Tsnax (translin-associated factor X) - Rat Genome Database

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Gene: Tsnax (translin-associated factor X) Rattus norvegicus
Analyze
Symbol: Tsnax
Name: translin-associated factor X
RGD ID: 621574
Description: Enables A2A adenosine receptor binding activity. 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 Golgi apparatus and nucleoplasm. Predicted to be part of endoribonuclease complex. Predicted to be active in cytoplasm and nucleus. Orthologous to human TSNAX (translin associated factor X); INTERACTS WITH androgen antagonist; bisphenol A; Butylparaben.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: MGC93125; translin-associated protein X; Trax
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
mRatBN7.21952,975,848 - 52,989,886 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1952,975,659 - 52,989,878 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1959,760,714 - 59,774,744 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01960,611,752 - 60,625,774 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01962,687,176 - 62,701,202 (+)NCBIRnor_WKY
Rnor_6.01957,771,539 - 57,785,567 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1957,771,398 - 57,785,543 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01968,481,972 - 68,496,000 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera1952,341,840 - 52,355,838 (+)NCBICelera
Cytogenetic Map19q12NCBI
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. 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. GOA pipeline RGD automated data pipeline
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
6. 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.
7. Rescue of p53 blockage by the A(2A) adenosine receptor via a novel interacting protein, translin-associated protein X. Sun CN, etal., Mol Pharmacol. 2006 Aug;70(2):454-66. Epub 2006 Apr 14.
8. 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:12036294   PMID:15489334   PMID:21124736   PMID:22681889   PMID:27624933  


Genomics

Comparative Map Data
Tsnax
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21952,975,848 - 52,989,886 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1952,975,659 - 52,989,878 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1959,760,714 - 59,774,744 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01960,611,752 - 60,625,774 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01962,687,176 - 62,701,202 (+)NCBIRnor_WKY
Rnor_6.01957,771,539 - 57,785,567 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1957,771,398 - 57,785,543 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01968,481,972 - 68,496,000 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera1952,341,840 - 52,355,838 (+)NCBICelera
Cytogenetic Map19q12NCBI
TSNAX
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381231,528,669 - 231,566,524 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1231,528,541 - 231,566,524 (+)EnsemblGRCh38hg38GRCh38
GRCh371231,664,415 - 231,702,270 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361229,731,022 - 229,768,893 (+)NCBINCBI36Build 36hg18NCBI36
Build 341227,971,133 - 228,009,002NCBI
Celera1204,929,252 - 204,967,140 (+)NCBICelera
Cytogenetic Map1q42.2NCBI
HuRef1202,147,602 - 202,185,556 (+)NCBIHuRef
CHM1_11232,938,278 - 232,976,134 (+)NCBICHM1_1
T2T-CHM13v2.01230,911,903 - 230,949,724 (+)NCBIT2T-CHM13v2.0
Tsnax
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm398125,739,780 - 125,760,947 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl8125,739,736 - 125,760,931 (+)EnsemblGRCm39 Ensembl
GRCm388125,013,041 - 125,034,208 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl8125,012,997 - 125,034,192 (+)EnsemblGRCm38mm10GRCm38
MGSCv378127,536,897 - 127,558,092 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv368127,899,087 - 127,920,282 (+)NCBIMGSCv36mm8
Celera8129,326,694 - 129,341,575 (+)NCBICelera
Cytogenetic Map8E2NCBI
cM Map873.1NCBI
Tsnax
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554927,306,364 - 7,335,282 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554927,304,982 - 7,335,512 (-)NCBIChiLan1.0ChiLan1.0
TSNAX
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1117,830,925 - 17,869,486 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01207,082,890 - 207,120,706 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11212,104,927 - 212,142,691 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1212,104,927 - 212,142,691 (+)Ensemblpanpan1.1panPan2
TSNAX
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.147,937,622 - 7,968,014 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl47,937,820 - 7,967,889 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha47,929,606 - 7,960,377 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.047,961,738 - 7,992,266 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl47,959,001 - 7,992,287 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.147,966,680 - 7,997,444 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.048,086,896 - 8,117,465 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.048,314,660 - 8,345,183 (-)NCBIUU_Cfam_GSD_1.0
Tsnax
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934443,115,393 - 43,135,689 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493648419,280,470 - 19,300,944 (-)EnsemblSpeTri2.0
SpeTri2.0NW_00493648419,281,493 - 19,300,915 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TSNAX
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1459,024,034 - 59,058,308 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11459,027,295 - 59,058,300 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21463,573,296 - 63,604,624 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TSNAX
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12568,787,717 - 68,826,751 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2568,787,705 - 68,827,464 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605570,698,475 - 70,737,601 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Tsnax
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462477518,227,072 - 18,263,894 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462477518,224,737 - 18,264,462 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Tsnax
53 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:1021
Count of miRNA genes:339
Interacting mature miRNAs:458
Transcripts:ENSRNOT00000071827
Prediction methods:Microtar, Miranda
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
724566Uae12Urinary albumin excretion QTL 125urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19218792756457239Rat
1331737Uae29Urinary albumin excretion QTL 295.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19409615555283277Rat
7411549Bw130Body weight QTL 13050.001body mass (VT:0001259)body weight gain (CMO:0000420)191545586057337602Rat
1578764Stresp19Stress response QTL 193.60.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)191563020157337602Rat
2298478Eau8Experimental allergic uveoretinitis QTL 80.0163uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)191715443357337602Rat
61350Bp32Blood pressure QTL 320.012arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)192048357557337602Rat
724546Kidm3Kidney mass QTL 33.1kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)192932249057337602Rat
1358200Insglur2Insulin/glucose ratio QTL 24.1blood glucose amount (VT:0000188)serum insulin level (CMO:0000358)193383821455283146Rat
1358200Insglur2Insulin/glucose ratio QTL 24.1blood glucose amount (VT:0000188)serum glucose level (CMO:0000543)193383821455283146Rat
5135224Leukc1Leukocyte quantity QTL 1eosinophil quantity (VT:0002602)blood eosinophil count (CMO:0000033)194434021455283277Rat
2313395Anxrr26Anxiety related response QTL 26aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)194997648153225766Rat

Markers in Region
BE111581  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21952,986,150 - 52,986,319 (+)MAPPERmRatBN7.2
Rnor_6.01957,781,832 - 57,782,000NCBIRnor6.0
Rnor_5.01968,492,265 - 68,492,433UniSTSRnor5.0
Celera1952,352,103 - 52,352,271UniSTS
RH 3.4 Map19720.7UniSTS


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 43 57 41 19 41 8 11 74 35 40 11 8
Low 1
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000071827   ⟹   ENSRNOP00000063911
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1952,975,659 - 52,989,878 (+)Ensembl
Rnor_6.0 Ensembl1957,771,398 - 57,785,543 (+)Ensembl
RefSeq Acc Id: NM_022262   ⟹   NP_071598
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21952,975,848 - 52,989,886 (+)NCBI
Rnor_6.01957,771,539 - 57,785,567 (+)NCBI
Rnor_5.01968,481,972 - 68,496,000 (+)NCBI
Celera1952,341,840 - 52,355,838 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_071598 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAF76149 (Get FASTA)   NCBI Sequence Viewer  
  AAH81715 (Get FASTA)   NCBI Sequence Viewer  
  EDL96750 (Get FASTA)   NCBI Sequence Viewer  
  EDL96751 (Get FASTA)   NCBI Sequence Viewer  
  Q9JHB5 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_071598   ⟸   NM_022262
- UniProtKB: Q9JHB5 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000063911   ⟸   ENSRNOT00000071827

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9JHB5-F1-model_v2 AlphaFold Q9JHB5 1-290 view protein structure

Transcriptome

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

Promoters
RGD ID:13701247
Promoter ID:EPDNEW_R11770
Type:initiation region
Name:Tsnax_1
Description:translin-associated factor X
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_6.01957,771,471 - 57,771,531EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:621574 AgrOrtholog
BioCyc Gene G2FUF-5220 BioCyc
Ensembl Genes ENSRNOG00000049784 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000063911 ENTREZGENE
  ENSRNOP00000063911.1 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000071827 ENTREZGENE
  ENSRNOT00000071827.3 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7130295 IMAGE-MGC_LOAD
InterPro Translin_C UniProtKB/Swiss-Prot
  Translin_fam UniProtKB/Swiss-Prot
  Translin_N UniProtKB/Swiss-Prot
  Translin_sf UniProtKB/Swiss-Prot
KEGG Report rno:64028 UniProtKB/Swiss-Prot
MGC_CLONE MGC:93125 IMAGE-MGC_LOAD
NCBI Gene 64028 ENTREZGENE
PANTHER PTHR10741 UniProtKB/Swiss-Prot
  TRANSLIN-ASSOCIATED PROTEIN X UniProtKB/Swiss-Prot
Pfam Translin UniProtKB/Swiss-Prot
PhenoGen Tsnax PhenoGen
Superfamily-SCOP SSF74784 UniProtKB/Swiss-Prot
UniProt Q9JHB5 ENTREZGENE, UniProtKB/Swiss-Prot


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

RGD Curation Notes
Note Type Note Reference
gene_domains contains a leucine zipper motif 634412