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

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Gene: Tapt1 (transmembrane anterior posterior transformation 1) Rattus norvegicus
Analyze
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; cytosol; and nucleoplasm. Predicted to be active in ciliary basal body and endoplasmic reticulum membrane. Orthologous to human TAPT1 (transmembrane anterior posterior transformation 1); INTERACTS WITH bisphenol A; gentamycin; oxaliplatin.
Type: protein-coding
RefSeq Status: MODEL
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
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21466,873,467 - 66,919,737 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1466,873,459 - 66,919,741 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.01471,416,153 - 71,462,646 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1471,424,083 - 71,462,618 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01471,455,305 - 71,493,971 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41472,004,598 - 72,050,704 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11472,006,988 - 72,051,867 (+)NCBI
Celera1465,833,416 - 65,879,803 (+)NCBICelera
Cytogenetic Map14q21NCBI
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

Cellular Component

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
mRatBN7.21466,873,467 - 66,919,737 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1466,873,459 - 66,919,741 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.01471,416,153 - 71,462,646 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1471,424,083 - 71,462,618 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01471,455,305 - 71,493,971 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41472,004,598 - 72,050,704 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11472,006,988 - 72,051,867 (+)NCBI
Celera1465,833,416 - 65,879,803 (+)NCBICelera
Cytogenetic Map14q21NCBI
TAPT1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38416,160,505 - 16,227,390 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl416,160,505 - 16,227,410 (-)EnsemblGRCh38hg38GRCh38
GRCh37416,162,128 - 16,228,094 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36415,771,226 - 15,837,259 (-)NCBINCBI36Build 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 - 16,208,342 (-)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 Ensembl
GRCm38544,175,154 - 44,231,163 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl544,175,154 - 44,226,626 (-)EnsemblGRCm38mm10GRCm38
MGSCv37544,566,398 - 44,617,845 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36544,463,407 - 44,514,854 (-)NCBIMGSCv36mm8
Celera541,594,911 - 41,646,303 (-)NCBICelera
Cytogenetic Map5B3NCBI
Tapt1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554807,833,883 - 7,893,131 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554807,833,883 - 7,892,948 (+)NCBIChiLan1.0ChiLan1.0
TAPT1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1415,886,075 - 15,938,591 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl415,886,080 - 15,938,594 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0410,589,166 - 10,654,951 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
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 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha366,642,783 - 66,707,610 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0364,602,587 - 64,667,226 (+)NCBIROS_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_1.0
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
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 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
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 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
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_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462475515,639,200 - 15,698,828 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Tapt1
221 total Variants
miRNA Target Status

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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1581500Renag1Renal agenesis QTL 1kidney development trait (VT:0000527)percentage of study population developing unilateral renal agenesis during a period of time (CMO:0000940)14817066868298175Rat
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)141103062295876975Rat
70187Pancm5Pancreatic morphology QTL 516.7pancreas mass (VT:0010144)pancreas weight to body weight ratio (CMO:0000630)143032009280829842Rat
1300154Bp189Blood pressure QTL 1893.04arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)143088377768757901Rat
2313048Bss84Bone structure and strength QTL 843.10.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)143766971982669719Rat
2313084Bss83Bone structure and strength QTL 832.90.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)143766971982669719Rat
2313089Bss81Bone structure and strength QTL 813.40.0001body length (VT:0001256)body length, nose to rump (CMO:0000079)143766971982669719Rat
2313100Bss82Bone structure and strength QTL 8230.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)143766971982669719Rat
738037Hcas6Hepatocarcinoma susceptibility QTL 62.93liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)143905723783368335Rat
70214Niddm28Non-insulin dependent diabetes mellitus QTL 284.06blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)143999825175582726Rat
631523Pia13Pristane induced arthritis QTL 133.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)144079346098037301Rat
1300136Rf22Renal function QTL 223.9renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)144226252995023211Rat
1549834Scl45Serum cholesterol level QTL 455.8blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)145002321195023211Rat
2300197Scl59Serum cholesterol level QTL 59blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1455147478100147478Rat
9590294Uminl4Urine mineral level QTL 45.660.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)1455624247100624247Rat
9589034Epfw11Epididymal fat weight QTL 1160.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)1455624247100624247Rat
2317879Alcrsp27Alcohol response QTL 273.30.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)1456631369101631369Rat
634328Hc5Hypercalciuria QTL 52.3urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1458184885103184885Rat

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
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 3 39 57 41 19 41 8 11 74 35 38 11 8
Low 4 3
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000004274   ⟹   ENSRNOP00000004274
RefSeq Status:
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
RefSeq Acc Id: ENSRNOT00000097098   ⟹   ENSRNOP00000087570
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1466,873,459 - 66,919,741 (+)Ensembl
RefSeq Acc Id: XM_039092783   ⟹   XP_038948711
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21466,873,467 - 66,919,737 (+)NCBI
RefSeq Acc Id: XM_039092784   ⟹   XP_038948712
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21466,894,041 - 66,919,737 (+)NCBI
Protein Sequences
Protein RefSeqs XP_038948711 (Get FASTA)   NCBI Sequence Viewer  
  XP_038948712 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL99940 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: ENSRNOP00000004274   ⟸   ENSRNOT00000004274
RefSeq Acc Id: XP_038948711   ⟸   XM_039092783
- Peptide Label: isoform X1
- UniProtKB: A0A8I6A632 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038948712   ⟸   XM_039092784
- Peptide Label: isoform X2
RefSeq 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, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000004274.7 UniProtKB/TrEMBL
  ENSRNOP00000087570 ENTREZGENE
  ENSRNOP00000087570.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000004274.8 UniProtKB/TrEMBL
  ENSRNOT00000097098 ENTREZGENE
  ENSRNOT00000097098.1 UniProtKB/TrEMBL
InterPro Tatp1 UniProtKB/TrEMBL
NCBI Gene 305386 ENTREZGENE
PANTHER PTHR13317 UniProtKB/TrEMBL
Pfam DUF747 UniProtKB/TrEMBL
PhenoGen Tapt1 PhenoGen
UniProt A0A8I6A632 ENTREZGENE, UniProtKB/TrEMBL
  D4A533_RAT UniProtKB/TrEMBL


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