1. Home
  2. Species
  3. Pseudotsuga menziesii
  4. Sequence
  5. PSME_00023166-RA

PSME_00023166-RA


Description : (at5g51300 : 615.0) splicing factor-related; FUNCTIONS IN: RNA binding, zinc ion binding, nucleotide binding, nucleic acid binding; INVOLVED IN: RNA splicing; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: K Homology (InterPro:IPR004087), K Homology, type 1, subgroup (InterPro:IPR018111), RNA recognition motif, RNP-1 (InterPro:IPR000504), K Homology, type 1 (InterPro:IPR004088), Nucleotide-binding, alpha-beta plait (InterPro:IPR012677), Zinc finger, CCHC-type (InterPro:IPR001878); BEST Arabidopsis thaliana protein match is: RNA-binding KH domain-containing protein (TAIR:AT1G09660.1); Has 82686 Blast hits to 53020 proteins in 1818 species: Archae - 38; Bacteria - 8214; Metazoa - 37936; Fungi - 14163; Plants - 12444; Viruses - 1255; Other Eukaryotes - 8636 (source: NCBI BLink). & (reliability: 1230.0) & (original description: no original description)


Gene families : OG_42_0002621 (Orthogroups_2024-Update) Phylogenetic Tree(s): OG0002621_tree

Sequence : coding (download), protein (download)


Attention: This gene has low abundance.


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_00023166-RA
Cluster HCCA clusters: Cluster_86

Target Alias Description ECC score Gene Family Method Actions
At5g51300 No alias Splicing factor-like protein 1... 0.03 Orthogroups_2024-Update
Brara.C01481.1 No alias pre-mRNA splicing factor *(SF1) 0.02 Orthogroups_2024-Update
Cre09.g386731 No alias splicing factor-related 0.03 Orthogroups_2024-Update
MA_15045g0010 No alias (at5g51300 : 679.0) splicing factor-related; FUNCTIONS... 0.04 Orthogroups_2024-Update
MA_57875g0010 No alias (at5g51300 : 630.0) splicing factor-related; FUNCTIONS... 0.03 Orthogroups_2024-Update
MA_8555g0010 No alias no hits & (original description: no original description) 0.07 Orthogroups_2024-Update
Seita.7G071900.1 No alias pre-mRNA splicing factor *(SF1) 0.02 Orthogroups_2024-Update
Sobic.001G409600.1 No alias pre-mRNA splicing factor *(SF1) 0.04 Orthogroups_2024-Update

Type GO Term Name Evidence Source
MF GO:0003676 nucleic acid binding IEA InterProScan predictions
MF GO:0003723 RNA binding IEA InterProScan predictions
Toggle parental
Type GO Term Name Evidence Source
MF GO:0000155 phosphorelay sensor kinase activity IEP Predicted GO
CC GO:0000428 DNA-directed RNA polymerase complex IEP Predicted GO
MF GO:0004673 protein histidine kinase activity IEP Predicted GO
MF GO:0004842 ubiquitin-protein transferase activity IEP Predicted GO
MF GO:0005515 protein binding IEP Predicted GO
CC GO:0005665 RNA polymerase II, core complex IEP Predicted GO
BP GO:0006366 transcription by RNA polymerase II IEP Predicted GO
BP GO:0006476 protein deacetylation IEP Predicted GO
BP GO:0006888 ER to Golgi vesicle-mediated transport IEP Predicted GO
MF GO:0008270 zinc ion binding IEP Predicted GO
BP GO:0009314 response to radiation IEP Predicted GO
BP GO:0009416 response to light stimulus IEP Predicted GO
BP GO:0009581 detection of external stimulus IEP Predicted GO
BP GO:0009582 detection of abiotic stimulus IEP Predicted GO
BP GO:0009583 detection of light stimulus IEP Predicted GO
BP GO:0009584 detection of visible light IEP Predicted GO
BP GO:0009605 response to external stimulus IEP Predicted GO
BP GO:0016070 RNA metabolic process IEP Predicted GO
BP GO:0016192 vesicle-mediated transport IEP Predicted GO
BP GO:0016575 histone deacetylation IEP Predicted GO
MF GO:0016775 phosphotransferase activity, nitrogenous group as acceptor IEP Predicted GO
BP GO:0018298 protein-chromophore linkage IEP Predicted GO
MF GO:0019787 ubiquitin-like protein transferase activity IEP Predicted GO
CC GO:0030117 membrane coat IEP Predicted GO
CC GO:0030118 clathrin coat IEP Predicted GO
CC GO:0030120 vesicle coat IEP Predicted GO
CC GO:0030125 clathrin vesicle coat IEP Predicted GO
CC GO:0030127 COPII vesicle coat IEP Predicted GO
CC GO:0030130 clathrin coat of trans-Golgi network vesicle IEP Predicted GO
CC GO:0030132 clathrin coat of coated pit IEP Predicted GO
CC GO:0030880 RNA polymerase complex IEP Predicted GO
BP GO:0035601 protein deacylation IEP Predicted GO
CC GO:0044431 Golgi apparatus part IEP Predicted GO
CC GO:0044433 cytoplasmic vesicle part IEP Predicted GO
BP GO:0051606 detection of stimulus IEP Predicted GO
CC GO:0055029 nuclear DNA-directed RNA polymerase complex IEP Predicted GO
CC GO:0061695 transferase complex, transferring phosphorus-containing groups IEP Predicted GO
BP GO:0098732 macromolecule deacylation IEP Predicted GO
InterPro domains Description Start Stop
IPR032570 SF1-HH 375 489
IPR000504 RRM_dom 766 834
IPR004088 KH_dom_type_1 508 581
No external refs found!