Trank1 (tetratricopeptide repeat and ankyrin repeat containing 1) - Rat Genome Database

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Gene: Trank1 (tetratricopeptide repeat and ankyrin repeat containing 1) Rattus norvegicus
Analyze
Symbol: Trank1
Name: tetratricopeptide repeat and ankyrin repeat containing 1
RGD ID: 1563130
Description: Orthologous to human TRANK1 (tetratricopeptide repeat and ankyrin repeat containing 1); INTERACTS WITH 6-propyl-2-thiouracil; bisphenol A; endosulfan.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC316022; RGD1563130; similar to KIAA0342 protein; TPR and ankyrin repeat-containing protein 1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr88120,153,381 - 120,233,879 (+)NCBIGRCr8
mRatBN7.28111,275,973 - 111,355,491 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl8111,276,354 - 111,355,092 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx8116,892,440 - 116,970,177 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.08115,091,671 - 115,169,416 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.08112,934,500 - 113,012,248 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.08119,566,509 - 119,644,249 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8119,566,509 - 119,644,249 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08118,916,156 - 118,993,803 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48115,701,554 - 115,781,013 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera8110,557,993 - 110,635,930 (+)NCBICelera
Cytogenetic Map8q32NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

References

References - curated
# Reference Title Reference Citation
1. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
Trank1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr88120,153,381 - 120,233,879 (+)NCBIGRCr8
mRatBN7.28111,275,973 - 111,355,491 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl8111,276,354 - 111,355,092 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx8116,892,440 - 116,970,177 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.08115,091,671 - 115,169,416 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.08112,934,500 - 113,012,248 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.08119,566,509 - 119,644,249 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8119,566,509 - 119,644,249 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08118,916,156 - 118,993,803 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48115,701,554 - 115,781,013 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera8110,557,993 - 110,635,930 (+)NCBICelera
Cytogenetic Map8q32NCBI
TRANK1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38336,826,819 - 36,945,744 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl336,826,819 - 36,945,057 (-)EnsemblGRCh38hg38GRCh38
GRCh37336,868,310 - 36,986,545 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36336,843,315 - 36,877,415 (-)NCBINCBI36Build 36hg18NCBI36
Celera336,811,078 - 36,929,308 (-)NCBICelera
Cytogenetic Map3p22.2NCBI
HuRef336,808,964 - 36,927,088 (-)NCBIHuRef
CHM1_1336,818,551 - 36,938,172 (-)NCBICHM1_1
T2T-CHM13v2.0336,828,168 - 36,947,110 (-)NCBIT2T-CHM13v2.0
Trank1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm399111,140,351 - 111,224,843 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl9111,140,807 - 111,224,843 (+)EnsemblGRCm39 Ensembl
GRCm389111,311,283 - 111,395,775 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl9111,311,739 - 111,395,775 (+)EnsemblGRCm38mm10GRCm38
MGSCv379111,214,243 - 111,298,279 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv369111,219,636 - 111,240,591 (+)NCBIMGSCv36mm8
Celera9111,038,156 - 111,123,540 (+)NCBICelera
Cytogenetic Map9F3NCBI
cM Map960.95NCBI
Trank1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554213,707,510 - 3,853,868 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554213,707,510 - 3,852,886 (-)NCBIChiLan1.0ChiLan1.0
TRANK1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2236,788,485 - 36,907,530 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1336,793,249 - 36,912,330 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0336,732,939 - 36,852,023 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1337,023,455 - 37,141,982 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl337,024,909 - 37,102,299 (-)Ensemblpanpan1.1panPan2
TRANK1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1236,749,817 - 6,849,113 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl236,631,276 - 6,849,034 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha236,789,473 - 6,869,908 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0237,034,999 - 7,115,474 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl236,946,464 - 7,134,352 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1236,854,618 - 6,935,467 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0236,997,235 - 7,077,671 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0236,987,132 - 7,067,610 (-)NCBIUU_Cfam_GSD_1.0
Trank1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118193,265,171 - 193,365,150 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647326,403,681 - 26,482,721 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647326,403,786 - 26,481,284 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TRANK1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1321,938,966 - 22,023,156 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11321,913,400 - 22,023,165 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21323,906,064 - 23,912,672 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TRANK1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1152,464,289 - 2,583,314 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl152,502,023 - 2,581,141 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366606311,201,749 - 11,319,415 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Trank1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462478814,922,497 - 15,065,624 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462478814,926,685 - 15,035,745 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Trank1
219 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:109
Count of miRNA genes:92
Interacting mature miRNAs:100
Transcripts:ENSRNOT00000028633
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
631650Stl6Serum triglyceride level QTL 640.0019blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)810378157112202585Rat
1554321Bmd3Bone mineral density QTL 37.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)840952565123900184Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)846531639119088626Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)846531639119088626Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)846531639119088626Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)846531639119088626Rat
2303171Bp331Blood pressure QTL 3315.570.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)861290298119084929Rat
631210Bw3Body weight QTL35.9mesenteric fat pad mass (VT:0010427)mesenteric fat pad weight to body weight ratio (CMO:0000654)869349194112783834Rat
1300171Bp184Blood pressure QTL 1843.66arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)870513503118219066Rat
8694446Bw170Body weight QTL 17012.070.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)871888757116888757Rat
9590292Uminl3Urine mineral level QTL 33.620.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)871888757116888757Rat
8694200Abfw4Abdominal fat weight QTL 49.070.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)871888757116888757Rat
8694392Bw161Body weight QTL 1618.060.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)871888757116888757Rat
1549909Stresp11Stress response QTL 116.830.0019stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)873473045118473045Rat
2300181Bmd55Bone mineral density QTL 555.70.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)876468691121468691Rat
61437Cia6Collagen induced arthritis QTL 6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)882460758122812818Rat
2313400Anxrr25Anxiety related response QTL 25aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)889265192114019816Rat
738011Anxrr9Anxiety related response QTL 96.1exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)893535351123900184Rat
1358893Bp263Blood pressure QTL 2635.01arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)893965141123900184Rat
1358903Bp252Blood pressure QTL 25270.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)893965141123900184Rat
738014Anxrr15Anxiety related response QTL 153.60.005locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)895718998123900184Rat
2300182Bmd56Bone mineral density QTL 565.4femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)895718998123900184Rat
724539Cm19Cardiac mass QTL 192.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)8100149864120994388Rat

Markers in Region
RH144141  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.28111,284,724 - 111,284,860 (+)MAPPERmRatBN7.2
Rnor_6.08119,574,883 - 119,575,018NCBIRnor6.0
Rnor_5.08118,924,529 - 118,924,664UniSTSRnor5.0
RGSC_v3.48115,711,646 - 115,711,781UniSTSRGSC3.4
Celera8110,566,584 - 110,566,719UniSTS
RH 3.4 Map81191.6UniSTS
Cytogenetic Map8q32UniSTS


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 58 10 19
Low 21 20 12 3 12 6 6 16 18 22 10 6
Below cutoff 3 22 26 18 15 18 2 5 7 1 2

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000028633   ⟹   ENSRNOP00000028633
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl8111,276,354 - 111,355,092 (+)Ensembl
Rnor_6.0 Ensembl8119,566,509 - 119,644,249 (+)Ensembl
RefSeq Acc Id: NM_001191799   ⟹   NP_001178728
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88120,154,438 - 120,233,879 (+)NCBI
mRatBN7.28111,276,051 - 111,355,491 (+)NCBI
Rnor_6.08119,566,509 - 119,644,249 (+)NCBI
Rnor_5.08118,916,156 - 118,993,803 (+)NCBI
Celera8110,557,993 - 110,635,930 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039081614   ⟹   XP_038937542
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88120,154,599 - 120,233,879 (+)NCBI
mRatBN7.28111,276,219 - 111,355,491 (+)NCBI
RefSeq Acc Id: XM_039081615   ⟹   XP_038937543
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88120,154,599 - 120,233,879 (+)NCBI
mRatBN7.28111,276,219 - 111,355,491 (+)NCBI
RefSeq Acc Id: XM_039081616   ⟹   XP_038937544
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88120,154,599 - 120,233,879 (+)NCBI
mRatBN7.28111,276,219 - 111,355,491 (+)NCBI
RefSeq Acc Id: XM_039081617   ⟹   XP_038937545
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88120,154,599 - 120,233,879 (+)NCBI
mRatBN7.28111,276,219 - 111,355,491 (+)NCBI
RefSeq Acc Id: XM_039081618   ⟹   XP_038937546
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88120,153,381 - 120,233,879 (+)NCBI
mRatBN7.28111,275,973 - 111,355,491 (+)NCBI
RefSeq Acc Id: XR_005487854
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88120,154,597 - 120,222,884 (+)NCBI
mRatBN7.28111,276,219 - 111,344,608 (+)NCBI
RefSeq Acc Id: XR_005487855
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88120,154,597 - 120,222,884 (+)NCBI
mRatBN7.28111,276,219 - 111,344,496 (+)NCBI
Reference Protein Sequences
RefSeq Acc Id: NP_001178728   ⟸   NM_001191799
- UniProtKB: D3ZSG2 (UniProtKB/TrEMBL),   A6I3J3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000028633   ⟸   ENSRNOT00000028633
RefSeq Acc Id: XP_038937546   ⟸   XM_039081618
- Peptide Label: isoform X5
- UniProtKB: A6I3J3 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038937542   ⟸   XM_039081614
- Peptide Label: isoform X1
- UniProtKB: A6I3J3 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038937545   ⟸   XM_039081617
- Peptide Label: isoform X4
- UniProtKB: A6I3J3 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038937543   ⟸   XM_039081615
- Peptide Label: isoform X2
- UniProtKB: A6I3J3 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038937544   ⟸   XM_039081616
- Peptide Label: isoform X3
- UniProtKB: A6I3J3 (UniProtKB/TrEMBL)

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:1563130 AgrOrtholog
BioCyc Gene G2FUF-29021 BioCyc
Ensembl Genes ENSRNOG00000021091 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000028633 ENTREZGENE
  ENSRNOT00000028633.6 UniProtKB/TrEMBL
Gene3D-CATH 1.25.40.10 UniProtKB/TrEMBL
  1.25.40.20 UniProtKB/TrEMBL
  3.40.50.300 UniProtKB/TrEMBL
InterPro Ankyrin_rpt UniProtKB/TrEMBL
  Ankyrin_rpt-contain_sf UniProtKB/TrEMBL
  P-loop_NTPase UniProtKB/TrEMBL
  TPR-like_helical UniProtKB/TrEMBL
  TRANK1 UniProtKB/TrEMBL
KEGG Report rno:316022 UniProtKB/TrEMBL
NCBI Gene 316022 ENTREZGENE
PANTHER PTHR21529 UniProtKB/TrEMBL
  TPR AND ANKYRIN REPEAT-CONTAINING PROTEIN 1 UniProtKB/TrEMBL
PhenoGen Trank1 PhenoGen
PROSITE ANK_REPEAT UniProtKB/TrEMBL
RatGTEx ENSRNOG00000021091 RatGTEx
SMART ANK UniProtKB/TrEMBL
Superfamily-SCOP ANK UniProtKB/TrEMBL
  SSF48452 UniProtKB/TrEMBL
  SSF52540 UniProtKB/TrEMBL
UniProt A6I3J3 ENTREZGENE, UniProtKB/TrEMBL
  D3ZSG2 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2010-05-05 Trank1  tetratricopeptide repeat and ankyrin repeat containing 1  RGD1563130  similar to KIAA0342 protein  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1563130  similar to KIAA0342 protein   RGD1563130_predicted  similar to KIAA0342 protein (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1563130_predicted  similar to KIAA0342 protein (predicted)  LOC316022  similar to KIAA0342 protein  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC316022  similar to KIAA0342 protein      Symbol and Name status set to provisional 70820 PROVISIONAL