Human Gene TWISTNB (uc003sup.1) Description and Page Index
  Description: Homo sapiens TWIST neighbor (TWISTNB), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr7:19,735,085-19,748,660 Size: 13,576 Total Exon Count: 4 Strand: -
Coding Region
   Position: hg19 chr7:19,737,939-19,748,639 Size: 10,701 Coding Exon Count: 4 

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

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr7:19,735,085-19,748,660)mRNA (may differ from genome)Protein (338 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
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UniProtKB

-  Comments and Description Text from UniProtKB
  ID: RPA43_HUMAN
DESCRIPTION: RecName: Full=DNA-directed RNA polymerase I subunit RPA43; AltName: Full=Twist neighbor protein;
FUNCTION: DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Component of RNA polymerase I which synthesizes ribosomal RNA precursors. Through its association with RRN3/TIF-IA may be involved in recruitment of Pol I to rDNA promoters.
SUBUNIT: Component of the RNA polymerase I (Pol I) complex consisting of at least 13 subunits (By similarity). Interacts with RRN3/TIF-IA.
SUBCELLULAR LOCATION: Nucleus, nucleolus (By similarity).
TISSUE SPECIFICITY: Widely expressed. Expressed in all fetal and adult tissues tested, with highest expression in fetal lung, liver, and kidney, and low expression in all adult tissues.
SIMILARITY: Belongs to the eukaryotic RPA43 RNA polymerase subunit family.
SEQUENCE CAUTION: Sequence=AAH14574.1; Type=Frameshift; Positions=224;

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

+  Common Gene Haplotype Alleles
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-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 10.92 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 207.90 RPKM



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

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR 0.00210.000 Picture PostScript Text
3' UTR -692.502854-0.243 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
IPR005576 - RNA_pol_Rpb7_N

Pfam Domains:
PF03876 - SHS2 domain found in N terminus of Rpb7p/Rpc25p/MJ0397

ModBase Predicted Comparative 3D Structure on Q3B726
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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 orthologNo orthologGenome BrowserGenome BrowserNo orthologGenome Browser
Gene Details  Gene Details Gene Details
Gene Sorter  Gene Sorter Gene Sorter
  EnsemblFlyBase SGD
  Protein SequenceProtein Sequence Protein Sequence
  AlignmentAlignment Alignment

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003899 DNA-directed 5'-3' RNA polymerase activity
GO:0001054 RNA polymerase I activity

Biological Process:
GO:0006351 transcription, DNA-templated
GO:0006361 transcription initiation from RNA polymerase I promoter
GO:0006363 termination of RNA polymerase I transcription
GO:0045815 positive regulation of gene expression, epigenetic
GO:1990830 cellular response to leukemia inhibitory factor

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005730 nucleolus
GO:0005736 DNA-directed RNA polymerase I complex


-  Descriptions from all associated GenBank mRNAs
  AK090846 - Homo sapiens cDNA FLJ33527 fis, clone BRAMY2007078.
JD349455 - Sequence 330479 from Patent EP1572962.
JD094248 - Sequence 75272 from Patent EP1572962.
JD314159 - Sequence 295183 from Patent EP1572962.
JD507214 - Sequence 488238 from Patent EP1572962.
JD459513 - Sequence 440537 from Patent EP1572962.
JD146700 - Sequence 127724 from Patent EP1572962.
JD154898 - Sequence 135922 from Patent EP1572962.
BC130298 - Homo sapiens TWIST neighbor, mRNA (cDNA clone MGC:163170 IMAGE:40146329), complete cds.
BC130300 - Homo sapiens TWIST neighbor, mRNA (cDNA clone MGC:163172 IMAGE:40146331), complete cds.
JD082168 - Sequence 63192 from Patent EP1572962.
JD039507 - Sequence 20531 from Patent EP1572962.
JD443307 - Sequence 424331 from Patent EP1572962.
JD437498 - Sequence 418522 from Patent EP1572962.
JD333474 - Sequence 314498 from Patent EP1572962.
JD355923 - Sequence 336947 from Patent EP1572962.
JD089672 - Sequence 70696 from Patent EP1572962.
JD247699 - Sequence 228723 from Patent EP1572962.
JD275524 - Sequence 256548 from Patent EP1572962.
JD282753 - Sequence 263777 from Patent EP1572962.
JD280863 - Sequence 261887 from Patent EP1572962.
JD048527 - Sequence 29551 from Patent EP1572962.
JD040349 - Sequence 21373 from Patent EP1572962.
JD229210 - Sequence 210234 from Patent EP1572962.
JD146595 - Sequence 127619 from Patent EP1572962.
JD561949 - Sequence 542973 from Patent EP1572962.
JD284822 - Sequence 265846 from Patent EP1572962.
JD302210 - Sequence 283234 from Patent EP1572962.
JD166539 - Sequence 147563 from Patent EP1572962.
AK301329 - Homo sapiens cDNA FLJ50058 complete cds, highly similar to Homo sapiens TWIST neighbor (TWISTNB), mRNA.
JD546715 - Sequence 527739 from Patent EP1572962.
JD061021 - Sequence 42045 from Patent EP1572962.
JD345890 - Sequence 326914 from Patent EP1572962.
JD263320 - Sequence 244344 from Patent EP1572962.
HQ258381 - Synthetic construct Homo sapiens clone IMAGE:100072810 TWIST neighbor (TWISTNB) gene, encodes complete protein.
KJ895872 - Synthetic construct Homo sapiens clone ccsbBroadEn_05266 TWISTNB gene, encodes complete protein.
BC014574 - Homo sapiens TWIST neighbor, mRNA (cDNA clone MGC:22817 IMAGE:3685950), complete cds.
BC013179 - Homo sapiens TWIST neighbor, mRNA (cDNA clone IMAGE:4340767), with apparent retained intron.
BC070358 - Homo sapiens TWIST neighbor, mRNA (cDNA clone IMAGE:6498086), partial cds.
KJ904036 - Synthetic construct Homo sapiens clone ccsbBroadEn_13430 TWISTNB gene, encodes complete protein.
BC056267 - Homo sapiens TWIST neighbor, mRNA (cDNA clone IMAGE:6702802).
JD370891 - Sequence 351915 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q3B726 (Reactome details) participates in the following event(s):

R-HSA-73865 Assembly of RNA Polymerase I Holoenzyme (human)
R-HSA-73757 Binding of RRN3 to RNA Polymerase I
R-HSA-5250947 B-WICH complex binds rDNA promoter
R-HSA-73758 Recruitment of Active RNA Polymerase I to SL1:phos.UBF-1:rDNA Promoter
R-HSA-74994 Polymerase I Transcription Complex/Nascent Pre rRNA Complex pauses at the TTF-I:Sal Box
R-HSA-73769 Loss of Rrn3 from RNA Polymerase I promoter escape complex
R-HSA-74992 Dissociation of PTRF:Polymerase I/Nascent Pre rRNA Complex:TTF-I:Sal Box
R-HSA-5250930 B-WICH recruits histone acetyltransferases
R-HSA-74993 PTRF Binds the Polymerase I Transcription Complex/Nascent Pre rRNA Complex paused at the TTF-I:Sal Box
R-HSA-74986 Elongation of pre-rRNA transcript
R-HSA-427366 Transcription of intergenic spacer of the rRNA gene
R-HSA-5250938 B-WICH:histone acetyltransferase acetylates histone H3 at lysine-9
R-HSA-73762 RNA Polymerase I Transcription Initiation
R-HSA-5250924 B-WICH complex positively regulates rRNA expression
R-HSA-73854 RNA Polymerase I Promoter Clearance
R-HSA-73863 RNA Polymerase I Transcription Termination
R-HSA-73772 RNA Polymerase I Promoter Escape
R-HSA-5250913 Positive epigenetic regulation of rRNA expression
R-HSA-73864 RNA Polymerase I Transcription
R-HSA-73777 RNA Polymerase I Chain Elongation
R-HSA-427413 NoRC negatively regulates rRNA expression
R-HSA-212165 Epigenetic regulation of gene expression
R-HSA-74160 Gene expression (Transcription)
R-HSA-5250941 Negative epigenetic regulation of rRNA expression

-  Other Names for This Gene
  Alternate Gene Symbols: A0PJ45, B7Z724, NM_001002926, NP_001002926, Q3B726, RPA43_HUMAN
UCSC ID: uc003sup.1
RefSeq Accession: NM_001002926
Protein: Q3B726 (aka RPA43_HUMAN)
CCDS: CCDS34606.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001002926.1
exon count: 4CDS single in 3' UTR: no RNA size: 3892
ORF size: 1017CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 2234.00frame 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.