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  3. RAFL04-18-H05

RAFL04-18-H05

RIKEN Arabidopsis Full-length cDNAs

Resource: (pda00625)

full reading [+] show sequence

Nucleotide sequence: RAFL04-18-H05 - full reading 
AAAAGGAGAA AGCTTGAAAC GCCGCTTCTT CTTCTTCTTC TTCCACTGTC 
GTTCTCTCTG TAAATCGCTT CTTCAATCAT CTCTGTGGAT TTGTCTCTAT 
TCATAACTTG GTGAAGAAGA TGTTGACGGA AGAGGAGCTC AAAAGATTGT 
ACAGAATCCA GAAGACGTTG ATGCAGATGT TAAGGGATCG TGGATATTTT 
ATCGCGGATT CTGAACTTAC GATGACTAAA CAACAGTTTA TTAGGAAACA 
TGGTGATAAC ATGAAAAGAG AGGATCTTGT TACTCTTAAG GCTAAGCGAA 
ATGATAATAG TGATCAGCTC TATATATTCT TCCCTGATGA GGCGAAAGTT 
GGTGTGAAGA CGATGAAAAT GTACACGAAC AGGATGAAAT CAGAGAATGT 
GTTCAGAGCT ATTTTGGTTG TGCAACAGAA CTTGACCCCG TTTGCTCGAA 
CTTGCATTAG TGAGATCTCT TCTAAGTTTC ATCTGGAAGT TTTCCAGGAG 
GCGGAAATGC TAGTGAACAT TAAAGAACAT GTTCTTGTTC CTGAGCATCA 
AGTTCTTACC ACTGAAGAGA AGAAAACTTT ACTGGAGAGA TACACAGTGA 
AGGAGACACA GCTTCCAAGG ATCCAAGTGA CTGATCCAAT CGCAAGATAC 
TTTGGACTAA AACGTGGGCA AGTCGTGAAG ATCATTCGTC CGAGTGAAAC 
GGCTGGTCGT TATGTTACCT ATCGTTATGT TGTATAAGCC AAAGCAAAAG 
GCTTTTGTGG ATTGTAATGC GAATTGAACG CTGAGAGTTG TGAAACATAA 
GAGTAATGCT TTTGTACTAA ACCAAACTGA TGACTGTGTT TTATTTTTGT 
TTGTCCGATA GGAGAAATTA AAGCTTGAAA CAACTTATTT GTATT

Gene models with high sequence identity

  1. AT3G22320.1 [+] show detail - Eukaryotic rpb5 RNA polymerase subunit family protein
    E-value: 0; Score: 100.00

 

InterPro Scan Digest

Program Description E-value
PatternScan RNA polymerase, subunit H/Rpb5, conserved site 0
HMMPanther DNA-DIRECTED RNA POLYMERASE II 7.5e-97
HMMPIR DNA-directed RNA polymerase, RPB5 subunit 8.5e-137
superfamily RNA polymerase, Rpb5, N-terminal 2e-40
superfamily RNA polymerase, subunit H/Rpb5 C-terminal 9.9e-32
Gene3D RNA polymerase, Rpb5, N-terminal 1.8e-41
Gene3D RNA polymerase, subunit H/Rpb5 C-terminal 2.7e-28
BlastProDom RNA polymerase, subunit H/Rpb5 C-terminal 1e-31
HMMPfam RNA polymerase, subunit H/Rpb5 C-terminal 4e-38
HMMPfam RNA polymerase, Rpb5, N-terminal 1.3e-27

See the detailed result >

AT3G22320.1

Model type
Protein coding
Short Description
Eukaryotic rpb5 RNA polymerase subunit family protein
Curator Summary
Non-catalytic subunit common to DNA-dependent RNA polymerases I, II, III and IV; homologous to budding yeast RPB5.
Computational Description
NRPB5; FUNCTIONS IN: DNA-directed RNA polymerase activity, DNA binding; INVOLVED IN: transcription; LOCATED IN: DNA-directed RNA polymerase II, core complex, DNA-directed RNA polymerase IV complex; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: RNA polymerase, Rpb5, N-terminal (InterPro:IPR005571), RNA polymerase, subunit H/Rpb5 C-terminal (InterPro:IPR000783), DNA-directed RNA polymerase, RPB5 subunit (InterPro:IPR014381), RNA polymerase, subunit H/Rpb5, conserved site (InterPro:IPR020608); BEST Arabidopsis thaliana protein match is: RNA polymerase II fifth largest subunit, C (TAIR:AT5G57980.1); Has 1046 Blast hits to 1046 proteins in 368 species: Archae - 260; Bacteria - 0; Metazoa - 162; Fungi - 216; Plants - 118; Viruses - 20; Other Eukaryotes - 270 (source: NCBI BLink).
Link
InterPro Scan - TAIR

Mutant lines with RAFL04-18-H05 introduced

  • F24429 - Specific phenotypes were NOT observed.

Mutant lines with disrupted or induced

5 mutant lines found