1. Home
  2. Species
  3. Pseudotsuga menziesii
  4. Sequence
  5. PSME_00027172-RA

PSME_00027172-RA


Description : (at5g42820 : 293.0) U2 auxiliary factor small subunit. The atU2AF35b protein and its homolog, atU2AF35a, contain most of the conserved domains of hsU2AF35, including the psiRRM, one RS domain, two zinc fingers, and the two regions for interacting with U2AF large subunit. Both proteins lack the stretch of glycines present in human U2AF35. The sequences are overall 83% identical, and each Arabidopsis homolog shows approximately 70% similarity to hsU2AF35. U2AF(35) homologs were also identified from maize, rice and other plants with large-scale EST projects. Both genes are expressed in all major tissues, with atU2AF(35)a expressed at a higher level than atU2AF(35)b in most tissues. The expression patterns were different in roots: atU2AF(35)b expressed strongly in whole young roots and root tips and atU2AF(35)a limited to root vascular regions.; U2AF35B; FUNCTIONS IN: RNA binding, zinc ion binding, nucleotide binding, nucleic acid binding; INVOLVED IN: photoperiodism, flowering; LOCATED IN: nucleus; EXPRESSED IN: 28 plant structures; EXPRESSED DURING: 14 growth stages; CONTAINS InterPro DOMAIN/s: Zinc finger, CCCH-type (InterPro:IPR000571), RNA recognition motif, RNP-1 (InterPro:IPR000504), Nucleotide-binding, alpha-beta plait (InterPro:IPR012677), U2 auxiliary factor small subunit (InterPro:IPR009145); BEST Arabidopsis thaliana protein match is: U2 snRNP auxiliary factor small subunit, putative (TAIR:AT1G27650.1); Has 35333 Blast hits to 34131 proteins in 2444 species: Archae - 798; Bacteria - 22429; Metazoa - 974; Fungi - 991; Plants - 531; Viruses - 0; Other Eukaryotes - 9610 (source: NCBI BLink). & (reliability: 586.0) & (original description: no original description)


Gene families : OG_42_0001056 (Orthogroups_2024-Update) Phylogenetic Tree(s): OG0001056_tree

Sequence : coding (download), protein (download)


Download

Note:Only the main profile, including all conditions, is shown. Additional statistics and tissue specific profiles are available here.


Type Description Actions
Neighborhood Pseudotsuga release: PSME_00027172-RA
Cluster HCCA clusters: Cluster_185

Target Alias Description ECC score Gene Family Method Actions
GRMZM2G177229 No alias Zinc finger C-x8-C-x5-C-x3-H type family protein 0.03 Orthogroups_2024-Update
Glyma.12G181300 No alias Zinc finger C-x8-C-x5-C-x3-H type family protein 0.06 Orthogroups_2024-Update
HORVU5Hr1G073680.3 No alias small subunit of U2AF pre-RNA splicing auxiliary factor complex 0.02 Orthogroups_2024-Update
LOC_Os02g35150 No alias splicing factor U2AF, putative, expressed 0.03 Orthogroups_2024-Update
Seita.6G010500.1 No alias small subunit of U2AF pre-RNA splicing auxiliary factor complex 0.05 Orthogroups_2024-Update
Sobic.002G249500.2 No alias small subunit of U2AF pre-RNA splicing auxiliary factor complex 0.05 Orthogroups_2024-Update
Solyc11g066830 No alias Zinc finger transcription factor 68 0.04 Orthogroups_2024-Update
Sopen11g026540 No alias Zinc finger C-x8-C-x5-C-x3-H type (and similar) 0.02 Orthogroups_2024-Update

Type GO Term Name Evidence Source
MF GO:0003676 nucleic acid binding IEA InterProScan predictions
MF GO:0046872 metal ion binding IEA InterProScan predictions
Toggle parental
Type GO Term Name Evidence Source
BP GO:0000271 polysaccharide biosynthetic process IEP Predicted GO
MF GO:0003743 translation initiation factor activity IEP Predicted GO
MF GO:0004620 phospholipase activity IEP Predicted GO
CC GO:0005741 mitochondrial outer membrane IEP Predicted GO
CC GO:0005875 microtubule associated complex IEP Predicted GO
BP GO:0006413 translational initiation IEP Predicted GO
BP GO:0007049 cell cycle IEP Predicted GO
MF GO:0008135 translation factor activity, RNA binding IEP Predicted GO
MF GO:0008536 Ran GTPase binding IEP Predicted GO
BP GO:0009250 glucan biosynthetic process IEP Predicted GO
CC GO:0016020 membrane IEP Predicted GO
MF GO:0016298 lipase activity IEP Predicted GO
MF GO:0016759 cellulose synthase activity IEP Predicted GO
MF GO:0016760 cellulose synthase (UDP-forming) activity IEP Predicted GO
MF GO:0016854 racemase and epimerase activity IEP Predicted GO
MF GO:0016855 racemase and epimerase activity, acting on amino acids and derivatives IEP Predicted GO
BP GO:0030243 cellulose metabolic process IEP Predicted GO
BP GO:0030244 cellulose biosynthetic process IEP Predicted GO
CC GO:0030286 dynein complex IEP Predicted GO
CC GO:0031968 organelle outer membrane IEP Predicted GO
BP GO:0033692 cellular polysaccharide biosynthetic process IEP Predicted GO
MF GO:0036361 racemase activity, acting on amino acids and derivatives IEP Predicted GO
MF GO:0050290 sphingomyelin phosphodiesterase D activity IEP Predicted GO
BP GO:0051273 beta-glucan metabolic process IEP Predicted GO
BP GO:0051274 beta-glucan biosynthetic process IEP Predicted GO
BP GO:0051321 meiotic cell cycle IEP Predicted GO
CC GO:0098805 whole membrane IEP Predicted GO
InterPro domains Description Start Stop
IPR000571 Znf_CCCH 14 37
IPR000571 Znf_CCCH 150 173
IPR000504 RRM_dom 83 139
No external refs found!