Tsn (translin) - Rat Genome Database

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Gene: Tsn (translin) Rattus norvegicus
Analyze
Symbol: Tsn
Name: translin
RGD ID: 621107
Description: Contributes to sequence-specific DNA binding activity and single-stranded DNA binding activity. Predicted to be involved in siRNA processing. Predicted to be located in endoplasmic reticulum; male germ cell nucleus; and nucleoplasm. Predicted to be part of endoribonuclease complex. Predicted to be active in cytoplasm and nucleus. Orthologous to human TSN (translin); INTERACTS WITH 17beta-estradiol; 2,2',4,4'-Tetrabromodiphenyl ether; aconitine.
Type: protein-coding
RefSeq Status: PROVISIONAL
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
GRCr81331,917,133 - 31,930,069 (-)NCBIGRCr8
mRatBN7.21329,366,405 - 29,377,251 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1329,364,110 - 29,377,599 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1331,951,255 - 31,962,084 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01333,239,091 - 33,249,920 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01330,510,736 - 30,521,534 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01334,240,809 - 34,251,671 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1334,238,717 - 34,253,910 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01339,371,406 - 39,381,944 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41330,917,400 - 30,928,092 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11330,920,228 - 30,930,916 (-)NCBI
Celera1329,271,908 - 29,282,731 (-)NCBICelera
Cytogenetic Map13q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
3. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
5. CD8 chemokine receptors in chronic obstructive pulmonary disease. Smyth LJ, etal., Clin Exp Immunol. 2008 Oct;154(1):56-63. Epub 2008 Aug 22.
6. Identification of translin and trax as components of the GS1 strand-specific DNA binding complex enriched in brain. Taira E, etal., J Neurochem 1998 Aug;71(2):471-7.
Additional References at PubMed
PMID:11278549   PMID:15987823   PMID:19805324   PMID:21988832  


Genomics

Comparative Map Data
Tsn
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81331,917,133 - 31,930,069 (-)NCBIGRCr8
mRatBN7.21329,366,405 - 29,377,251 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1329,364,110 - 29,377,599 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1331,951,255 - 31,962,084 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01333,239,091 - 33,249,920 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01330,510,736 - 30,521,534 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01334,240,809 - 34,251,671 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1334,238,717 - 34,253,910 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01339,371,406 - 39,381,944 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41330,917,400 - 30,928,092 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11330,920,228 - 30,930,916 (-)NCBI
Celera1329,271,908 - 29,282,731 (-)NCBICelera
Cytogenetic Map13q11NCBI
TSN
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382121,755,651 - 121,767,853 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2121,737,103 - 121,767,853 (+)EnsemblGRCh38hg38GRCh38
GRCh372122,513,227 - 122,525,429 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362122,229,591 - 122,241,899 (+)NCBINCBI36Build 36hg18NCBI36
Build 342122,229,350 - 122,241,659NCBI
Celera2115,837,760 - 115,850,068 (+)NCBICelera
Cytogenetic Map2q14.3NCBI
HuRef2114,835,968 - 114,848,276 (+)NCBIHuRef
CHM1_12122,516,662 - 122,528,969 (+)NCBICHM1_1
T2T-CHM13v2.02122,190,928 - 122,203,130 (+)NCBIT2T-CHM13v2.0
Tsn
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391118,226,244 - 118,239,463 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1118,222,508 - 118,239,469 (-)EnsemblGRCm39 Ensembl
GRCm381118,298,514 - 118,311,461 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1118,294,778 - 118,311,739 (-)EnsemblGRCm38mm10GRCm38
MGSCv371120,195,094 - 120,207,709 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361120,126,063 - 120,138,678 (-)NCBIMGSCv36mm8
Celera1120,959,072 - 120,971,650 (-)NCBICelera
Cytogenetic Map1E2.3NCBI
cM Map152.14NCBI
Tsn
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554598,285,442 - 8,299,397 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554598,285,442 - 8,299,329 (-)NCBIChiLan1.0ChiLan1.0
TSN
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21353,871,734 - 53,883,667 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12B53,886,154 - 53,898,647 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02B38,493,248 - 38,524,502 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12B122,440,668 - 122,453,519 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2B122,440,668 - 122,453,519 (+)Ensemblpanpan1.1panPan2
TSN
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11928,467,513 - 28,476,444 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1928,469,463 - 28,476,313 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1928,726,460 - 28,735,356 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01929,833,423 - 29,842,363 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1929,833,423 - 29,842,445 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11928,530,686 - 28,539,613 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01928,701,113 - 28,710,037 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01929,881,494 - 29,890,429 (-)NCBIUU_Cfam_GSD_1.0
Tsn
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440530392,633,629 - 92,644,278 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493646948,974,834 - 48,984,079 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493646948,974,836 - 48,984,097 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TSN
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1529,675,820 - 29,714,079 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11529,704,499 - 29,714,096 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21534,655,322 - 34,661,300 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TSN
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1108,532,033 - 8,541,768 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl108,528,750 - 8,541,744 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366606114,161,327 - 14,173,328 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Tsn
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473223,436,949 - 23,447,453 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473223,436,957 - 23,447,402 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Tsn
38 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:378
Count of miRNA genes:149
Interacting mature miRNAs:164
Transcripts:ENSRNOT00000044095, ENSRNOT00000068524
Prediction methods:Microtar, Miranda, Rnahybrid
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
2317027Aia22Adjuvant induced arthritis QTL 222.29joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)13134266636Rat
2302275Gluco37Glucose level QTL 373.8blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)131192944946193066Rat
7207885Glom27Glomerulus QTL 273.9kidney glomerulus integrity trait (VT:0010546)kidney crescentic glomeruli count to kidney normal glomeruli count ratio (CMO:0002139)1320605871101339738Rat
1558644Cm45Cardiac mass QTL 453.60.002heart mass (VT:0007028)heart wet weight (CMO:0000069)132369296968692969Rat
9589141Insul28Insulin level QTL 2810.820.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)13931346554313465Rat
2317034Aia9Adjuvant induced arthritis QTL 94.62joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)131176653532331607Rat
1581554Pur11Proteinuria QTL 11urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)13599483377046787Rat
61391Bp5Blood pressure QTL 55.6arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)132230187567301875Rat
1300163Cardf1Cardiac cell morphology QTL 14.18aorta morphology trait (VT:0000272)artery lesion measurement (CMO:0000975)131192944945417941Rat
631672Iddm12Insulin dependent diabetes mellitus QTL 122.20.0032blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)13599466834535351Rat
2317040Aia21Adjuvant induced arthritis QTL 212.75joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)13983154154831541Rat
6893338Cm76Cardiac mass QTL 7600.99heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)132369296968692969Rat
631645Bp121Blood pressure QTL 1213.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131491565559915655Rat
2317046Aia8Adjuvant induced arthritis QTL 83.9700000286102295joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)13983154154831541Rat
2317044Aia23Adjuvant induced arthritis QTL 232.3joint integrity trait (VT:0010548)ankle joint diameter (CMO:0002148)131176653532331607Rat
1581570Eae17Experimental allergic encephalomyelitis QTL 174.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)138897350101631289Rat
61339Bp24Blood pressure QTL 240.05arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)13599466844807491Rat
70170Eae14Experimental allergic encephalomyelitis QTL 140.0024nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)132320344868203448Rat
1331784Bp222Blood pressure QTL 2222.944arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)131769443653050594Rat
1581573Uae36Urinary albumin excretion QTL 36urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)13599483377046787Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131101056920Rat
9589164Gluco66Glucose level QTL 666.670.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)131515872260158722Rat
738036Lnnr4Liver neoplastic nodule remodeling QTL 43.64liver integrity trait (VT:0010547)liver remodeling tumorous lesion number (CMO:0001461)13142356786Rat
7411662Foco29Food consumption QTL 2920.80.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)13931346554313465Rat


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
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31

Sequence


Ensembl Acc Id: ENSRNOT00000044095   ⟹   ENSRNOP00000042839
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1329,366,571 - 29,377,599 (-)Ensembl
Rnor_6.0 Ensembl1334,240,977 - 34,251,942 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000068524   ⟹   ENSRNOP00000063499
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1329,364,110 - 29,377,275 (-)Ensembl
Rnor_6.0 Ensembl1334,238,717 - 34,251,650 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000092847   ⟹   ENSRNOP00000075985
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1329,366,571 - 29,377,515 (-)Ensembl
Rnor_6.0 Ensembl1334,240,975 - 34,253,910 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000097415   ⟹   ENSRNOP00000092856
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1329,364,324 - 29,377,286 (-)Ensembl
RefSeq Acc Id: NM_021762   ⟹   NP_068530
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81331,919,225 - 31,930,069 (-)NCBI
mRatBN7.21329,366,405 - 29,377,251 (-)NCBI
Rnor_6.01334,240,809 - 34,251,650 (-)NCBI
Rnor_5.01339,371,406 - 39,381,944 (-)NCBI
RGSC_v3.41330,917,400 - 30,928,092 (-)RGD
Celera1329,271,908 - 29,282,731 (-)RGD
Sequence:
RefSeq Acc Id: XM_063272569   ⟹   XP_063128639
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81331,919,490 - 31,930,032 (-)NCBI
RefSeq Acc Id: XM_063272570   ⟹   XP_063128640
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81331,917,133 - 31,930,032 (-)NCBI
RefSeq Acc Id: NP_068530   ⟸   NM_021762
- UniProtKB: Q71SY3 (UniProtKB/TrEMBL),   F7EM24 (UniProtKB/TrEMBL),   A0A8I6AEH3 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000075985   ⟸   ENSRNOT00000092847
Ensembl Acc Id: ENSRNOP00000063499   ⟸   ENSRNOT00000068524
Ensembl Acc Id: ENSRNOP00000042839   ⟸   ENSRNOT00000044095
Ensembl Acc Id: ENSRNOP00000092856   ⟸   ENSRNOT00000097415
RefSeq Acc Id: XP_063128640   ⟸   XM_063272570
- Peptide Label: isoform X2
RefSeq Acc Id: XP_063128639   ⟸   XM_063272569
- Peptide Label: isoform X1

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A1B0GWQ7-F1-model_v2 AlphaFold A0A1B0GWQ7 1-282 view protein structure

Transcriptome

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

Promoters
RGD ID:13698758
Promoter ID:EPDNEW_R9282
Type:initiation region
Name:Tsn_1
Description:translin
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_6.01334,251,645 - 34,251,705EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:621107 AgrOrtholog
BioCyc Gene G2FUF-18542 BioCyc
Ensembl Genes ENSRNOG00000002319 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000044095.7 UniProtKB/TrEMBL
  ENSRNOT00000068524.5 UniProtKB/TrEMBL
  ENSRNOT00000092847.2 UniProtKB/TrEMBL
  ENSRNOT00000097415.1 UniProtKB/TrEMBL
InterPro Translin UniProtKB/TrEMBL
  Translin UniProtKB/TrEMBL
  Translin_C UniProtKB/TrEMBL
  Translin_N UniProtKB/TrEMBL
  Translin_sf UniProtKB/TrEMBL
KEGG Report rno:60381 UniProtKB/TrEMBL
NCBI Gene 60381 ENTREZGENE
PANTHER PTHR10741:SF2 UniProtKB/TrEMBL
  Translin UniProtKB/TrEMBL
Pfam Translin UniProtKB/TrEMBL
PhenoGen Tsn PhenoGen
RatGTEx ENSRNOG00000002319 RatGTEx
Superfamily-SCOP Translin UniProtKB/TrEMBL
UniProt A0A1B0GWQ7_RAT UniProtKB/TrEMBL
  A0A8I6AEH3 ENTREZGENE, UniProtKB/TrEMBL
  A0A8J8YNL9_RAT UniProtKB/TrEMBL
  E9PT79_RAT UniProtKB/TrEMBL
  F7EM24 ENTREZGENE
  Q71SY3 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary F7EM24 UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-09-10 Tsn  translin      Symbol and Name status set to approved 1299863 APPROVED
2002-08-07 Tsn  translin      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_process involved in binding to specific mRNAs and blocking their translation 634412