Tprn (taperin) - Rat Genome Database

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Gene: Tprn (taperin) Rattus norvegicus
Analyze
Symbol: Tprn
Name: taperin
RGD ID: 1562935
Description: Predicted to enable actin binding activity; protein phosphatase 1 binding activity; and protein serine/threonine phosphatase inhibitor activity. Predicted to be involved in auditory receptor cell stereocilium organization; sensory perception of sound; and stereocilium maintenance. Predicted to be located in several cellular components, including microvillus; nucleoplasm; and stereocilium. Predicted to be active in stereocilium base. Human ortholog(s) of this gene implicated in autosomal recessive nonsyndromic deafness 79. Orthologous to human TPRN (taperin); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 3,3',4,4',5-pentachlorobiphenyl; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: hypothetical protein LOC499749; LOC499749; similar to RIKEN cDNA C430004E15
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
GRCr8328,474,322 - 28,481,800 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl328,473,620 - 28,482,117 (+)EnsemblGRCr8
mRatBN7.238,076,164 - 8,083,642 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl38,075,137 - 8,083,642 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx311,180,673 - 11,188,141 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0319,766,903 - 19,774,371 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0317,956,746 - 17,964,214 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.032,480,232 - 2,487,710 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl32,480,232 - 2,487,710 (+)Ensemblrn6Rnor6.0
Rnor_5.032,461,645 - 2,469,123 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.433,426,263 - 3,433,741 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera32,902,712 - 2,910,187 (+)NCBICelera
Cytogenetic Map3p13NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytoplasm  (IEA,ISO,ISS)
microvillus  (IEA,ISO,ISS)
nucleoplasm  (IEA,ISO,ISS)
stereocilium  (IEA,ISO,ISS)
stereocilium base  (IBA,IEA,ISO,ISS)

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. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
3. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
5. 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:20170898   PMID:20170899   PMID:27269051   PMID:27693694   PMID:30380417  


Genomics

Comparative Map Data
Tprn
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8328,474,322 - 28,481,800 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl328,473,620 - 28,482,117 (+)EnsemblGRCr8
mRatBN7.238,076,164 - 8,083,642 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl38,075,137 - 8,083,642 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx311,180,673 - 11,188,141 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0319,766,903 - 19,774,371 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0317,956,746 - 17,964,214 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.032,480,232 - 2,487,710 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl32,480,232 - 2,487,710 (+)Ensemblrn6Rnor6.0
Rnor_5.032,461,645 - 2,469,123 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.433,426,263 - 3,433,741 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera32,902,712 - 2,910,187 (+)NCBICelera
Cytogenetic Map3p13NCBI
TPRN
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh389137,191,619 - 137,200,741 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl9137,191,617 - 137,204,193 (-)Ensemblhg38GRCh38
GRCh379140,086,071 - 140,095,193 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 369139,205,890 - 139,214,378 (-)NCBIBuild 36Build 36hg18NCBI36
Build 349137,361,905 - 137,370,394NCBI
Celera9110,600,193 - 110,608,787 (-)NCBICelera
Cytogenetic Map9q34.3NCBI
HuRef9109,546,086 - 109,554,965 (-)NCBIHuRef
CHM1_19140,234,758 - 140,243,897 (-)NCBICHM1_1
T2T-CHM13v2.09149,429,282 - 149,438,404 (-)NCBIT2T-CHM13v2.0
Tprn
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39225,152,610 - 25,159,898 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl225,152,630 - 25,159,897 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm38225,262,598 - 25,269,886 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl225,262,618 - 25,269,885 (+)Ensemblmm10GRCm38
MGSCv37225,118,118 - 25,125,406 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36225,084,627 - 25,091,891 (+)NCBIMGSCv36mm8
Celera224,990,289 - 24,997,577 (+)NCBICelera
Cytogenetic Map2A3NCBI
cM Map217.11NCBI
Tprn
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555135,197,280 - 5,203,445 (-)Ensembl
ChiLan1.0NW_0049555135,196,871 - 5,205,945 (-)NCBIChiLan1.0ChiLan1.0
TPRN
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2112,197,692 - 2,208,003 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan192,200,980 - 2,210,338 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v09108,251,235 - 108,261,541 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.19137,220,640 - 137,229,053 (-)NCBIPanPan1.1PanPan1.1panPan2
TPRN
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Dog10K_Boxer_Tasha947,655,400 - 47,663,450 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0949,330,256 - 49,338,306 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl949,329,451 - 49,338,321 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1948,106,655 - 48,114,705 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0948,405,468 - 48,413,517 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0948,452,626 - 48,460,676 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Tprn
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947202,580,345 - 202,588,325 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936669786,808 - 794,155 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_004936669786,569 - 794,713 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TPRN
(Sus scrofa - pig)		 No map positions available.
TPRN
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.112988,225 - 997,914 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660584,307,339 - 4,317,459 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Tprn
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624760750,871 - 758,433 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_004624760750,833 - 758,329 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Tprn
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1511,914,023 - 11,922,173 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Tprn
36 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:207
Count of miRNA genes:138
Interacting mature miRNAs:153
Transcripts:ENSRNOT00000014489
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1558647Cm46Cardiac mass QTL 465.40.0000055heart mass (VT:0007028)heart wet weight (CMO:0000069)32267715050766390Rat
6893355Bw101Body weight QTL 1010.40.38body mass (VT:0001259)body weight (CMO:0000012)3576639050766390Rat
10450811Scl73Serum cholesterol level QTL 734.70.001blood LDL cholesterol amount (VT:0000181)blood low density lipoprotein cholesterol level (CMO:0000053)3290432947904329Rat
2292615Ept17Estrogen-induced pituitary tumorigenesis QTL 176.7pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)3655634751556347Rat
10450808Scl72Serum cholesterol level QTL 724.40.001blood LDL cholesterol amount (VT:0000181)blood low density lipoprotein cholesterol level (CMO:0000053)3290432947904329Rat
10450806Scl71Serum cholesterol level QTL 715.80.001blood LDL cholesterol amount (VT:0000181)blood low density lipoprotein cholesterol level (CMO:0000053)3290432947904329Rat
1558654Bw56Body weight QTL 564.50.0000171body mass (VT:0001259)body weight (CMO:0000012)3576639050766390Rat
1298526Arunc3Aerobic running capacity QTL 32.2exercise endurance trait (VT:0002332)longest distance run on treadmill (CMO:0001406)3612543751125437Rat
631545Bp85Blood pressure QTL 853.1arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3136721849Rat
1358885Bp251Blood pressure QTL 2513.8arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)31141509147Rat
631679Cm10Cardiac mass QTL 107.340.0001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)3655634751556347Rat
1558657Cm43Cardiac mass QTL 436.63e-08heart mass (VT:0007028)heart wet weight (CMO:0000069)32267715050766390Rat
631568Bp92Blood pressure QTL 922.20.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)31527234860272348Rat
6893363Bw105Body weight QTL 1052.60.0036body mass (VT:0001259)body weight (CMO:0000012)3576639050766390Rat
1358888Bp264Blood pressure QTL 2644.43arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)35675975141509147Rat
1358185Ept6Estrogen-induced pituitary tumorigenesis QTL 66.7pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)3655634751556347Rat

Markers in Region
RH128666  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.238,083,372 - 8,083,584 (+)MAPPERmRatBN7.2
Rnor_6.032,487,441 - 2,487,652NCBIRnor6.0
Rnor_5.032,468,854 - 2,469,065UniSTSRnor5.0
RGSC_v3.433,433,472 - 3,433,683UniSTSRGSC3.4
Celera32,909,918 - 2,910,129UniSTS
Cytogenetic Map3p13UniSTS


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 67 162 91 90 59 92 59 6 356 192 11 141 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000014489   ⟹   ENSRNOP00000014489
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl328,473,620 - 28,482,117 (+)Ensembl
mRatBN7.2 Ensembl38,075,137 - 8,083,642 (+)Ensembl
Rnor_6.0 Ensembl32,480,232 - 2,487,710 (+)Ensembl
RefSeq Acc Id: NM_001024309   ⟹   NP_001019480
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8328,474,322 - 28,481,800 (+)NCBI
mRatBN7.238,076,164 - 8,083,642 (+)NCBI
Rnor_6.032,480,232 - 2,487,710 (+)NCBI
Rnor_5.032,461,645 - 2,469,123 (+)NCBI
RGSC_v3.433,426,263 - 3,433,741 (+)RGD
Celera32,902,712 - 2,910,187 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001019480 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH83928 (Get FASTA)   NCBI Sequence Viewer  
  EDL93622 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000014489
  ENSRNOP00000014489.4
GenBank Protein Q5XHX2 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001019480   ⟸   NM_001024309
- UniProtKB: Q5XHX2 (UniProtKB/Swiss-Prot)
- Sequence:
Ensembl Acc Id: ENSRNOP00000014489   ⟸   ENSRNOT00000014489

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q5XHX2-F1-model_v2 AlphaFold Q5XHX2 1-753 view protein structure

Transcriptome

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

Promoters
RGD ID:13691866
Promoter ID:EPDNEW_R2390
Type:initiation region
Name:Tprn_1
Description:taperin
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_6.032,480,181 - 2,480,241EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1562935 AgrOrtholog
BioCyc Gene G2FUF-50467 BioCyc
Ensembl Genes ENSRNOG00000010896 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000014489 ENTREZGENE
  ENSRNOT00000014489.6 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7135551 IMAGE-MGC_LOAD
InterPro Phostensin/Taperin_N_dom UniProtKB/Swiss-Prot
  Phostensin/Taperin_PP1-bd_dom UniProtKB/Swiss-Prot
  PPP1R18/Tprn UniProtKB/Swiss-Prot
KEGG Report rno:499749 UniProtKB/Swiss-Prot
MGC_CLONE MGC:95335 IMAGE-MGC_LOAD
NCBI Gene 499749 ENTREZGENE
PANTHER PTHR21685 UniProtKB/Swiss-Prot
  PTHR21685:SF1 UniProtKB/Swiss-Prot
Pfam Phostensin UniProtKB/Swiss-Prot
  Phostensin_N UniProtKB/Swiss-Prot
PhenoGen Tprn PhenoGen
RatGTEx ENSRNOG00000010896 RatGTEx
UniProt Q5XHX2 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2011-05-26 Tprn  taperin  LOC499749  similar to RIKEN cDNA C430004E15  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-02-09 LOC499749  similar to RIKEN cDNA C430004E15      Symbol and Name status set to provisional 70820 PROVISIONAL