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RAFL06-78-M16

RIKEN Arabidopsis Full-length cDNAs

Resource: (pda03748)

full reading [+] show sequence

Nucleotide sequence: RAFL06-78-M16 - full reading 
CTGTACCGCA AAATCCTCGT CGAAGCTCGC TGCTGCAACC ATGTCCGACG 
AGGAGCATCA CTTTGAGTCC AGTGACGCCG GAGCGTCCAA AACCTACCCT 
CAACAAGCTG GAACCATCCG TAAGAATGGT TACATCGTCA TCAAAAATCG 
TCCCTGCAAG GTTGTTGAGG TTTCAACCTC GAAGACTGGC AAGCATGGTC 
ATGCTAAATG TCATTTTGTA GCTATTGATA TCTTCACCAG CAAGAAACTC 
GAAGATATTG TTCCTTCTTC CCACAATTGT GATGTTCCTC ATGTCAACCG 
TACTGATTAT CAGCTGATTG ACATTTCTGA AGATGGATAT GTCAGTTTGT 
TGACTGATAA CGGTAGTACC AAGGATGACC TTAAGCTCCC TAATGATGAC 
ACTCTGCTCC AACAGATCAA GAGTGGGTTT GATGATGGAA AAGATCTAGT 
GGTGAGTGTG ATGTCAGCTA TGGGAGAGGA ACAGATCAAT GCTCTTAAGG 
ACATCGGTCC CAAGTGAGAC TAACAAAGCC TCCCCTTTGT TATGAGATTC 
TTCTTCTTCT TCTGTAGGCT TCCATTACTC ATCGGAGATT ATCTTGTTTT 
TGGGTGACTC CTATTTTGGA TATTTAAACT TTTGTTAATA ATGCCATCTT 
CTTCAACCTG AAAAAAAAAA AAAAAA

Gene models with high sequence identity

  1. AT1G13950.1 [+] show detail - eukaryotic elongation factor 5A-1
    E-value: 0; Score: 100.00

 

InterPro Scan Digest

Program Description E-value
Gene3D Translation protein SH3-like, subgroup 3.1e-27
Gene3D Nucleic acid-binding, OB-fold 9.5e-26
HMMPIR Translation elongation factor, IF5A 2e-98
HMMTigr Translation elongation factor, IF5A 3.1e-55
HMMPanther INITIATION FACTOR 5A 2.4e-111
HMMPanther Translation elongation factor, IF5A 2.4e-111
PatternScan Translation elongation factor, IF5A, hypusine site 0
superfamily Translation protein SH3-like 2.2e-28
superfamily Nucleic acid-binding, OB-fold-like 1.2e-27
HMMPfam Translation elongation factor, IF5A C-terminal 3.9e-30
HMMPfam KOW 4.8e-05

See the detailed result >

AT1G13950.1

Model type
Protein coding
Short Description
eukaryotic elongation factor 5A-1
Curator Summary
Encodes eukaryotic translation initiation factor 5A (EIF-5A).In mammalian cells it functions as a shuttle protein that translocates mRNA from the nucleus to cytoplasmic ribosomes. Overexpression results in an increase in both primary and secondary xylem formation. In RNAi suppressed lines, xylem formation is reduced.
Computational Description
eukaryotic elongation factor 5A-1 (ELF5A-1); FUNCTIONS IN: ribosome binding, RNA binding, translation elongation factor activity, translation initiation factor activity; INVOLVED IN: translational initiation, xylem development; LOCATED IN: cellular_component unknown; EXPRESSED IN: 18 plant structures; EXPRESSED DURING: 11 growth stages; CONTAINS InterPro DOMAIN/s: Nucleic acid-binding, OB-fold (InterPro:IPR012340), Translation elongation factor, IF5A, hypusine site (InterPro:IPR019769), Translation protein SH3-like, subgroup (InterPro:IPR014722), Translation elongation factor, IF5A (InterPro:IPR001884), Translation elongation factor, IF5A C-terminal (InterPro:IPR020189), Translation protein SH3-like (InterPro:IPR008991), Nucleic acid-binding, OB-fold-like (InterPro:IPR016027), KOW (InterPro:IPR005824); BEST Arabidopsis thaliana protein match is: eukaryotic elongation factor 5A-3 (TAIR:AT1G69410.1); Has 1356 Blast hits to 1355 proteins in 415 species: Archae - 264; Bacteria - 0; Metazoa - 366; Fungi - 246; Plants - 261; Viruses - 0; Other Eukaryotes - 219 (source: NCBI BLink).
Link
InterPro Scan - TAIR

Mutant lines with RAFL06-78-M16 introduced

  • F06609 - Specific phenotypes were NOT observed.
  • F14809 - Specific phenotypes were NOT observed.
  • F21313 - seed::increased size / seed::increased length
  • F23128 - Specific phenotypes were NOT observed.

Mutant lines with disrupted or induced

7 mutant lines found