Description: Homo sapiens PHD finger protein 5A (PHF5A), mRNA. RefSeq Summary (NM_032758): This gene encodes a subunit of the splicing factor 3b protein complex. Splicing factor 3b, together with splicing factor 3a and a 12S RNA unit, forms the U2 small nuclear ribonucleoproteins complex (U2 snRNP). The splicing factor 3b/3a complex binds pre-mRNA upstream of the intron's branch site in a sequence-independent manner and may anchor the U2 snRNP to the pre-mRNA. The protein encoded by this gene contains a PHD-finger-like domain that is flanked by highly basic N- and C-termini. This protein belongs to the PHD-finger superfamily and may act as a chromatin-associated protein. This gene has several pseudogenes on different chromosomes. [provided by RefSeq, Jul 2008]. Transcript (Including UTRs) Position: hg19 chr22:41,855,721-41,864,708 Size: 8,988 Total Exon Count: 4 Strand: - Coding Region Position: hg19 chr22:41,856,402-41,864,657 Size: 8,256 Coding Exon Count: 4
ID:PHF5A_HUMAN DESCRIPTION: RecName: Full=PHD finger-like domain-containing protein 5A; Short=PHD finger-like domain protein 5A; AltName: Full=Splicing factor 3B-associated 14 kDa protein; Short=SF3b14b; FUNCTION: Acts as a transcriptional regulator by binding to the GJA1/Cx43 promoter and enhancing its up-regulation by ESR1/ER- alpha. Also involved in pre-mRNA splicing. SUBUNIT: Interacts (via N-terminus) with U2AF1 and SRSF5; acts to bridge the two. Interacts (via C-terminus) with EP400 and DDX1; acts to bridge the two (By similarity). Component of splicing factor SF3B which is composed of at least eight subunits; SF3B1/SAP155/SF3B155, SF3B2/SAP145/SF3B145, SF3B3/SAP130/SF3B130, SF3B4/SAP49/SF3B49, SF3B14A, PHF5A/SF3B14B, SF3B10 and SF3B125. SF3B associates with the splicing factor SF3A and a 12S RNA unit to form the U2 small nuclear ribonucleoproteins complex (U2 snRNP). Component of the U11/U12 snRNPs that are part of the U12- type spliceosome. SUBCELLULAR LOCATION: Nucleus (By similarity). Nucleus speckle (By similarity). SIMILARITY: Belongs to the PHF5 family.
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.
ModBase Predicted Comparative 3D Structure on Q7RTV0
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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.
Gene Ontology (GO) Annotations with Structured Vocabulary
Molecular Function: GO:0003677 DNA binding GO:0003700 transcription factor activity, sequence-specific DNA binding GO:0003723 RNA binding GO:0046872 metal ion binding
Biological Process: GO:0000398 mRNA splicing, via spliceosome GO:0006351 transcription, DNA-templated GO:0006355 regulation of transcription, DNA-templated GO:0006397 mRNA processing GO:0008380 RNA splicing GO:0045893 positive regulation of transcription, DNA-templated
BC075808 - Homo sapiens PHD finger protein 5A, mRNA (cDNA clone MGC:87881 IMAGE:5574722), complete cds. BC007321 - Homo sapiens PHD finger protein 5A, mRNA (cDNA clone MGC:1346 IMAGE:2989046), complete cds. JD485961 - Sequence 466985 from Patent EP1572962. JD295096 - Sequence 276120 from Patent EP1572962. JD073602 - Sequence 54626 from Patent EP1572962. JD072621 - Sequence 53645 from Patent EP1572962. JD431484 - Sequence 412508 from Patent EP1572962. JD261568 - Sequence 242592 from Patent EP1572962. JD358165 - Sequence 339189 from Patent EP1572962. JD348988 - Sequence 330012 from Patent EP1572962. JD050924 - Sequence 31948 from Patent EP1572962. CR456398 - Homo sapiens bK223H9.2 full length open reading frame (ORF) cDNA clone (cDNA clone C22ORF:pGEM.bK223H9.2). JD073087 - Sequence 54111 from Patent EP1572962. JD474947 - Sequence 455971 from Patent EP1572962. JD189936 - Sequence 170960 from Patent EP1572962. JD080401 - Sequence 61425 from Patent EP1572962. CU012956 - Homo sapiens PHF5A, mRNA (cDNA clone IMAGE:100000119), complete cds, with stop codon, in Gateway system. KJ895037 - Synthetic construct Homo sapiens clone ccsbBroadEn_04431 PHF5A gene, encodes complete protein. EU446678 - Synthetic construct Homo sapiens clone IMAGE:100069884; IMAGE:100011887; FLH258610.01L PHD finger protein 5A (PHF5A) gene, encodes complete protein. AB489147 - Synthetic construct DNA, clone: pF1KB9547, Homo sapiens PHF5A gene for PHD finger protein 5A, without stop codon, in Flexi system. CU013244 - Homo sapiens PHF5A, mRNA (cDNA clone IMAGE:100000023), complete cds, without stop codon, in Gateway system. JD508825 - Sequence 489849 from Patent EP1572962.
Biochemical and Signaling Pathways
KEGG - Kyoto Encyclopedia of Genes and Genomes hsa03040 - Spliceosome
Reactome (by CSHL, EBI, and GO)
Protein Q7RTV0 (Reactome details) participates in the following event(s):
R-HSA-72124 Formation of the Spliceosomal A Complex R-HSA-72143 Lariat Formation and 5'-Splice Site Cleavage R-HSA-72139 Formation of the active Spliceosomal C (B*) complex R-HSA-72127 Formation of the Spliceosomal B Complex R-HSA-72130 Formation of an intermediate Spliceosomal C (Bact) complex R-HSA-156661 Formation of Exon Junction Complex R-HSA-72163 mRNA Splicing - Major Pathway R-HSA-72172 mRNA Splicing R-HSA-72203 Processing of Capped Intron-Containing Pre-mRNA R-HSA-8953854 Metabolism of RNA
US Server
