Human Gene TXNL4B (uc002fca.3) Description and Page Index
  Description: Homo sapiens thioredoxin-like 4B (TXNL4B), transcript variant 1, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr16:72,118,756-72,127,539 Size: 8,784 Total Exon Count: 4 Strand: -
Coding Region
   Position: hg19 chr16:72,120,536-72,124,648 Size: 4,113 Coding Exon Count: 3 

Page IndexSequence and LinksUniProtKB CommentsCTDGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
Other NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr16:72,118,756-72,127,539)mRNA (may differ from genome)Protein (149 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
neXtProtOMIMPubMedStanford SOURCETreefamUniProtKB
Wikipedia

-  Comments and Description Text from UniProtKB
  ID: TXN4B_HUMAN
DESCRIPTION: RecName: Full=Thioredoxin-like protein 4B; AltName: Full=Dim1-like protein;
FUNCTION: Essential role in pre-mRNA splicing. Required in cell cycle progression for S/G(2) transition.
SUBUNIT: Homodimer. Interacts with the U5-102 kDa protein subunit of the spliceosome.
SUBCELLULAR LOCATION: Nucleus.
SIMILARITY: Belongs to the DIM1 family.

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 11.64 RPKM in Testis
Total median expression: 259.78 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -120.50311-0.387 Picture PostScript Text
3' UTR -595.121780-0.334 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR004123 - mRNA_splic_U5
IPR012336 - Thioredoxin-like_fold

Pfam Domains:
PF00085 - Thioredoxin
PF02966 - Mitosis protein DIM1

SCOP Domains:
52833 - Thioredoxin-like

Protein Data Bank (PDB) 3-D Structure
MuPIT help

1XBS
- X-ray MuPIT

3GIX
- X-ray MuPIT


ModBase Predicted Comparative 3D Structure on Q9NX01
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
 Protein Sequence    
 Alignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding

Biological Process:
GO:0000245 spliceosomal complex assembly
GO:0000398 mRNA splicing, via spliceosome
GO:0006397 mRNA processing
GO:0007049 cell cycle
GO:0008380 RNA splicing

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005681 spliceosomal complex
GO:0005682 U5 snRNP
GO:0005829 cytosol
GO:0046540 U4/U6 x U5 tri-snRNP complex


-  Descriptions from all associated GenBank mRNAs
  AK308891 - Homo sapiens cDNA, FLJ98932.
LF208307 - JP 2014500723-A/15810: Polycomb-Associated Non-Coding RNAs.
BC009646 - Homo sapiens thioredoxin-like 4B, mRNA (cDNA clone MGC:4959 IMAGE:3458545), complete cds.
AK000518 - Homo sapiens cDNA FLJ20511 fis, clone KAT09708.
JD134843 - Sequence 115867 from Patent EP1572962.
JD114425 - Sequence 95449 from Patent EP1572962.
JD152867 - Sequence 133891 from Patent EP1572962.
JD065623 - Sequence 46647 from Patent EP1572962.
JD324826 - Sequence 305850 from Patent EP1572962.
JD366806 - Sequence 347830 from Patent EP1572962.
JD147982 - Sequence 129006 from Patent EP1572962.
JD543084 - Sequence 524108 from Patent EP1572962.
JD185707 - Sequence 166731 from Patent EP1572962.
JD067923 - Sequence 48947 from Patent EP1572962.
JD137036 - Sequence 118060 from Patent EP1572962.
JD420258 - Sequence 401282 from Patent EP1572962.
JD065325 - Sequence 46349 from Patent EP1572962.
JD229512 - Sequence 210536 from Patent EP1572962.
JD225694 - Sequence 206718 from Patent EP1572962.
JD356897 - Sequence 337921 from Patent EP1572962.
JD296528 - Sequence 277552 from Patent EP1572962.
JD273978 - Sequence 255002 from Patent EP1572962.
JD147446 - Sequence 128470 from Patent EP1572962.
JD261352 - Sequence 242376 from Patent EP1572962.
JD554558 - Sequence 535582 from Patent EP1572962.
JD551814 - Sequence 532838 from Patent EP1572962.
JD429424 - Sequence 410448 from Patent EP1572962.
JD334454 - Sequence 315478 from Patent EP1572962.
JD418036 - Sequence 399060 from Patent EP1572962.
JD397449 - Sequence 378473 from Patent EP1572962.
JD105104 - Sequence 86128 from Patent EP1572962.
JD414351 - Sequence 395375 from Patent EP1572962.
JD229034 - Sequence 210058 from Patent EP1572962.
JD143869 - Sequence 124893 from Patent EP1572962.
JD267682 - Sequence 248706 from Patent EP1572962.
AK222889 - Homo sapiens mRNA for thioredoxin-like 4B variant, clone: HEP20817.
JD256012 - Sequence 237036 from Patent EP1572962.
JD315169 - Sequence 296193 from Patent EP1572962.
JD239846 - Sequence 220870 from Patent EP1572962.
JD435661 - Sequence 416685 from Patent EP1572962.
JD288353 - Sequence 269377 from Patent EP1572962.
JD123199 - Sequence 104223 from Patent EP1572962.
JD325039 - Sequence 306063 from Patent EP1572962.
JD290924 - Sequence 271948 from Patent EP1572962.
JD518254 - Sequence 499278 from Patent EP1572962.
JD050583 - Sequence 31607 from Patent EP1572962.
JD239308 - Sequence 220332 from Patent EP1572962.
JD096027 - Sequence 77051 from Patent EP1572962.
AY566808 - Homo sapiens Dim1-like protein (DLP) mRNA, complete cds.
CR457240 - Homo sapiens full open reading frame cDNA clone RZPDo834A079D for gene FLJ20511, hypothetical protein FLJ20511; complete cds, incl. stopcodon.
HQ448300 - Synthetic construct Homo sapiens clone IMAGE:100071715; CCSB002425_03 thioredoxin-like 4B (TXNL4B) gene, encodes complete protein.
KJ894103 - Synthetic construct Homo sapiens clone ccsbBroadEn_03497 TXNL4B gene, encodes complete protein.
AB464297 - Synthetic construct DNA, clone: pF1KB8190, Homo sapiens TXNL4B gene for thioredoxin-like 4B, without stop codon, in Flexi system.
CU679425 - Synthetic construct Homo sapiens gateway clone IMAGE:100020113 5' read TXNL4B mRNA.
JD334276 - Sequence 315300 from Patent EP1572962.
JD201809 - Sequence 182833 from Patent EP1572962.
MA443884 - JP 2018138019-A/15810: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: D3DWS6, DIM2, DLP, NM_017853, NP_060323, Q9NX01, TXN4B_HUMAN
UCSC ID: uc002fca.3
RefSeq Accession: NM_017853
Protein: Q9NX01 (aka TXN4B_HUMAN or TX4B_HUMAN)
CCDS: CCDS10906.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_017853.2
exon count: 4CDS single in 3' UTR: no RNA size: 2563
ORF size: 450CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1076.00frame shift in genome: no % Coverage: 99.14
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.