Protein: Cleavage and polyadenylation specificity factor subunit 6 (Q6NWC6)
Organism: Danio rerio (Zebrafish) (Brachydanio rerio)
Function: Component of the cleavage factor Im (CFIm) complex that functions as an activator of the pre-mRNA 3'-end cleavage and polyadenylation processing required for the maturation of pre-mRNA into functional mRNAs. CFIm contributes to the recruitment of multiprotein complexes on specific sequences on the pre-mRNA 3'-end, so called cleavage and polyadenylation signals (pA signals). Most pre-mRNAs contain multiple pA signals, resulting in alternative cleavage and polyadenylation (APA) producing mRNAs with variable 3'-end formation. The CFIm complex acts as a key regulator of cleavage and polyadenylation site choice during APA through its binding to 5'-UGUA- 3' elements localized in the 3'-untranslated region (UTR) for a huge number of pre-mRNAs. Plays a role in mRNA export
Subcellular location: Nucleus. Nucleus, nucleoplasm. Nucleus speckle. Cytoplasm. Note=Shuttles between the nucleus and the cytoplasm
Sequence: MADGVDHIDIYADVEEEFNQESDYPVHDQIDLYDDVISPSANNGDAPEDRDYLDSLPAPGGNEGSKGAPANVVYTYNGKRIALYIGNLTWWTTDEDLTDAIRSIGINDVLEIKFFENRANGQSKGFALVCVGSDSSSRKLMDLLSKRELHGQNPIVTPCNKQSLSQFEMQSRKSTQSGQMSGEGKAGPPGSGSRGGGFPPGKGQRRFPGPPGQGDRFPGPVGPGGPPPHFPGMQGPPRLPSGPPGPLGPPGPPPPGQGLPPPLGGPPNRGDRPPPPVLFPGQFGQPPMGPMPPGPPPPGYGPPPGPPPPQQGPPPPGPFPPRPPGPLGPPLGLAPPPHMQGPPPGGPPPAPHVNPAFFPPPGNNMPSSDGRGPPPGDPYGRPPPYDRDFPGGRDMDASRTPLSEAEFEEIMNRNRAISSSAISRAVSDASAADYGSAIETLVTAISLIKQSKVSADDRCKVLISSLQDCLHGIESKSYGSVAGRRERSRERDHSRSREKSRRHKSRSRDRHEDYYRERSRERDRHRERDRDRERDREREREYRHR
InterPro domains: - IPR035979: RNA-binding domain superfamily (homologous_superfamily) [83-187]
- IPR034769: Cleavage and polyadenylation specificity factor subunit 6, RNA recognition motif (domain) [82-158]
- IPR034772: CPSF6/7 (family) [1-273]
- IPR057951: CPSF6/7, RSLD domain, N-terminal region (domain) [405-509]
- IPR000504: RNA recognition motif domain (domain) [81-161]
- IPR012677: Nucleotide-binding alpha-beta plait domain superfamily (homologous_superfamily) [81-172]
Interaction partners: - Cleavage and polyadenylation specificity factor subunit 5
- Serine and arginine-rich-splicing factor 7b
- Cleavage stimulation factor subunit 1
- Cleavage and polyadenylation specificity factor subunit 2
- Cleavage and polyadenylation specificity factor subunit 1
- Splicing factor U2AF subunit
- Symplekin
- Cleavage stimulation factor subunit 3
- Nuclear RNA export factor 1
- Protein virilizer homolog isoform X2
Gene Ontology annotations:
Molecular Function (MF): GO:0003674 (molecular function), GO:0005488 (binding), GO:0097159 (organic cyclic compound binding), GO:1901363 (heterocyclic compound binding), GO:0003676 (nucleic acid binding), GO:0003723 (RNA binding), GO:0003729 (mRNA binding), GO:0003730 (mRNA 3'-UTR binding)
Biological Process (BP): GO:0008150 (biological process), GO:0008152 (metabolic process), GO:0009987 (cellular process), GO:0044237 (cellular metabolic process), GO:0071704 (organic substance metabolic process), GO:0044238 (primary metabolic process), GO:0006807 (nitrogen compound metabolic process), GO:0006725 (cellular aromatic compound metabolic process), GO:0034641 (cellular nitrogen compound metabolic process), GO:1901360 (organic cyclic compound metabolic process), GO:0006139 (nucleobase-containing compound metabolic process), GO:0043170 (macromolecule metabolic process), GO:0046483 (heterocycle metabolic process), GO:0090304 (nucleic acid metabolic process), GO:0010467 (gene expression), GO:0016070 (RNA metabolic process), GO:0006396 (RNA processing), GO:0008380 (RNA splicing), GO:0006397 (mRNA processing), GO:0016071 (mRNA metabolic process), GO:0000398 (mRNA splicing, via spliceosome), GO:0000375 (RNA splicing, via transesterification reactions), GO:0000377 (RNA splicing, via transesterification reactions with bulged adenosine as nucleophile)
Cellular Component (CC): GO:0005575 (cellular component), GO:0110165 (cellular anatomical entity), GO:0005622 (intracellular anatomical structure), GO:0043226 (organelle), GO:0043229 (intracellular organelle), GO:0043227 (membrane-bounded organelle), GO:0043231 (intracellular membrane-bounded organelle), GO:0005634 (nucleus)