Ift70a2 (intraflagellar transport 70A2) - Rat Genome Database

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Gene: Ift70a2 (intraflagellar transport 70A2) Rattus norvegicus
Analyze
Symbol: Ift70a2
Name: intraflagellar transport 70A2
RGD ID: 1560121
Description: Predicted to enable intraciliary transport particle B binding activity. Predicted to be involved in intraciliary transport. Predicted to be located in cilium. Predicted to be part of intraciliary transport particle B. Predicted to be active in axonemal microtubule. Orthologous to human IFT70A (intraflagellar transport 70A); INTERACTS WITH bisphenol A; 2-hydroxypropanoic acid (ortholog); 4,4'-sulfonyldiphenol (ortholog).
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: intraflagellar transport protein 70A2; LOC311123; MGC116209; similar to RIKEN cDNA 4930506L13; tetratricopeptide repeat domain 30A1; tetratricopeptide repeat domain 30A2; tetratricopeptide repeat protein 30A2; TPR repeat protein 30A2; Ttc30a1; Ttc30a2
RGD Orthologs
Human
Mouse
Bonobo
Dog
Green Monkey
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8381,306,455 - 81,308,896 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl381,307,245 - 81,320,093 (-)EnsemblGRCr8
mRatBN7.2360,899,193 - 60,901,634 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl360,899,196 - 60,901,634 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx364,272,681 - 64,275,122 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0372,856,314 - 72,858,755 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0370,623,678 - 70,626,119 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0362,800,932 - 62,803,373 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl362,800,935 - 62,803,373 (-)Ensemblrn6Rnor6.0
Rnor_5.0369,347,851 - 69,350,292 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4358,645,228 - 58,647,669 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera360,398,908 - 60,401,349 (-)NCBICelera
Cytogenetic Map3q23NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

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. GOA pipeline RGD automated data pipeline
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
4. 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.
Additional References at PubMed
PMID:19253336   PMID:23810713  


Genomics

Comparative Map Data
Ift70a2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8381,306,455 - 81,308,896 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl381,307,245 - 81,320,093 (-)EnsemblGRCr8
mRatBN7.2360,899,193 - 60,901,634 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl360,899,196 - 60,901,634 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx364,272,681 - 64,275,122 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0372,856,314 - 72,858,755 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0370,623,678 - 70,626,119 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0362,800,932 - 62,803,373 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl362,800,935 - 62,803,373 (-)Ensemblrn6Rnor6.0
Rnor_5.0369,347,851 - 69,350,292 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4358,645,228 - 58,647,669 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera360,398,908 - 60,401,349 (-)NCBICelera
Cytogenetic Map3q23NCBI
IFT70A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382177,612,999 - 177,618,742 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2177,612,999 - 177,618,742 (-)Ensemblhg38GRCh38
GRCh372178,477,727 - 178,483,470 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362178,187,272 - 178,191,940 (-)NCBIBuild 36Build 36hg18NCBI36
Celera2172,081,886 - 172,086,554 (-)NCBICelera
Cytogenetic Map2q31.2NCBI
HuRef2170,350,085 - 170,354,753 (-)NCBIHuRef
CHM1_12178,484,838 - 178,489,506 (-)NCBICHM1_1
T2T-CHM13v2.02178,095,311 - 178,101,054 (-)NCBIT2T-CHM13v2.0
Ift70a2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39275,806,516 - 75,808,523 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl275,806,084 - 75,808,514 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm38275,976,172 - 75,978,179 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl275,975,740 - 75,978,170 (-)Ensemblmm10GRCm38
MGSCv37275,814,229 - 75,816,236 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36275,777,011 - 75,779,018 (-)NCBIMGSCv36mm8
MGSCv36276,843,780 - 76,845,787 (-)NCBIMGSCv36mm8
Celera277,637,990 - 77,639,997 (-)NCBICelera
Cytogenetic Map2C3NCBI
cM Map244.8NCBI
IFT70A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21380,280,198 - 80,285,795 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12B80,275,926 - 80,300,775 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02B64,874,886 - 64,884,786 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12B182,596,695 - 182,601,363 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2B182,599,089 - 182,601,086 (-)EnsemblpanPan2panpan1.1
PanPan1.1 Ensembl2B182,599,089 - 182,601,086 (-)NCBIpanPan2panpan1.1
TTC30A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13621,327,770 - 21,330,933 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3621,347,827 - 21,350,223 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.03621,473,149 - 21,475,545 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3621,471,835 - 21,475,310 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13621,543,291 - 21,545,687 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03621,545,284 - 21,547,683 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03621,660,397 - 21,662,793 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
IFT70A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11063,169,696 - 63,174,903 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1063,172,665 - 63,174,662 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_023666040136,405,175 - 136,410,381 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in Ift70a2
24 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:130
Count of miRNA genes:81
Interacting mature miRNAs:83
Transcripts:ENSRNOT00000050515
Prediction methods:Microtar, Miranda
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
1300178Hrtrt4Heart rate QTL 43.74heart pumping trait (VT:2000009)heart rate (CMO:0000002)351490129111359995Rat
1358293Bw38Body weight QTL 3860.0000031body mass (VT:0001259)body weight (CMO:0000012)374364268119364268Rat
61377Edpm3Estrogen-dependent pituitary mass QTL 37.050.038pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)373592611110333156Rat
1582238Bw68Body weight QTL 683.20.0064body mass (VT:0001259)body weight (CMO:0000012)373592512136118980Rat
1331795Rf30Renal function QTL 303.708urine potassium amount (VT:0010539)urine potassium level (CMO:0000128)35986366387321459Rat
1582239Epfw1Epididymal fat weight QTL 14.50.0006epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)373592512136118980Rat
70216Cm14Cardiac mass QTL 142.1heart mass (VT:0007028)heart wet weight (CMO:0000069)351581665184004958Rat
1354589Bw31Body weight QTL 313.3body mass (VT:0001259)body weight (CMO:0000012)35365182698651826Rat
2303593Gluco46Glucose level QTL 463blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)34887661993876619Rat
1354590Despr11Despair related QTL 110.000031locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)34887661993876619Rat
2298542Neuinf11Neuroinflammation QTL 113.9nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)33540319997383526Rat
2292591Esta4Estrogen-induced thymic atrophy QTL 4thymus mass (VT:0004954)thymus wet weight (CMO:0000855)367641776167835660Rat
1358362Srcrt2Stress Responsive Cort QTL 22.78blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)358601291153936591Rat
737818Hcar12Hepatocarcinoma resistance QTL 122.6liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)349872657138829559Rat
631832Sach1Saccharin preference QTL 12.70.02consumption behavior trait (VT:0002069)calculated saccharin drink intake volume (CMO:0001600)34790417292904172Rat
1582218Bw74Body weight QTL 743.90.0021body mass (VT:0001259)body weight (CMO:0000012)373592512136118980Rat
1331777Bw24Body weight QTL 243.503body mass (VT:0001259)body weight (CMO:0000012)35986366387321459Rat
631647Bp122Blood pressure QTL 1226.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)35109256196092561Rat
1300169Bp177Blood pressure QTL 1772.96arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)33642511681425116Rat
9590286Uminl1Urine mineral level QTL 13.50.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)34865774493657744Rat
724523Tsu1Thymus enlargement suppressive QTL 13.84thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)370845569136091483Rat
4889966Bss95Bone structure and strength QTL 954.4tibia area (VT:1000281)tibia-fibula cross-sectional area (CMO:0001718)33779691982796919Rat
8662816Vetf4Vascular elastic tissue fragility QTL 44renal artery integrity trait (VT:0010642)number of ruptures of the internal elastic lamina of the renal arteries (CMO:0002563)379649560177741895Rat
2302276Bw82Body weight QTL 824.32body mass (VT:0001259)body weight (CMO:0000012)35986366383358329Rat
2292613Ept16Estrogen-induced pituitary tumorigenesis QTL 168.3pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)367641995130815812Rat
738019Anxrr10Anxiety related response QTL 103.9exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)358925062103925062Rat
631841Niddm39Non-insulin dependent diabetes mellitus QTL 393.36blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)370311536115311536Rat
9590136Scort3Serum corticosterone level QTL 323.370.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)34865774493657744Rat
61419Cia11Collagen induced arthritis QTL 115.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)35076614595766145Rat
61356Bp37Blood pressure QTL 373blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)35109256196092561Rat
1558650Cm48Cardiac mass QTL 4840.0001heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)35076614595766145Rat
1358905Hrtrt17Heart rate QTL 175.90.000014heart pumping trait (VT:2000009)heart rate (CMO:0000002)336721849110333156Rat
8694196Abfw2Abdominal fat weight QTL 216.580.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)34865774493657744Rat
1582249Bw77Body weight QTL 773.20.0025epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)37359251285062403Rat
1354597Kidm13Kidney mass QTL 132.9kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)342158111124558371Rat
1358885Bp251Blood pressure QTL 2513.8arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)31141509147Rat
2325840Bp345Blood pressure QTL 3450.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)33870893183708931Rat
8552950Pigfal12Plasma insulin-like growth factor 1 level QTL 127.3blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)34865774493657744Rat
631676Cm8Cardiac mass QTL 87.030.0001aorta mass (VT:0002845)aorta weight (CMO:0000076)33736373482363734Rat
8694386Bw159Body weight QTL 1594.520.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)34865774493657744Rat
1354604Bw36Body weight QTL 362.9body mass (VT:0001259)body weight (CMO:0000012)342158111124558371Rat
1358888Bp264Blood pressure QTL 2644.43arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)35675975141509147Rat
1358186Ept2Estrogen-induced pituitary tumorigenesis QTL 28.3pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)367641995130815812Rat

Markers in Region
RH133128  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2360,902,761 - 60,902,971 (+)MAPPERmRatBN7.2
Rnor_6.0362,804,501 - 62,804,710NCBIRnor6.0
Rnor_5.0369,351,420 - 69,351,629UniSTSRnor5.0
RGSC_v3.4358,648,797 - 58,649,006UniSTSRGSC3.4
Celera360,402,477 - 60,402,686UniSTS
Cytogenetic Map3q23UniSTS
RH138121  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2360,899,226 - 60,899,375 (+)MAPPERmRatBN7.2
Rnor_6.0362,800,966 - 62,801,114NCBIRnor6.0
Rnor_5.0369,347,885 - 69,348,033UniSTSRnor5.0
RGSC_v3.4358,645,262 - 58,645,410UniSTSRGSC3.4
Celera360,398,942 - 60,399,090UniSTS
Cytogenetic Map3q23UniSTS


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 12 62 157 91 90 59 78 59 6 330 173 10 136 74 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000013565   ⟹   ENSRNOP00000013565
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl381,307,245 - 81,320,093 (-)Ensembl
mRatBN7.2 Ensembl360,899,196 - 60,901,634 (-)Ensembl
Rnor_6.0 Ensembl362,800,935 - 62,803,373 (-)Ensembl
RefSeq Acc Id: NM_001029918   ⟹   NP_001025089
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8381,306,455 - 81,308,896 (-)NCBI
mRatBN7.2360,899,193 - 60,901,634 (-)NCBI
Rnor_6.0362,800,932 - 62,803,373 (-)NCBI
Rnor_5.0369,347,851 - 69,350,292 (-)NCBI
RGSC_v3.4358,645,228 - 58,647,669 (-)RGD
Celera360,398,908 - 60,401,349 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001025089 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH98051 (Get FASTA)   NCBI Sequence Viewer  
  EDL79216 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000013565.3
GenBank Protein Q4QQS2 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001025089   ⟸   NM_001029918
- UniProtKB: Q4QQS2 (UniProtKB/Swiss-Prot),   A6HMG5 (UniProtKB/TrEMBL),   A0A0H2UHX9 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000013565   ⟸   ENSRNOT00000013565

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q4QQS2-F1-model_v2 AlphaFold Q4QQS2 1-664 view protein structure

Transcriptome

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

Promoters
RGD ID:13692156
Promoter ID:EPDNEW_R2681
Type:multiple initiation site
Name:Ttc30a1_1
Description:tetratricopeptide repeat domain 30A1
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_6.0362,803,360 - 62,803,420EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1560121 AgrOrtholog
BioCyc Gene G2FUF-49295 BioCyc
Ensembl Genes ENSRNOG00000052519 Ensembl, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000013565.5 UniProtKB/Swiss-Prot
Gene3D-CATH 1.25.40.10 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7457462 IMAGE-MGC_LOAD
InterPro TPR-like_helical_dom_sf UniProtKB/Swiss-Prot
  TPR_repeat UniProtKB/Swiss-Prot
  TT30 UniProtKB/Swiss-Prot
KEGG Report rno:311123 UniProtKB/Swiss-Prot
MGC_CLONE MGC:116209 IMAGE-MGC_LOAD
NCBI Gene 311123 ENTREZGENE
PANTHER PTHR20931 UniProtKB/Swiss-Prot
  TETRATRICOPEPTIDE REPEAT PROTEIN 30A2 UniProtKB/Swiss-Prot
Pfam TPR_16 UniProtKB/Swiss-Prot
PhenoGen Ift70a2 PhenoGen
PROSITE TPR_REGION UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000052519 RatGTEx
SMART TPR UniProtKB/Swiss-Prot
Superfamily-SCOP SSF48452 UniProtKB/Swiss-Prot
UniProt A0A0H2UHX9 ENTREZGENE
  A6HMG5 ENTREZGENE, UniProtKB/TrEMBL
  Q4QQS2 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2023-03-16 Ift70a2  intraflagellar transport 70A2  Ttc30a2  tetratricopeptide repeat domain 30A2  Name and Symbol changed 629549 APPROVED
2023-02-27 Ttc30a2  tetratricopeptide repeat domain 30A2  Ttc30a1  tetratricopeptide repeat domain 30A1  Name and Symbol changed 629549 APPROVED
2008-03-05 Ttc30a1  tetratricopeptide repeat domain 30A1  LOC311123  similar to RIKEN cDNA 4930506L13  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-02-09 LOC311123  similar to RIKEN cDNA 4930506L13      Symbol and Name status set to provisional 70820 PROVISIONAL