1. Home
  2. Species
  3. Pseudotsuga menziesii
  4. Sequence
  5. PSME_00008383-RA

PSME_00008383-RA


Description : (at3g48430 : 465.0) Relative of Early Flowering 6 (REF6) encodes a Jumonji N/C and zinc finger domain-containing protein that acts as a positive regulator of flowering in an FLC-dependent pathway. REF6 mutants have hyperacetylation of histone H4 at the FLC locus. REF6 interacts with BES1 in a Y2H assay and in vitro. REF6 may play a role in brassinoteroid signaling by affecting histone methylation in the promoters of BR-responsive genes. It is most closely related to the JHDM3 subfamily of JmjN/C proteins.; relative of early flowering 6 (REF6); FUNCTIONS IN: sequence-specific DNA binding transcription factor activity, zinc ion binding, nucleic acid binding; INVOLVED IN: in 6 processes; LOCATED IN: nucleus; EXPRESSED IN: 8 plant structures; CONTAINS InterPro DOMAIN/s: Transcription factor jumonji/aspartyl beta-hydroxylase (InterPro:IPR003347), Zinc finger, C2H2-like (InterPro:IPR015880), Transcription factor jumonji (InterPro:IPR013129), Zinc finger, C2H2-type (InterPro:IPR007087), Transcription factor jumonji, JmjN (InterPro:IPR003349), Zinc finger, C2H2-type/integrase, DNA-binding (InterPro:IPR013087); BEST Arabidopsis thaliana protein match is: Zinc finger (C2H2 type) family protein / transcription factor jumonji (jmj) family protein (TAIR:AT5G04240.1); Has 105567 Blast hits to 35250 proteins in 1010 species: Archae - 0; Bacteria - 23; Metazoa - 99094; Fungi - 2247; Plants - 673; Viruses - 7; Other Eukaryotes - 3523 (source: NCBI BLink). & (reliability: 930.0) & (original description: no original description)


Gene families : OG_42_0001752 (Orthogroups_2024-Update) Phylogenetic Tree(s): OG0001752_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_00008383-RA
Cluster HCCA clusters: Cluster_105

Target Alias Description ECC score Gene Family Method Actions
At5g04240 No alias ELF6 [Source:UniProtKB/TrEMBL;Acc:A0A178UAR7] 0.04 Orthogroups_2024-Update
Bradi1g74997 No alias Zinc finger (C2H2 type) family protein / transcription... 0.03 Orthogroups_2024-Update
Bradi2g58130 No alias relative of early flowering 6 0.01 Orthogroups_2024-Update

Type GO Term Name Evidence Source

No GO annotation available for this sequence
Toggle parental
Type GO Term Name Evidence Source
CC GO:0000123 histone acetyltransferase complex IEP Predicted GO
CC GO:0000124 SAGA complex IEP Predicted GO
CC GO:0000159 protein phosphatase type 2A complex IEP Predicted GO
BP GO:0000271 polysaccharide biosynthetic process IEP Predicted GO
CC GO:0000428 DNA-directed RNA polymerase complex IEP Predicted GO
MF GO:0003676 nucleic acid binding IEP Predicted GO
MF GO:0003723 RNA binding IEP Predicted GO
MF GO:0004386 helicase activity IEP Predicted GO
MF GO:0004645 phosphorylase activity IEP Predicted GO
MF GO:0004652 polynucleotide adenylyltransferase activity IEP Predicted GO
MF GO:0004812 aminoacyl-tRNA ligase activity IEP Predicted GO
MF GO:0005086 ARF guanyl-nucleotide exchange factor activity IEP Predicted GO
MF GO:0005488 binding IEP Predicted GO
CC GO:0005643 nuclear pore 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:0006399 tRNA metabolic process IEP Predicted GO
BP GO:0006418 tRNA aminoacylation for protein translation IEP Predicted GO
BP GO:0006887 exocytosis IEP Predicted GO
BP GO:0006888 ER to Golgi vesicle-mediated transport IEP Predicted GO
BP GO:0008104 protein localization IEP Predicted GO
MF GO:0008184 glycogen phosphorylase activity IEP Predicted GO
MF GO:0008194 UDP-glycosyltransferase activity IEP Predicted GO
CC GO:0008287 protein serine/threonine phosphatase complex IEP Predicted GO
BP GO:0009250 glucan biosynthetic process IEP Predicted GO
BP GO:0009966 regulation of signal transduction IEP Predicted GO
BP GO:0010646 regulation of cell communication IEP Predicted GO
BP GO:0015031 protein transport IEP Predicted GO
BP GO:0015833 peptide transport IEP Predicted GO
BP GO:0016070 RNA metabolic process IEP Predicted GO
BP GO:0016192 vesicle-mediated transport 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:0016779 nucleotidyltransferase activity IEP Predicted GO
MF GO:0016875 ligase activity, forming carbon-oxygen bonds IEP Predicted GO
MF GO:0019208 phosphatase regulator activity IEP Predicted GO
MF GO:0019888 protein phosphatase regulator activity IEP Predicted GO
BP GO:0023051 regulation of signaling IEP Predicted GO
CC GO:0030120 vesicle coat IEP Predicted GO
CC GO:0030127 COPII vesicle coat IEP Predicted GO
BP GO:0030243 cellulose metabolic process IEP Predicted GO
BP GO:0030244 cellulose biosynthetic process IEP Predicted GO
CC GO:0030880 RNA polymerase complex IEP Predicted GO
CC GO:0031248 protein acetyltransferase complex IEP Predicted GO
BP GO:0032012 regulation of ARF protein signal transduction IEP Predicted GO
BP GO:0032940 secretion by cell IEP Predicted GO
CC GO:0032991 protein-containing complex IEP Predicted GO
BP GO:0033036 macromolecule localization IEP Predicted GO
BP GO:0033692 cellular polysaccharide biosynthetic process IEP Predicted GO
BP GO:0034660 ncRNA metabolic process IEP Predicted GO
MF GO:0035251 UDP-glucosyltransferase activity IEP Predicted GO
BP GO:0042886 amide transport IEP Predicted GO
BP GO:0043038 amino acid activation IEP Predicted GO
BP GO:0043039 tRNA aminoacylation IEP Predicted GO
BP GO:0043631 RNA polyadenylation IEP Predicted GO
CC GO:0044422 organelle part IEP Predicted GO
CC GO:0044424 intracellular part IEP Predicted GO
CC GO:0044428 nuclear part IEP Predicted GO
CC GO:0044433 cytoplasmic vesicle part IEP Predicted GO
CC GO:0044446 intracellular organelle part IEP Predicted GO
CC GO:0044451 nucleoplasm part IEP Predicted GO
BP GO:0045184 establishment of protein localization IEP Predicted GO
BP GO:0046578 regulation of Ras protein signal transduction IEP Predicted GO
BP GO:0046903 secretion IEP Predicted GO
BP GO:0046907 intracellular transport IEP Predicted GO
BP GO:0048583 regulation of response to stimulus IEP Predicted GO
BP GO:0051056 regulation of small GTPase mediated signal transduction 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:0051641 cellular localization IEP Predicted GO
BP GO:0051649 establishment of localization in cell 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
CC GO:0070461 SAGA-type complex IEP Predicted GO
MF GO:0070566 adenylyltransferase activity IEP Predicted GO
BP GO:0071702 organic substance transport IEP Predicted GO
BP GO:0071705 nitrogen compound transport IEP Predicted GO
MF GO:0097159 organic cyclic compound binding IEP Predicted GO
MF GO:0140101 catalytic activity, acting on a tRNA IEP Predicted GO
MF GO:1901363 heterocyclic compound binding IEP Predicted GO
CC GO:1902493 acetyltransferase complex IEP Predicted GO
CC GO:1902494 catalytic complex IEP Predicted GO
BP GO:1902531 regulation of intracellular signal transduction IEP Predicted GO
CC GO:1903293 phosphatase complex IEP Predicted GO
CC GO:1905368 peptidase complex IEP Predicted GO
CC GO:1990234 transferase complex IEP Predicted GO
InterPro domains Description Start Stop
IPR003349 JmjN 52 85
IPR003347 JmjC_dom 303 421
No external refs found!