Human Gene ESF1 (uc002wok.2) Description and Page Index
  Description: Homo sapiens ESF1, nucleolar pre-rRNA processing protein, homolog (S. cerevisiae) (ESF1), transcript variant 2, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr20:13,694,969-13,765,579 Size: 70,611 Total Exon Count: 14 Strand: -
Coding Region
   Position: hg19 chr20:13,695,521-13,763,786 Size: 68,266 Coding Exon Count: 13 

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 (chr20:13,694,969-13,765,579)mRNA (may differ from genome)Protein (851 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
H-INVHGNCHPRDLynxMGIneXtProt
PubMedStanford SOURCEUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: ESF1_HUMAN
DESCRIPTION: RecName: Full=ESF1 homolog; AltName: Full=ABT1-associated protein;
FUNCTION: May constitute a novel regulatory system for basal transcription. Negatively regulates ABT1 (By similarity).
SUBUNIT: Interacts with ABT1. Forms a complex with ABT1 and suppresses the ABT1-induced activation of polymerase II-directed transcription in mammalian cells (By similarity).
SUBCELLULAR LOCATION: Nucleus, nucleolus (By similarity). Nucleus, nucleoplasm (By similarity).
SIMILARITY: Belongs to the ESF1 family.
SEQUENCE CAUTION: Sequence=AAF65504.1; Type=Frameshift; Positions=664; Sequence=BAA91123.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Potential poly-A sequence; Sequence=BAB14167.1; Type=Erroneous initiation;

-  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: 12.34 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 307.44 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 -22.4097-0.231 Picture PostScript Text
3' UTR -105.83552-0.192 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
IPR012580 - NUC153

Pfam Domains:
PF08159 - NUC153 domain

ModBase Predicted Comparative 3D Structure on Q9H501
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 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:0003723 RNA binding

Biological Process:
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated

Cellular Component:
GO:0005615 extracellular space
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005730 nucleolus


-  Descriptions from all associated GenBank mRNAs
  LF383743 - JP 2014500723-A/191246: Polycomb-Associated Non-Coding RNAs.
AK074299 - Homo sapiens cDNA FLJ23719 fis, clone HEP13756.
BC146542 - Synthetic construct Homo sapiens clone IMAGE:100014946, MGC:180163 ESF1, nucleolar pre-rRNA processing protein, homolog (S. cerevisiae) (ESF1) mRNA, encodes complete protein.
BC140351 - Synthetic construct Homo sapiens clone IMAGE:100014323, MGC:173199 ESF1, nucleolar pre-rRNA processing protein, homolog (S. cerevisiae) (ESF1) mRNA, encodes complete protein.
AB463031 - Synthetic construct DNA, clone: pF1KB7301, Homo sapiens ESF1 gene for ESF1, nucleolar pre-rRNA processing protein, homolog, without stop codon, in Flexi system.
AK000375 - Homo sapiens cDNA FLJ20368 fis, clone HEP18272.
AF068285 - Homo sapiens HDCMC28P mRNA, complete cds.
BC020952 - Homo sapiens ESF1, nucleolar pre-rRNA processing protein, homolog (S. cerevisiae), mRNA (cDNA clone IMAGE:3850711), partial cds.
BC030513 - Homo sapiens ESF1, nucleolar pre-rRNA processing protein, homolog (S. cerevisiae), mRNA (cDNA clone IMAGE:4991227), partial cds.
BC046107 - Homo sapiens ESF1, nucleolar pre-rRNA processing protein, homolog (S. cerevisiae), mRNA (cDNA clone IMAGE:4402142), partial cds.
AK022369 - Homo sapiens cDNA FLJ12307 fis, clone MAMMA1001908.
BC039706 - Homo sapiens ESF1, nucleolar pre-rRNA processing protein, homolog (S. cerevisiae), mRNA (cDNA clone IMAGE:4525941), partial cds.
MA619320 - JP 2018138019-A/191246: Polycomb-Associated Non-Coding RNAs.
AK022670 - Homo sapiens cDNA FLJ12608 fis, clone NT2RM4001522.
JD359711 - Sequence 340735 from Patent EP1572962.
JD539732 - Sequence 520756 from Patent EP1572962.
JD290898 - Sequence 271922 from Patent EP1572962.
JD241229 - Sequence 222253 from Patent EP1572962.
LF349747 - JP 2014500723-A/157250: Polycomb-Associated Non-Coding RNAs.
LF349750 - JP 2014500723-A/157253: Polycomb-Associated Non-Coding RNAs.
LF349753 - JP 2014500723-A/157256: Polycomb-Associated Non-Coding RNAs.
LF349761 - JP 2014500723-A/157264: Polycomb-Associated Non-Coding RNAs.
LF349764 - JP 2014500723-A/157267: Polycomb-Associated Non-Coding RNAs.
LF349765 - JP 2014500723-A/157268: Polycomb-Associated Non-Coding RNAs.
MA585324 - JP 2018138019-A/157250: Polycomb-Associated Non-Coding RNAs.
MA585327 - JP 2018138019-A/157253: Polycomb-Associated Non-Coding RNAs.
MA585330 - JP 2018138019-A/157256: Polycomb-Associated Non-Coding RNAs.
MA585338 - JP 2018138019-A/157264: Polycomb-Associated Non-Coding RNAs.
MA585341 - JP 2018138019-A/157267: Polycomb-Associated Non-Coding RNAs.
MA585342 - JP 2018138019-A/157268: Polycomb-Associated Non-Coding RNAs.
BC062214 - Homo sapiens ESF1, nucleolar pre-rRNA processing protein, homolog (S. cerevisiae), mRNA (cDNA clone IMAGE:6653357), partial cds.
BC104663 - Homo sapiens ESF1, nucleolar pre-rRNA processing protein, homolog (S. cerevisiae), mRNA (cDNA clone IMAGE:6603253), partial cds.
LF349768 - JP 2014500723-A/157271: Polycomb-Associated Non-Coding RNAs.
MA585345 - JP 2018138019-A/157271: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: ABTAP, C20orf6, ESF1_HUMAN, HDCMC28P, NM_001276380, NP_001263309, Q86X92, Q9H501, Q9H9Q5, Q9HA35, Q9NX93, Q9P1S6, uc002wok.1
UCSC ID: uc002wok.2
RefSeq Accession: NM_001276380
Protein: Q9H501 (aka ESF1_HUMAN)
CCDS: CCDS13117.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001276380.1
exon count: 14CDS single in 3' UTR: no RNA size: 3205
ORF size: 2556CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 5300.00frame 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.