Tapt1 (transmembrane anterior posterior transformation 1) - Rat Genome Database

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Gene: Tapt1 (transmembrane anterior posterior transformation 1) Rattus norvegicus
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Symbol: Tapt1
Name: transmembrane anterior posterior transformation 1
RGD ID: 1309656
Description: Predicted to be involved in positive regulation of cilium assembly. Predicted to act upstream of or within embryonic skeletal system development. Predicted to be located in centrosome. Predicted to be active in ciliary basal body and endoplasmic reticulum membrane. Orthologous to human TAPT1 (transmembrane anterior posterior transformation 1); INTERACTS WITH 6-propyl-2-thiouracil; amitrole; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC305386; RGD1309656; similar to hypothetical protein FLJ90013; transmembrane anterior posterior transformation protein 1 homolog
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
GRCr81471,085,966 - 71,132,228 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1471,085,316 - 71,132,232 (+)EnsemblGRCr8
mRatBN7.21466,873,467 - 66,919,737 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1466,873,459 - 66,919,741 (+)EnsemblmRatBN7.2
Rnor_6.01471,416,153 - 71,462,646 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1471,424,083 - 71,462,618 (+)Ensemblrn6Rnor6.0
Rnor_5.01471,455,305 - 71,493,971 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41472,004,598 - 72,050,704 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1465,833,416 - 65,879,803 (+)NCBICelera
RGSC_v3.11472,006,988 - 72,051,867 (+)NCBI
Cytogenetic Map14q21NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
centrosome  (IEA,ISO)
ciliary basal body  (IEA,ISO)
membrane  (IEA)

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. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:17151244   PMID:26365339  


Genomics

Comparative Map Data
Tapt1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81471,085,966 - 71,132,228 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1471,085,316 - 71,132,232 (+)EnsemblGRCr8
mRatBN7.21466,873,467 - 66,919,737 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1466,873,459 - 66,919,741 (+)EnsemblmRatBN7.2
Rnor_6.01471,416,153 - 71,462,646 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1471,424,083 - 71,462,618 (+)Ensemblrn6Rnor6.0
Rnor_5.01471,455,305 - 71,493,971 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41472,004,598 - 72,050,704 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1465,833,416 - 65,879,803 (+)NCBICelera
RGSC_v3.11472,006,988 - 72,051,867 (+)NCBI
Cytogenetic Map14q21NCBI
TAPT1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38416,160,505 - 16,227,390 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl416,160,505 - 16,227,410 (-)Ensemblhg38GRCh38
GRCh37416,162,128 - 16,228,094 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36415,771,226 - 15,837,259 (-)NCBIBuild 36Build 36hg18NCBI36
Celera416,626,692 - 16,693,512 (-)NCBICelera
Cytogenetic Map4p15.32NCBI
HuRef415,511,711 - 15,593,606 (-)NCBIHuRef
CHM1_1416,160,072 - 16,226,096 (-)NCBICHM1_1
T2T-CHM13v2.0416,142,386 - 16,209,261 (-)NCBIT2T-CHM13v2.0
Tapt1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39544,332,496 - 44,384,411 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl544,332,496 - 44,383,968 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm38544,175,154 - 44,231,163 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl544,175,154 - 44,226,626 (-)Ensemblmm10GRCm38
MGSCv37544,566,398 - 44,617,845 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36544,463,407 - 44,514,854 (-)NCBIMGSCv36mm8
Celera541,594,911 - 41,646,303 (-)NCBICelera
Cytogenetic Map5B3NCBI
cM Map524.24NCBI
Tapt1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554807,833,883 - 7,893,131 (+)Ensembl
ChiLan1.0NW_0049554807,833,883 - 7,892,948 (+)NCBIChiLan1.0ChiLan1.0
TAPT1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2316,430,839 - 16,496,538 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1416,627,404 - 16,694,308 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0410,589,166 - 10,654,951 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1415,886,075 - 15,938,591 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl415,886,080 - 15,938,594 (-)EnsemblpanPan2panpan1.1
TAPT1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1364,124,645 - 64,189,509 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl364,124,045 - 64,188,071 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha366,642,783 - 66,707,610 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0364,602,587 - 64,667,226 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl364,601,990 - 64,667,206 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1364,092,826 - 64,157,634 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0364,296,623 - 64,361,325 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0364,657,245 - 64,722,079 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Tapt1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440528558,073,972 - 58,121,605 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647711,777,415 - 11,823,421 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_00493647711,777,657 - 11,823,296 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TAPT1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl811,365,432 - 11,416,488 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1811,365,423 - 11,415,699 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2811,018,225 - 11,066,666 (-)NCBISscrofa10.2Sscrofa10.2susScr3
TAPT1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12733,986,078 - 34,051,560 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2733,985,766 - 34,052,262 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366604780,716,597 - 80,782,140 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Tapt1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475515,639,136 - 15,699,006 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462475515,639,200 - 15,698,828 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Tapt1
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11161,560,694 - 61,605,456 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Tapt1
389 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:29
Count of miRNA genes:27
Interacting mature miRNAs:29
Transcripts:ENSRNOT00000004274
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
9590294Uminl4Urine mineral level QTL 45.660.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)1459848686104848686Rat
70214Niddm28Non-insulin dependent diabetes mellitus QTL 284.06blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)143900944484009444Rat
1300154Bp189Blood pressure QTL 1893.04arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)143123808072970315Rat
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
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
2317879Alcrsp27Alcohol response QTL 273.30.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)1460854936105854936Rat
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1411334716100078267Rat
9589034Epfw11Epididymal fat weight QTL 1160.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)1459848686104848686Rat
2313048Bss84Bone structure and strength QTL 843.10.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)143802371083023710Rat
1300136Rf22Renal function QTL 223.9renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)144261625899224555Rat
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

Markers in Region
RH127687  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21466,919,297 - 66,919,494 (+)MAPPERmRatBN7.2
Rnor_6.01471,462,207 - 71,462,403NCBIRnor6.0
Rnor_5.01471,493,532 - 71,493,728UniSTSRnor5.0
RGSC_v3.41472,050,264 - 72,050,460UniSTSRGSC3.4
Celera1465,879,364 - 65,879,560UniSTS
Cytogenetic Map14q21UniSTS


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 67 164 91 90 59 92 59 6 356 192 11 143 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000004274   ⟹   ENSRNOP00000004274
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1466,881,372 - 66,919,741 (+)Ensembl
Rnor_6.0 Ensembl1471,424,083 - 71,462,618 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000097098   ⟹   ENSRNOP00000087570
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1471,085,316 - 71,132,232 (+)Ensembl
mRatBN7.2 Ensembl1466,873,459 - 66,919,741 (+)Ensembl
RefSeq Acc Id: XM_039092783   ⟹   XP_038948711
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81471,085,966 - 71,132,228 (+)NCBI
mRatBN7.21466,873,467 - 66,919,737 (+)NCBI
RefSeq Acc Id: XM_039092784   ⟹   XP_038948712
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81471,106,536 - 71,132,228 (+)NCBI
mRatBN7.21466,894,041 - 66,919,737 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001419737 (Get FASTA)   NCBI Sequence Viewer  
  XP_038948711 (Get FASTA)   NCBI Sequence Viewer  
  XP_038948712 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL99940 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000087570.2
Ensembl Acc Id: ENSRNOP00000004274   ⟸   ENSRNOT00000004274
RefSeq Acc Id: XP_038948711   ⟸   XM_039092783
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038948712   ⟸   XM_039092784
- Peptide Label: isoform X2
Ensembl Acc Id: ENSRNOP00000087570   ⟸   ENSRNOT00000097098

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4A533-F1-model_v2 AlphaFold D4A533 1-608 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1309656 AgrOrtholog
BioCyc Gene G2FUF-15521 BioCyc
Ensembl Genes ENSRNOG00000003174 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000097098.2 UniProtKB/TrEMBL
InterPro Tatp1 UniProtKB/TrEMBL
NCBI Gene 305386 ENTREZGENE
PANTHER PTHR13317 UniProtKB/TrEMBL
  TRANSMEMBRANE ANTERIOR POSTERIOR TRANSFORMATION PROTEIN 1 HOMOLOG UniProtKB/TrEMBL
Pfam DUF747 UniProtKB/TrEMBL
PhenoGen Tapt1 PhenoGen
RatGTEx ENSRNOG00000003174 RatGTEx
UniProt A0A8I6A632 ENTREZGENE, UniProtKB/TrEMBL
  D4A533 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-02-26 Tapt1  transmembrane anterior posterior transformation 1  RGD1309656_predicted  similar to hypothetical protein FLJ90013 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 RGD1309656_predicted  similar to hypothetical protein FLJ90013 (predicted)  LOC305386_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC305386_predicted  similar to hypothetical protein FLJ90013 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL