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01532,973,502 - 33,066,150 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01537,690,417 - 37,786,855 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1537,691,345 - 37,784,924 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01541,536,303 - 41,630,808 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41536,468,007 - 36,560,959 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11536,489,464 - 36,576,142 (+)NCBI
Celera1531,284,577 - 31,376,920 (+)NCBICelera
Cytogenetic Map15p12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
animal organ morphogenesis  (ISO)
anterior/posterior pattern specification  (ISO)
brain development  (ISO)
cardiac muscle cell differentiation  (ISO)
cardiac septum morphogenesis  (ISO)
cilium assembly  (ISO)
cilium movement  (ISO)
cochlea development  (ISO)
cytoplasmic microtubule organization  (ISO)
determination of left/right symmetry  (ISO)
dorsal/ventral pattern formation  (ISO)
embryonic digit morphogenesis  (ISO)
endothelial cell morphogenesis  (ISO)
epidermal stem cell homeostasis  (ISO)
epidermis development  (ISO)
eye development  (ISO)
forebrain development  (ISO)
forebrain morphogenesis  (ISO)
heart development  (ISO)
heart formation  (ISO)
inner ear receptor cell stereocilium organization  (IBA,ISO)
intraciliary transport  (IBA)
keratinocyte proliferation  (ISO)
kidney development  (IBA,ISO)
limb development  (ISO)
liver development  (ISO)
lung development  (ISO)
lung vasculature development  (ISO)
negative regulation of epithelial cell proliferation  (ISO)
negative regulation of keratinocyte proliferation  (ISO)
nervous system development  (ISO)
neural precursor cell proliferation  (ISO)
non-motile cilium assembly  (IBA,ISO)
Notch signaling pathway  (ISO)
pancreas development  (ISO)
positive regulation of cilium assembly  (ISO)
positive regulation of insulin-like growth factor receptor signaling pathway  (ISO)
primary palate development  (ISO)
protein localization  (ISO)
regulation of autophagosome assembly  (ISO)
regulation of cilium assembly  (ISO)
regulation of fat cell differentiation  (ISO)
regulation of feeding behavior  (ISO)
regulation of odontogenesis of dentin-containing tooth  (ISO)
regulation of protein processing  (ISO)
response to fluid shear stress  (ISO)
response to silicon dioxide  (IEP)
smoothened signaling pathway  (ISO)
sperm axoneme assembly  (ISO)
spermatid nucleus elongation  (ISO)
spinal cord dorsal/ventral patterning  (ISO)
telencephalon development  (ISO)

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
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. A novel function of Huntingtin in the cilium and retinal ciliopathy in Huntington's disease mice. Karam A, etal., Neurobiol Dis. 2015 Aug;80:15-28. doi: 10.1016/j.nbd.2015.05.008. Epub 2015 May 16.
3. GMAP210 and IFT88 are present in the spermatid golgi apparatus and participate in the development of the acrosome-acroplaxome complex, head-tail coupling apparatus and tail. Kierszenbaum AL, etal., Dev Dyn. 2011 Mar;240(3):723-36. doi: 10.1002/dvdy.22563. Epub 2011 Feb 10.
4. Silica Perturbs Primary Cilia and Causes Myofibroblast Differentiation during Silicosis by Reduction of the KIF3A-Repressor GLI3 Complex. Li S, etal., Theranostics. 2020 Jan 1;10(4):1719-1732. doi: 10.7150/thno.37049. eCollection 2020.
5. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
6. PID Annotation Import Pipeline Pipeline to import Pathway Interaction Database annotations from NCI into RGD
7. GOA pipeline RGD automated data pipeline
8. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:9176412   PMID:10804177   PMID:11062270   PMID:11251073   PMID:11773599   PMID:11854326   PMID:12701101   PMID:12821668   PMID:15226261   PMID:15755804   PMID:15930098   PMID:16254602  
PMID:16775004   PMID:18066062   PMID:18285569   PMID:18297065   PMID:18590716   PMID:19036983   PMID:19208653   PMID:19253336   PMID:19384852   PMID:19596798   PMID:19654211   PMID:20159594  
PMID:20230748   PMID:20368623   PMID:21209331   PMID:21285373   PMID:21289087   PMID:21429982   PMID:21565611   PMID:21653639   PMID:21703454   PMID:21761479   PMID:21837759   PMID:22228099  
PMID:22689656   PMID:23386061   PMID:23599282   PMID:23810713   PMID:23955340   PMID:24089209   PMID:24302887   PMID:24421332   PMID:24469809   PMID:24596149   PMID:24927541   PMID:25294941  
PMID:25443296   PMID:25564561   PMID:27623382   PMID:27682589   PMID:27767179   PMID:28291836   PMID:28428259   PMID:28536011   PMID:28625565   PMID:29487109   PMID:29891944   PMID:31761534  
PMID:36155344  


Genomics

Comparative Map Data
Ift88
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81535,685,678 - 35,786,875 (+)NCBIGRCr8
mRatBN7.21531,573,325 - 31,666,068 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1531,573,376 - 31,672,147 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1533,564,745 - 33,657,387 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01534,715,428 - 34,808,071 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01532,973,502 - 33,066,150 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01537,690,417 - 37,786,855 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1537,691,345 - 37,784,924 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01541,536,303 - 41,630,808 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41536,468,007 - 36,560,959 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11536,489,464 - 36,576,142 (+)NCBI
Celera1531,284,577 - 31,376,920 (+)NCBICelera
Cytogenetic Map15p12NCBI
IFT88
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381320,567,157 - 20,691,444 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1320,567,138 - 20,691,444 (+)EnsemblGRCh38hg38GRCh38
GRCh371321,141,296 - 21,265,583 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361320,039,208 - 20,163,576 (+)NCBINCBI36Build 36hg18NCBI36
Celera132,203,136 - 2,327,509 (+)NCBICelera
Cytogenetic Map13q12.11NCBI
HuRef131,944,935 - 2,068,758 (+)NCBIHuRef
CHM1_11321,109,386 - 21,233,717 (+)NCBICHM1_1
T2T-CHM13v2.01319,760,320 - 19,884,580 (+)NCBIT2T-CHM13v2.0
Ift88
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391457,661,519 - 57,755,393 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1457,661,519 - 57,755,393 (+)EnsemblGRCm39 Ensembl
GRCm381457,424,064 - 57,517,936 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1457,424,062 - 57,517,936 (+)EnsemblGRCm38mm10GRCm38
MGSCv371458,042,908 - 58,136,773 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361456,378,236 - 56,472,046 (+)NCBIMGSCv36mm8
Celera1455,219,087 - 55,313,152 (+)NCBICelera
Cytogenetic Map14C3NCBI
cM Map1430.1NCBI
Ift88
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554971,338,904 - 1,455,122 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554971,338,959 - 1,454,788 (+)NCBIChiLan1.0ChiLan1.0
IFT88
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21420,196,253 - 20,320,900 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11311,308,391 - 11,433,407 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0131,893,102 - 2,017,771 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11320,205,881 - 20,331,204 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1320,206,471 - 20,331,204 (+)Ensemblpanpan1.1panPan2
IFT88
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12517,414,965 - 17,551,405 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2517,414,965 - 17,551,266 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2517,446,483 - 17,582,062 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02517,553,518 - 17,689,146 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2517,553,521 - 17,689,059 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12517,424,524 - 17,560,075 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02517,436,123 - 17,571,980 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02517,493,013 - 17,628,598 (-)NCBIUU_Cfam_GSD_1.0
Ift88
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404945119,493,700 - 119,621,206 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049367201,041,211 - 1,168,748 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049367201,041,216 - 1,168,725 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
IFT88
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl11943,469 - 1,025,613 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.111943,444 - 1,025,617 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.211303,752 - 344,218 (-)NCBISscrofa10.2Sscrofa10.2susScr3
IFT88
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.13435,649 - 546,661 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl3436,207 - 546,583 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605744,044,574 - 44,161,084 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ift88
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462477616,954,507 - 17,086,337 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462477616,954,368 - 17,086,377 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Ift88
32 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:286
Count of miRNA genes:187
Interacting mature miRNAs:213
Transcripts:ENSRNOT00000012988
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
8552920Pigfal8Plasma insulin-like growth factor 1 level QTL 83blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)15134723002Rat
8694361Abfw6Abdominal fat weight QTL 610.20.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)15134723002Rat
9589149Insul29Insulin level QTL 299.060.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)15134723002Rat
731170Pur3Proteinuria QTL 32.30.0005urine protein amount (VT:0005160)urine protein excretion rate (CMO:0000759)15141686771Rat
1641887Alcrsp14Alcohol response QTL 14response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)15142356671Rat
2298549Neuinf12Neuroinflammation QTL 123.5nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)15155302115Rat
10401805Kidm51Kidney mass QTL 51kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1530632945306329Rat
738017Hcas7Hepatocarcinoma susceptibility QTL 72.91liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)15226636846921453Rat
1582251Gluco24Glucose level QTL 243.20.0008blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)15553075650530756Rat
631273Lecl2Lens clarity QTL 20.001lens clarity trait (VT:0001304)age of onset/diagnosis of cataract (CMO:0001584)151059608955596089Rat
2300167Bmd63Bone mineral density QTL 635.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)151111114256111142Rat
2300173Bmd62Bone mineral density QTL 6212.80.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)151111114256111142Rat
2293688Bss29Bone structure and strength QTL 295.310.0001femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)151111114256111142Rat
2317750Glom26Glomerulus QTL 264.3urine protein amount (VT:0005160)urine protein level (CMO:0000591)151249614165205939Rat
61424Scl1Serum cholesterol level QTL 17.70.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)151672552880672115Rat
1331729Rf42Renal function QTL 423.071kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)151736289773690657Rat
631550Bw7Body weight QTL 73.6body mass (VT:0001259)body weight (CMO:0000012)151985656634924750Rat
2324620Coatc3Coat color QTL 3coat/hair pigmentation trait (VT:0010463)pigmented coat/hair area to total coat/hair area ratio (CMO:0001810)151985656646187442Rat
10054130Srcrt8Stress Responsive Cort QTL 82.180.0085blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)152211793367117933Rat
1578646Bmd18Bone mineral density QTL 185.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)152280624098288169Rat
1578647Bmd17Bone mineral density QTL 174femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)152280624098288169Rat
1578660Bss19Bone structure and strength QTL 194.3femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)152280624098288169Rat
1582214Stl21Serum triglyceride level QTL 213.10.022blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)152803066582262678Rat
1582227Gluco30Glucose level QTL 303.60.0003blood glucose amount (VT:0000188)absolute change in blood glucose level area under curve (CMO:0002034)152803066582262678Rat
1582228Epfw3Epididymal fat weight QTL 34.10.0002epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)152803066582262678Rat
1582242Gluco28Glucose level QTL 283.30.0008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)152803066582262678Rat
1582244Bw79Body weight QTL 7940.0002epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)152803066582262678Rat

Markers in Region
AW546000  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2711,961,168 - 11,961,308 (+)MAPPERmRatBN7.2
mRatBN7.21531,592,096 - 31,592,236 (+)MAPPERmRatBN7.2
Rnor_6.01537,710,935 - 37,711,074NCBIRnor6.0
Rnor_6.0715,129,849 - 15,129,988NCBIRnor6.0
Rnor_5.01541,556,792 - 41,556,931UniSTSRnor5.0
Rnor_5.0715,288,979 - 15,289,118UniSTSRnor5.0
RGSC_v3.4713,539,988 - 13,540,127UniSTSRGSC3.4
RGSC_v3.41536,486,687 - 36,486,826UniSTSRGSC3.4
Celera1531,303,241 - 31,303,380UniSTS
Celera710,056,134 - 10,056,273UniSTS
Cytogenetic Map7q11UniSTS
Cytogenetic Map15p12UniSTS
Cytogenetic Map19q12UniSTS


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 exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 11 4 8 4 74 21 41 10
Low 3 43 46 37 11 37 8 10 14 1 8
Below cutoff 1

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001107266 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006252066 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006252067 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006252068 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006252070 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006252071 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017599687 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039093318 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039093319 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063274267 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005493725 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_010057816 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_010057817 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_010057818 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_596131 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide CH474049 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ227513 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000015 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

RefSeq Acc Id: ENSRNOT00000012988   ⟹   ENSRNOP00000012988
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1531,573,376 - 31,666,085 (+)Ensembl
Rnor_6.0 Ensembl1537,691,394 - 37,784,924 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000076608   ⟹   ENSRNOP00000068425
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1531,573,376 - 31,666,067 (+)Ensembl
Rnor_6.0 Ensembl1537,691,345 - 37,784,923 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000076741   ⟹   ENSRNOP00000068104
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1531,573,376 - 31,625,228 (+)Ensembl
Rnor_6.0 Ensembl1537,691,374 - 37,708,779 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000076839   ⟹   ENSRNOP00000067945
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1531,573,376 - 31,650,575 (+)Ensembl
Rnor_6.0 Ensembl1537,714,808 - 37,745,732 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000118046   ⟹   ENSRNOP00000078923
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1531,573,376 - 31,672,147 (+)Ensembl
RefSeq Acc Id: NM_001107266   ⟹   NP_001100736
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81535,688,987 - 35,781,629 (+)NCBI
mRatBN7.21531,573,417 - 31,666,068 (+)NCBI
Rnor_6.01537,691,394 - 37,784,924 (+)NCBI
Rnor_5.01541,536,303 - 41,630,808 (+)NCBI
RGSC_v3.41536,468,007 - 36,560,959 (+)RGD
Celera1531,284,577 - 31,376,920 (+)RGD
Sequence:
RefSeq Acc Id: XM_006252066   ⟹   XP_006252128
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81535,685,678 - 35,781,629 (+)NCBI
mRatBN7.21531,573,325 - 31,666,068 (+)NCBI
Rnor_6.01537,690,417 - 37,784,924 (+)NCBI
Rnor_5.01541,536,303 - 41,630,808 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006252067   ⟹   XP_006252129
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81535,685,678 - 35,781,629 (+)NCBI
mRatBN7.21531,573,349 - 31,666,068 (+)NCBI
Rnor_6.01537,690,417 - 37,784,924 (+)NCBI
Rnor_5.01541,536,303 - 41,630,808 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006252070   ⟹   XP_006252132
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81535,685,678 - 35,781,629 (+)NCBI
mRatBN7.21531,573,382 - 31,666,068 (+)NCBI
Rnor_6.01537,690,417 - 37,784,924 (+)NCBI
Rnor_5.01541,536,303 - 41,630,808 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017599687   ⟹   XP_017455176
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81535,685,678 - 35,781,629 (+)NCBI
mRatBN7.21531,573,356 - 31,666,068 (+)NCBI
Rnor_6.01537,691,471 - 37,784,924 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039093318   ⟹   XP_038949246
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81535,699,510 - 35,781,629 (+)NCBI
mRatBN7.21531,579,209 - 31,666,068 (+)NCBI
RefSeq Acc Id: XM_039093319   ⟹   XP_038949247
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81535,706,866 - 35,781,629 (+)NCBI
mRatBN7.21531,591,744 - 31,666,068 (+)NCBI
RefSeq Acc Id: XM_063274267   ⟹   XP_063130337
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81535,685,678 - 35,751,224 (+)NCBI
RefSeq Acc Id: XR_005493725
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81535,685,678 - 35,780,711 (+)NCBI
mRatBN7.21531,573,382 - 31,665,147 (+)NCBI
RefSeq Acc Id: XR_010057816
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81535,685,678 - 35,786,875 (+)NCBI
RefSeq Acc Id: XR_010057817
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81535,685,678 - 35,759,730 (+)NCBI
RefSeq Acc Id: XR_010057818
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81535,685,678 - 35,786,875 (+)NCBI
RefSeq Acc Id: NP_001100736   ⟸   NM_001107266
- UniProtKB: A6KHC0 (UniProtKB/TrEMBL),   A0A096MJ06 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006252129   ⟸   XM_006252067
- Peptide Label: isoform X1
- UniProtKB: A0A8I5ZPQ6 (UniProtKB/TrEMBL),   A0A096MJ06 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006252128   ⟸   XM_006252066
- Peptide Label: isoform X1
- UniProtKB: A0A8I5ZPQ6 (UniProtKB/TrEMBL),   A0A096MJ06 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006252132   ⟸   XM_006252070
- Peptide Label: isoform X2
- UniProtKB: D4ACI9 (UniProtKB/TrEMBL),   A0A096MJ06 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017455176   ⟸   XM_017599687
- Peptide Label: isoform X1
- UniProtKB: A0A8I5ZPQ6 (UniProtKB/TrEMBL),   A0A096MJ06 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000012988   ⟸   ENSRNOT00000012988
RefSeq Acc Id: ENSRNOP00000067945   ⟸   ENSRNOT00000076839
RefSeq Acc Id: ENSRNOP00000068425   ⟸   ENSRNOT00000076608
RefSeq Acc Id: ENSRNOP00000068104   ⟸   ENSRNOT00000076741
RefSeq Acc Id: XP_038949246   ⟸   XM_039093318
- Peptide Label: isoform X3
- UniProtKB: A0A096MJ06 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038949247   ⟸   XM_039093319
- Peptide Label: isoform X4
RefSeq Acc Id: ENSRNOP00000078923   ⟸   ENSRNOT00000118046
RefSeq Acc Id: XP_063130337   ⟸   XM_063274267
- Peptide Label: isoform X5

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A096MK92-F1-model_v2 AlphaFold A0A096MK92 1-825 view protein structure

Transcriptome

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

Promoters
RGD ID:13699720
Promoter ID:EPDNEW_R10243
Type:initiation region
Name:Ift88_1
Description:intraflagellar transport 88
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_6.01537,691,345 - 37,691,405EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1309717 AgrOrtholog
BioCyc Gene G2FUF-13603 BioCyc
Ensembl Genes ENSRNOG00000009278 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000012988.8 UniProtKB/TrEMBL
  ENSRNOT00000076608.3 UniProtKB/TrEMBL
  ENSRNOT00000076741.3 UniProtKB/TrEMBL
  ENSRNOT00000076839.2 UniProtKB/TrEMBL
  ENSRNOT00000118046.1 UniProtKB/TrEMBL
Gene3D-CATH 1.25.40.10 UniProtKB/TrEMBL
InterPro TPR-like_helical UniProtKB/TrEMBL
  TPR_repeat UniProtKB/TrEMBL
KEGG Report rno:305918 UniProtKB/TrEMBL
NCBI Gene 305918 ENTREZGENE
PANTHER INTRAFLAGELLAR TRANSPORT PROTEIN 88 HOMOLOG UniProtKB/TrEMBL
  INTRAFLAGELLAR TRANSPORT PROTEIN 88 HOMOLOG UniProtKB/TrEMBL
Pfam ANAPC3 UniProtKB/TrEMBL
  TPR_12 UniProtKB/TrEMBL
  TPR_16 UniProtKB/TrEMBL
  TPR_6 UniProtKB/TrEMBL
  TPR_8 UniProtKB/TrEMBL
PhenoGen Ift88 PhenoGen
PROSITE TPR UniProtKB/TrEMBL
  TPR_REGION UniProtKB/TrEMBL
RatGTEx ENSRNOG00000009278 RatGTEx
SMART TPR UniProtKB/TrEMBL
Superfamily-SCOP HCP-like UniProtKB/TrEMBL
  SSF48452 UniProtKB/TrEMBL
UniProt A0A096MJ06 ENTREZGENE, UniProtKB/TrEMBL
  A0A096MJE9_RAT UniProtKB/TrEMBL
  A0A096MK92_RAT UniProtKB/TrEMBL
  A0A8I5ZPQ6 ENTREZGENE, UniProtKB/TrEMBL
  A6KHC0 ENTREZGENE, UniProtKB/TrEMBL
  D4ACI9 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2014-07-09 Ift88  intraflagellar transport 88  Ift88  intraflagellar transport 88 homolog (Chlamydomonas)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Ift88  intraflagellar transport 88 homolog (Chlamydomonas)   Ift88_predicted  intraflagellar transport 88 homolog (Chlamydomonas) (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-30 Ift88_predicted  intraflagellar transport 88 homolog (Chlamydomonas) (predicted)  Ttc10_predicted  tetratricopeptide repeat domain 10 (predicted)  Symbol and Name updated 1299863 APPROVED
2005-01-12 Ttc10_predicted  tetratricopeptide repeat domain 10 (predicted)      Symbol and Name status set to approved 70820 APPROVED