Txnl4a (thioredoxin like 4A) - Rat Genome Database

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Gene: Txnl4a (thioredoxin like 4A) Ictidomys tridecemlineatus
Analyze
Symbol: Txnl4a
Name: thioredoxin like 4A
RGD ID: 12518652
Description: INVOLVED IN mRNA processing (inferred); mRNA splicing, via spliceosome (inferred); RNA splicing (inferred); PARTICIPATES IN spliceosome pathway; ASSOCIATED WITH Burn-McKeown syndrome (ortholog); chromosome 18q deletion syndrome (ortholog); genetic disease (ortholog); FOUND IN cytoplasm (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: thioredoxin like 4A, transcript variant X1; thioredoxin-like protein 4A
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: SpeTri2.0 - Squirrel SpeTri2.0 Assembly
Position:
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494414,899,459 - 14,912,032 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936616220,274 - 234,870 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936616220,255 - 232,042 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Txnl4aSquirrelBurn-McKeown syndrome  ISOTXNL4A (Homo sapiens)8554872ClinVar more ...ClinVarPMID:1342861 more ...
Txnl4aSquirrelchromosome 18q deletion syndrome  ISOTXNL4A (Homo sapiens)8554872ClinVar Annotator: match by term: Monosomy 18q and deletion 18qClinVarPMID:25741868 and PMID:31690835
Txnl4aSquirrelgenetic disease  ISOTXNL4A (Homo sapiens)8554872ClinVar Annotator: match by term: Inborn genetic diseasesClinVarPMID:25741868
Txnl4aSquirrelintestinal volvulus  ISOTXNL4A (Homo sapiens)8554872ClinVar Annotator: match by term: INTESTINAL MALROTATION and FAMILIALClinVarPMID:25741868
Txnl4aSquirrelNeurodevelopmental Disorders  ISOTXNL4A (Homo sapiens)8554872ClinVar Annotator: match by term: Neurodevelopmental disorderClinVarPMID:25741868
Txnl4aSquirrelOculootofacial Dysplasia  ISOTXNL4A (Homo sapiens)8554872ClinVar more ...ClinVarPMID:1342861 more ...
Txnl4aSquirrelpulmonary valve stenosis  ISOTXNL4A (Homo sapiens)8554872ClinVar Annotator: match by term: Pulmonary valve stenosisClinVarPMID:25741868
Txnl4aSquirrelVolvulus Of Midgut  ISOTXNL4A (Homo sapiens)8554872ClinVar Annotator: match by term: Volvulus of midgutClinVarPMID:25741868
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Txnl4aSquirrelBurn-McKeown syndrome  ISOTXNL4A (Homo sapiens)7240710 OMIM 


Biological Process

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Txnl4aSquirrelmRNA processing involved_inIEAUniProtKB-KW:KW-0507150520179 UniProtGO_REF:0000043
Txnl4aSquirrelmRNA splicing, via spliceosome involved_inIEAUniProtKB:P83876 and ensembl:ENSP00000269601150520179 EnsemblGO_REF:0000107
Txnl4aSquirrelmRNA splicing, via spliceosome involved_inIEAInterPro:IPR004123150520179 InterProGO_REF:0000002
Txnl4aSquirrelRNA splicing involved_inIEAUniProtKB-KW:KW-0508150520179 UniProtGO_REF:0000043

Cellular Component
1 to 14 of 14 rows

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Txnl4aSquirrelcytoplasm located_inISOTXNL4A (Homo sapiens)9068941 PMID:18559850MGIPMID:18559850
Txnl4aSquirrelcytosol located_inIEAUniProtKB:P83876 and ensembl:ENSP00000269601150520179 EnsemblGO_REF:0000107
Txnl4aSquirrelnucleoplasm located_inIEAUniProtKB:P83876 and ensembl:ENSP00000269601150520179 EnsemblGO_REF:0000107
Txnl4aSquirrelnucleus located_inIEAUniProtKB-KW:KW-0539150520179 UniProtGO_REF:0000043
Txnl4aSquirrelnucleus located_inIEAUniProtKB-SubCell:SL-0191150520179 UniProtGO_REF:0000044
Txnl4aSquirrelnucleus located_inIEAUniProtKB:P83876 and ensembl:ENSP00000269601150520179 EnsemblGO_REF:0000107
Txnl4aSquirrelspliceosomal complex part_ofIEAPANTHER:PTN000248422150520179 TreeGrafterGO_REF:0000118
Txnl4aSquirrelU2-type precatalytic spliceosome part_ofIEAUniProtKB:P83876 and ensembl:ENSP00000269601150520179 EnsemblGO_REF:0000107
Txnl4aSquirrelU4/U6 x U5 tri-snRNP complex part_ofIEAPANTHER:PTN000248422150520179 TreeGrafterGO_REF:0000118
Txnl4aSquirrelU4/U6 x U5 tri-snRNP complex part_ofIEAInterPro:IPR004123150520179 InterProGO_REF:0000002
Txnl4aSquirrelU4/U6 x U5 tri-snRNP complex part_ofIEAUniRule:UR000977769150520179 UniProtGO_REF:0000104
Txnl4aSquirrelU4/U6 x U5 tri-snRNP complex part_ofIEAUniProtKB:P83876 and ensembl:ENSP00000269601150520179 EnsemblGO_REF:0000107
Txnl4aSquirrelU5 snRNP part_ofIEAPANTHER:PTN000248422150520179 TreeGrafterGO_REF:0000118
Txnl4aSquirrelU5 snRNP part_ofIEAUniRule:UR000977769150520179 UniProtGO_REF:0000104
1 to 14 of 14 rows

Molecular Function

  

RGD Manual Annotations


  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Txnl4aSquirrelspliceosome pathway   ISOTXNL4A (Homo sapiens)9068941 RGDPMID:19239890 and REF_RGD_ID:9686089
PMID:22301074   PMID:30032202  



Txnl4a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494414,899,459 - 14,912,032 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936616220,274 - 234,870 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936616220,255 - 232,042 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TXNL4A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381879,970,813 - 80,033,936 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1879,970,813 - 80,033,949 (-)EnsemblGRCh38hg38GRCh38
GRCh371877,730,813 - 77,793,936 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361875,833,855 - 75,849,520 (-)NCBINCBI36Build 36hg18NCBI36
Build 341875,833,855 - 75,849,520NCBI
Celera1874,505,339 - 74,521,004 (-)NCBICelera
Cytogenetic Map18q23NCBI
HuRef1874,354,321 - 74,369,986 (-)NCBIHuRef
CHM1_11877,728,173 - 77,743,835 (-)NCBICHM1_1
T2T-CHM13v2.01880,247,334 - 80,310,473 (-)NCBIT2T-CHM13v2.0
Txnl4a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391880,250,041 - 80,269,066 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1880,249,980 - 80,255,956 (+)EnsemblGRCm39 Ensembl
GRCm39 Ensembl1880,250,010 - 80,269,070 (+)EnsemblGRCm39 Ensembl
GRCm381880,206,826 - 80,225,851 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1880,206,795 - 80,225,855 (+)EnsemblGRCm38mm10GRCm38
GRCm38.p6 Ensembl1880,206,765 - 80,212,741 (+)EnsemblGRCm38mm10GRCm38
MGSCv371880,403,537 - 80,422,590 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361880,368,858 - 80,387,910 (+)NCBIMGSCv36mm8
Celera1881,326,193 - 81,346,625 (+)NCBICelera
Cytogenetic Map18E3NCBI
cM Map1853.34NCBI
Txnl4a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81875,934,085 - 75,949,873 (+)NCBIGRCr8
mRatBN7.21873,659,107 - 73,674,893 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1873,659,107 - 73,674,893 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1875,760,800 - 75,776,460 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01876,430,148 - 76,445,808 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01874,275,535 - 74,291,375 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01876,725,221 - 76,740,673 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1876,725,247 - 76,740,688 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01872,067,372 - 72,082,799 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera1872,321,825 - 72,336,942 (+)NCBICelera
Cytogenetic Map18q12.3NCBI
Txnl4a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540263,153,052 - 63,166,199 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540263,153,274 - 63,166,208 (+)NCBIChiLan1.0ChiLan1.0
TXNL4A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21797,606,821 - 97,670,745 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11883,302,072 - 83,363,366 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01873,618,302 - 73,679,603 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11876,937,460 - 76,952,428 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1876,937,460 - 76,952,428 (-)Ensemblpanpan1.1panPan2
TXNL4A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11722,223 - 735,253 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1722,293 - 735,258 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha11,724,232 - 1,737,274 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01520,112 - 533,019 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1520,550 - 533,021 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11573,166 - 586,068 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01518,510 - 531,414 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01689,716 - 702,621 (+)NCBIUU_Cfam_GSD_1.0
TXNL4A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl6127,974,543 - 127,991,177 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.16127,975,164 - 127,991,112 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21310,124,483 - 310,140,432 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TXNL4A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.118270,392 - 286,243 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl18270,938 - 285,966 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366606026,031,195 - 26,046,998 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Txnl4a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624806367,286 - 385,946 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624806367,668 - 385,946 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

.






Ensembl Acc Id: ENSSTOT00000023844   ⟹   ENSSTOP00000022461
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_004936616220,274 - 234,870 (+)Ensembl
RefSeq Acc Id: XM_005334364   ⟹   XP_005334421
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440494414,899,459 - 14,912,032 (+)NCBI
SpeTri2.0NW_004936616220,256 - 232,042 (+)NCBI
Sequence:
RefSeq Acc Id: XM_040271735   ⟹   XP_040127669
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440494414,899,483 - 14,912,032 (+)NCBI
RefSeq Acc Id: XM_040271742   ⟹   XP_040127676
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440494414,899,637 - 14,912,032 (+)NCBI
Protein RefSeqs XP_005334421 (Get FASTA)   NCBI Sequence Viewer  
  XP_040127669 (Get FASTA)   NCBI Sequence Viewer  
  XP_040127676 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSSTOP00000022461.1
GenBank Protein KAG3293671 (Get FASTA)   NCBI Sequence Viewer  
  KAG3293672 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: XP_005334421   ⟸   XM_005334364
- Peptide Label: isoform X1
- UniProtKB: I3NDL4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_040127669   ⟸   XM_040271735
- Peptide Label: isoform X2
RefSeq Acc Id: XP_040127676   ⟸   XM_040271742
- Peptide Label: isoform X2
Ensembl Acc Id: ENSSTOP00000022461   ⟸   ENSSTOT00000023844



1 to 13 of 13 rows
Database
Acc Id
Source(s)
Ensembl Genes ENSSTOG00000022277 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000023844.2 UniProtKB/TrEMBL
Gene3D-CATH Glutaredoxin UniProtKB/TrEMBL
InterPro Dim1 UniProtKB/TrEMBL
  Thioredoxin-like_sf UniProtKB/TrEMBL
NCBI Gene Txnl4a ENTREZGENE
PANTHER PTHR12052 UniProtKB/TrEMBL
  THIOREDOXIN-LIKE PROTEIN 4A UniProtKB/TrEMBL
Pfam DIM1 UniProtKB/TrEMBL
PIRSF mRNA_splic_U5 UniProtKB/TrEMBL
SMART DIM1 UniProtKB/TrEMBL
Superfamily-SCOP SSF52833 UniProtKB/TrEMBL
UniProt I3NDL4 ENTREZGENE, UniProtKB/TrEMBL
1 to 13 of 13 rows