Human Gene ASF1A (ENST00000229595.6_4) from GENCODE V47lift37
  Description: anti-silencing function 1A histone chaperone (from RefSeq NM_014034.3)
Gencode Transcript: ENST00000229595.6_4
Gencode Gene: ENSG00000111875.8_7
Transcript (Including UTRs)
   Position: hg19 chr6:119,215,316-119,230,336 Size: 15,021 Total Exon Count: 4 Strand: +
Coding Region
   Position: hg19 chr6:119,215,578-119,228,779 Size: 13,202 Coding Exon Count: 4 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr6:119,215,316-119,230,336)mRNA (may differ from genome)Protein (204 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
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WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: ASF1A_HUMAN
DESCRIPTION: RecName: Full=Histone chaperone ASF1A; AltName: Full=Anti-silencing function protein 1 homolog A; Short=hAsf1; Short=hAsf1a; AltName: Full=CCG1-interacting factor A; Short=CIA; Short=hCIA;
FUNCTION: Histone chaperone that facilitates histone deposition and histone exchange and removal during nucleosome assembly and disassembly. Cooperates with chromatin assembly factor 1 (CAF-1) to promote replication-dependent chromatin assembly and with HIRA to promote replication-independent chromatin assembly. Required for the formation of senescence-associated heterochromatin foci (SAHF) and efficient senescence-associated cell cycle exit.
SUBUNIT: Interacts with histone H3 (including both histone H3.1 and H3.3) and histone H4. Interacts with the CHAF1A, CHAF1B and RBBP4 subunits of the CAF-1 complex. Interacts with CABIN1, HAT1, HIRA, NASP, TAF1, TLK1, TLK2 and UBN1.
INTERACTION: P03372:ESR1; NbExp=2; IntAct=EBI-749553, EBI-78473;
SUBCELLULAR LOCATION: Nucleus.
TISSUE SPECIFICITY: Ubiquitously expressed.
PTM: Phosphorylated by TLK1 and TLK2. Highly phosphorylated in S- phase and at lower levels in M-phase. TLK2-mediated phosphorylation at Ser-192 prevents proteasome-dependent degradation.
SIMILARITY: Belongs to the ASF1 family.

-  Primer design for this transcript
 

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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

+  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: 11.24 RPKM in Brain - Caudate (basal ganglia)
Total median expression: 356.08 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 -81.20262-0.310 Picture PostScript Text
3' UTR -311.501557-0.200 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
IPR006818 - Histone_chaperone_ASF1-like

Pfam Domains:
PF04729 - ASF1 like histone chaperone

SCOP Domains:
101546 - ASF1-like

Protein Data Bank (PDB) 3-D Structure
MuPIT help
1TEY - NMR MuPIT 2I32 - X-ray MuPIT 2IIJ - NMR MuPIT 2IO5 - X-ray MuPIT 3AAD - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on Q9Y294
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-  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 orthologNo orthologNo orthologGenome BrowserGenome Browser
Gene DetailsGene Details Gene DetailsGene DetailsGene Details
Gene SorterGene Sorter Gene SorterGene SorterGene Sorter
 RGDEnsembl WormBaseSGD
    Protein SequenceProtein Sequence
    AlignmentAlignment

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003682 chromatin binding
GO:0005515 protein binding
GO:0042393 histone binding

Biological Process:
GO:0001649 osteoblast differentiation
GO:0006281 DNA repair
GO:0006325 chromatin organization
GO:0006333 chromatin assembly or disassembly
GO:0006334 nucleosome assembly
GO:0006335 DNA replication-dependent nucleosome assembly
GO:0006336 DNA replication-independent nucleosome assembly
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0031936 negative regulation of chromatin silencing
GO:0042692 muscle cell differentiation

Cellular Component:
GO:0000790 nuclear chromatin
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0032991 macromolecular complex


-  Descriptions from all associated GenBank mRNAs
  HQ447977 - Synthetic construct Homo sapiens clone IMAGE:100071343; CCSB005980_03 ASF1 anti-silencing function 1 homolog A (S. cerevisiae) (ASF1A) gene, encodes complete protein.
KJ893475 - Synthetic construct Homo sapiens clone ccsbBroadEn_02869 ASF1A gene, encodes complete protein.
AF161495 - Homo sapiens HSPC146 mRNA, complete cds.
AF151856 - Homo sapiens CGI-98 protein mRNA, complete cds.
AK025738 - Homo sapiens cDNA: FLJ22085 fis, clone HEP14921.
AL050261 - Homo sapiens mRNA; cDNA DKFZp564E2182 (from clone DKFZp564E2182).
BC010878 - Homo sapiens ASF1 anti-silencing function 1 homolog A (S. cerevisiae), mRNA (cDNA clone MGC:1429 IMAGE:3546858), complete cds.
AB028628 - Homo sapiens mRNA for CIA, complete cds.
AF279306 - Homo sapiens anti-silencing function 1A (ASF1A) mRNA, complete cds.
JD523201 - Sequence 504225 from Patent EP1572962.
CU679835 - Synthetic construct Homo sapiens gateway clone IMAGE:100020741 5' read ASF1A mRNA.
CR457347 - Homo sapiens full open reading frame cDNA clone RZPDo834D0510D for gene ASF1A, ASF1 anti-silencing function 1 homolog A (S. cerevisiae); complete cds, incl. stopcodon.
AB528978 - Synthetic construct DNA, clone: pF1KE0901, Homo sapiens ASF1A gene for ASF1 anti-silencing function 1 homolog A, without stop codon, in Flexi system.
JD085797 - Sequence 66821 from Patent EP1572962.
JD111598 - Sequence 92622 from Patent EP1572962.
JD490013 - Sequence 471037 from Patent EP1572962.
JD234843 - Sequence 215867 from Patent EP1572962.
JD334422 - Sequence 315446 from Patent EP1572962.
JD046859 - Sequence 27883 from Patent EP1572962.
JD403608 - Sequence 384632 from Patent EP1572962.
JD419963 - Sequence 400987 from Patent EP1572962.
JD446229 - Sequence 427253 from Patent EP1572962.
JD357362 - Sequence 338386 from Patent EP1572962.
JD091597 - Sequence 72621 from Patent EP1572962.
JD556748 - Sequence 537772 from Patent EP1572962.

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

Protein Q9Y294 (Reactome details) participates in the following event(s):

R-HSA-3878123 Initiation of SAHF formation
R-HSA-4647594 SAHF formation
R-HSA-2559584 Formation of Senescence-Associated Heterochromatin Foci (SAHF)
R-HSA-2559586 DNA Damage/Telomere Stress Induced Senescence
R-HSA-2559583 Cellular Senescence
R-HSA-2262752 Cellular responses to stress
R-HSA-8953897 Cellular responses to external stimuli

-  Other Names for This Gene
  Alternate Gene Symbols: ASF1A , ASF1A_HUMAN, CGI-98 , ENST00000229595.1, ENST00000229595.2, ENST00000229595.3, ENST00000229595.4, ENST00000229595.5, HSPC146 , NM_014034, Q6IA08, Q9P014, Q9Y294, uc317drc.1, uc317drc.2
UCSC ID: ENST00000229595.6_4
RefSeq Accession: NM_014034.3
Protein: Q9Y294 (aka ASF1A_HUMAN)

-  Gene Model Information
  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.