Human Gene IWS1 (uc002ton.2)
  Description: Homo sapiens IWS1 homolog (S. cerevisiae) (IWS1), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr2:128,238,383-128,284,087 Size: 45,705 Total Exon Count: 14 Strand: -
Coding Region
   Position: hg19 chr2:128,238,620-128,283,784 Size: 45,165 Coding Exon Count: 14 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr2:128,238,383-128,284,087)mRNA (may differ from genome)Protein (819 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
neXtProtPubMedReactomeTreefamUniProtKBWikipedia
BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: IWS1_HUMAN
DESCRIPTION: RecName: Full=Protein IWS1 homolog; AltName: Full=IWS1-like protein;
SUBCELLULAR LOCATION: Nucleus (By similarity).
SIMILARITY: Belongs to the IWS1 family.
SIMILARITY: Contains 1 TFIIS N-terminal domain.
SEQUENCE CAUTION: Sequence=AAH65279.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Potential poly-A sequence; Sequence=BAA91858.1; Type=Erroneous initiation;

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  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: 23.60 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 695.98 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 -127.52303-0.421 Picture PostScript Text
3' UTR -43.70237-0.184 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
IPR017923 - TFIIS_N

Pfam Domains:
PF08711 - TFIIS helical bundle-like domain

ModBase Predicted Comparative 3D Structure on Q96ST2
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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 BrowserGenome BrowserGenome BrowserGenome BrowserGenome Browser
Gene DetailsGene Details Gene DetailsGene DetailsGene Details
Gene SorterGene Sorter Gene SorterGene SorterGene Sorter
 RGDEnsemblFlyBaseWormBaseSGD
 Protein SequenceProtein SequenceProtein SequenceProtein SequenceProtein Sequence
 AlignmentAlignmentAlignmentAlignmentAlignment

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

Biological Process:
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0006366 transcription from RNA polymerase II promoter
GO:0006368 transcription elongation from RNA polymerase II promoter
GO:0006397 mRNA processing
GO:0008380 RNA splicing
GO:0010793 regulation of mRNA export from nucleus
GO:0032784 regulation of DNA-templated transcription, elongation
GO:0050684 regulation of mRNA processing
GO:0051028 mRNA transport
GO:0090239 regulation of histone H4 acetylation
GO:2001253 regulation of histone H3-K36 trimethylation

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm


-  Descriptions from all associated GenBank mRNAs
  BC017012 - Homo sapiens IWS1 homolog (S. cerevisiae), mRNA (cDNA clone IMAGE:3914688), complete cds.
AK001717 - Homo sapiens cDNA FLJ10855 fis, clone NT2RP4001524.
AL834178 - Homo sapiens mRNA; cDNA DKFZp761G0123 (from clone DKFZp761G0123).
AK296848 - Homo sapiens cDNA FLJ54017 complete cds, highly similar to IWS1 homolog.
AK027561 - Homo sapiens cDNA FLJ14655 fis, clone NT2RP2002292.
JD506516 - Sequence 487540 from Patent EP1572962.
AK056881 - Homo sapiens cDNA FLJ32319 fis, clone PROST2003472.
JD248848 - Sequence 229872 from Patent EP1572962.
BC110536 - Homo sapiens IWS1 homolog (S. cerevisiae), mRNA (cDNA clone MGC:126375 IMAGE:40035173), complete cds.
BC110537 - Homo sapiens IWS1 homolog (S. cerevisiae), mRNA (cDNA clone MGC:126376 IMAGE:40035174), complete cds.
JD431710 - Sequence 412734 from Patent EP1572962.
AK294669 - Homo sapiens cDNA FLJ53983 complete cds, highly similar to IWS1 homolog.
AK000868 - Homo sapiens cDNA FLJ10006 fis, clone HEMBA1000168, weakly similar to CYLICIN I.
AK295970 - Homo sapiens cDNA FLJ59547 complete cds, highly similar to IWS1 homolog.
KJ902855 - Synthetic construct Homo sapiens clone ccsbBroadEn_12249 IWS1 gene, encodes complete protein.
BC065279 - Homo sapiens IWS1 homolog (S. cerevisiae), mRNA (cDNA clone IMAGE:6172830), partial cds.
AK309006 - Homo sapiens cDNA, FLJ99047.
JD398198 - Sequence 379222 from Patent EP1572962.
JD373941 - Sequence 354965 from Patent EP1572962.
JD404958 - Sequence 385982 from Patent EP1572962.
JD522885 - Sequence 503909 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  BioCyc Knowledge Library
FAO-PWY - fatty acid β-oxidation I

Reactome (by CSHL, EBI, and GO)

Protein Q96ST2 (Reactome details) participates in the following event(s):

R-HSA-112379 Recruitment of elongation factors to form elongation complex
R-HSA-113429 Elongating transcript encounters a lesion in the template
R-HSA-112385 Addition of nucleotides leads to transcript elongation
R-HSA-113411 2-4 nt.backtracking of Pol II complex on the template leading to elongation pausing
R-HSA-113412 Pol II elongation complex moves on the template as transcript elongates
R-HSA-113414 7-14 nt. Backtracking of Pol II complex on the template leading to elongation arrest
R-HSA-112392 Resumption of elongation after recovery from pausing
R-HSA-113413 TFIIS-mediated recovery of elongation from arrest
R-HSA-112395 Abortive termination of elongation after arrest
R-HSA-112396 Separation of elongating transcript from template
R-HSA-112382 Formation of RNA Pol II elongation complex
R-HSA-674695 RNA Polymerase II Pre-transcription Events
R-HSA-75955 RNA Polymerase II Transcription Elongation
R-HSA-73857 RNA Polymerase II Transcription
R-HSA-74160 Gene expression (Transcription)

-  Other Names for This Gene
  Alternate Gene Symbols: IWS1L, IWS1_HUMAN, NM_017969, NP_060439, Q2TB65, Q6P157, Q8N3E8, Q96MI7, Q96ST2, Q9NV97, Q9NWH8
UCSC ID: uc002ton.2
RefSeq Accession: NM_017969
Protein: Q96ST2 (aka IWS1_HUMAN)
CCDS: CCDS2146.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_017969.2
exon count: 14CDS single in 3' UTR: no RNA size: 3000
ORF size: 2460CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 4948.00frame shift in genome: no % Coverage: 100.00
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.