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  3. RAFL09-11-M18

RAFL09-11-M18

RIKEN Arabidopsis Full-length cDNAs

Resource: (pda01767)

full reading [+] show sequence

Nucleotide sequence: RAFL09-11-M18 - full reading 
AACAGCAACG GGAATTTTCA TGGCGGCGAG GTCACCGGAC GTTATATAAT 
TTGTATCCCA AATCAAAATT CTGAGAAGGA AGAGAAAGCA ATGGAGGACG 
AATTGGAAGG TCTACGAGCT CATTTTCCTG TTTCGTTCGG TAAGACATCG 
AAGGTTTCGG CGTCAACTGA AGCCATTCAC AGCGCAACTC GCCGCACCGA 
TGTAGCCAAC GACGCCGGAG TTTCGTCGGA TATCACCACG AAGAAACCTG 
ATTCCGATAA ATCTGGATTC CCGTCTCTAT CTTCCTCATC TCAAACCTGG 
CTCCGAAGTG TTCGCGGTCC GAATCGTAAC CCTAACAGCT CCGGTGATGT 
AGCAATGGGT CCGCCACCGC CACCGTCATC TAAACGGACG CAAGAGGAAG 
AGGAGGAGGA TGAAGAAGTT ATGATGGGAC CACCGCCACC GCCTAAGGGA 
CTCGGGAACA TTAATGATTC TGATGATGAG GGGGATATGA TCGGTCCTCC 
GCCGCCGCCT CCTGCTGCTC GAGATTCAGA TGAAGATTCA GATGACGATG 
ATGATAATGA CAACGAGGAG AATCGTTACC AGATTCCATT GAGCAACGAG 
ATTCAGCTTA AGGGACATAC AAAGATTGTT TCATCTCTCG CTGTTGATAG 
TGCTGGAGCT AGAGTTCTTT CAGGAAGCTA TGACTACACT GTGAGAATGT 
ACGATTTCCA AGGGATGAAT TCGAGACTAC AGTCTTTTAG ACAGATAGAG 
CCATCTGAGG GACACCAAGT TCGCAGCGTG AGCTGGAGTC CCACTTCTGG 
TCAATTTCTA TGCGTTACTG GCTCTGCACA AGCTAAGATT TTTGATCGAG 
ATGGTCTTAC TCTTGGTGAG TTTATGAAAG GAGATATGTA TATTCGTGAT 
CTGAAGAACA CTAAGGGACA TATTTGTGGG TTGACCTGTG GAGAATGGCA 
TCCGAGGACT AAGGAAACCG TTCTGACTTC GTCGGAAGAC GGGTCTTTGC 
GTATATGGGA TGTTAATAAC TTCCTAAGCC AAACGCAGGT TATTAAGCCT 
AAGCTTGCTA GACCAGGGAG GGTTCCAGTT ACAACCTGTG CTTGGGACCG 
TGACGGAAAG CGTATCGCCG GTGGTGTAGG AGATGGATCT ATACAGATTT 
GGAGTCTCAA GCCGGGATGG GGAAGCCGAC CAGATATATA CGTTGGGAAG 
GCCCACACTG ATGATATAAC CTCTGTAAAG TTCTCTAGCG ATGGCAGAAT 
TCTGTTGTCA AGGAGTTTTG ATGGTTCTCT GAAGGTCTGG GACTTGCGGC 
AGATGAAAGA AGCTCTAAAA GTTTTCGAGG GTCTACCTAA TTATTATCCT 
CAAACCAACG TTGCCTTTAG TCCAGACGAA CAAATCATCC TGACTGGAAC 
ATCCGTCGAG AAAGACAGCA CAACAGGAGG CTTGCTATGT TTCTACGATC 
GCACCAAACT AGAGATAGTT CAAAAAGTCG GAATCTCTCC AACTTCCAGC 
GTGGTGCAAT GCGCTTGGCA CCCGAGGTTG AATCAGATAT TTGCAACATC 
CGGAGACAAA AGCCAAGGAG GGACTCACAT TCTTTACGAC CCAAGTCAGA 
GCGAGAGAGG CGCATGCGTC TGTGTTGCAC GTGCACCAAG GAAGAAATCT 
GTAGATGATT ACCAACCAGA ACCAGTAATA CACAATCCTC ATGCATTACC 
ATTGTTCAGA GACGCACCAA GCCGTAAACG AGAAAGAGAG AAAGCATTGA 
AGGATCCAAT GAAATCCCAC AAGCCTGAGA TACCCATGAC AGGTCCTGGT 
CATGGTGGAA GAGTTGGGAC TACTGGTAGT GGCTTATTAA CACAATATCT 
TCTCAAGCAA GGTGGGATGA TAAAAGAGAC GTGGATGGAA GAAGATCCAA 
GAGAAGCAAT ATTGAAATAC GCAGAGGTTG CTGTTAAAGA TCCAAAGTTT 
ATTGCACCTG CTTACTCTCA GACCCAGCCT AAGACCATCT TCGCTAAATC 
TGATGACGAA GAAGAAGAAG GTGACACTAA AAAATAATTA GAGTTTTTCA 
AATTCAACGA CCGTTTCCTT GTATTCTGTA TAATGTTATC ATATCGTGGC 
ACTTTAGAAT ATACTGAAAG AACACATTCA TCCCCGAATT GCATTTTTGC

Gene models with high sequence identity

  1. AT2G20330.1 [+] show detail - Transducin/WD40 repeat-like superfamily protein
    E-value: 0; Score: 100.00

 

InterPro Scan Digest

Program Description E-value
HMMPfam WD40 repeat, subgroup 2.2e-05
HMMPfam WD40 repeat, subgroup 0.46
HMMPfam WD40 repeat, subgroup 0.00032
HMMPfam WD40 repeat, subgroup 0.0011
HMMPfam WD40 repeat, subgroup 2.4e-08
HMMPfam WD40 repeat, subgroup 1.9
Coil coiled-coil 0
HMMPanther GASTRULATION DEFECTIVE PROTEIN 1-RELATED 2.9e-140
PatternScan WD40 repeat, conserved site 0
FPrintScan G-protein beta WD-40 repeat, region 2.1e-05
FPrintScan G-protein beta WD-40 repeat, region 2.1e-05
FPrintScan G-protein beta WD-40 repeat, region 2.1e-05
Gene3D WD40/YVTN repeat-like-containing domain 3.6e-52
ProfileScan WD40 repeat 2 11.444
ProfileScan WD40 repeat 2 10.943
ProfileScan WD40 repeat 2 8.904
ProfileScan WD40 repeat 2 15.421
ProfileScan WD40-repeat-containing domain 28.159
superfamily WD40 repeat-like-containing domain 9.8e-61
HMMSmart WD40 repeat 6.1e-05
HMMSmart WD40 repeat 2.8
HMMSmart WD40 repeat 0.0065
HMMSmart WD40 repeat 0.35
HMMSmart WD40 repeat 3e-07
HMMSmart WD40 repeat 76

See the detailed result >

AT2G20330.1

Model type
Protein coding
Short Description
Transducin/WD40 repeat-like superfamily protein
Computational Description
Transducin/WD40 repeat-like superfamily protein; FUNCTIONS IN: nucleotide binding; INVOLVED IN: biological_process unknown; LOCATED IN: CUL4 RING ubiquitin ligase complex; EXPRESSED IN: 25 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: WD40 repeat 2 (InterPro:IPR019782), WD40 repeat, conserved site (InterPro:IPR019775), WD40 repeat (InterPro:IPR001680), G-protein beta WD-40 repeat, region (InterPro:IPR020472), WD40 repeat-like-containing domain (InterPro:IPR011046), WD40-repeat-containing domain (InterPro:IPR017986), WD40/YVTN repeat-like-containing domain (InterPro:IPR015943), WD40 repeat, subgroup (InterPro:IPR019781); BEST Arabidopsis thaliana protein match is: TBP-associated factor 5 (TAIR:AT5G25150.1); Has 32306 Blast hits to 19564 proteins in 654 species: Archae - 48; Bacteria - 6195; Metazoa - 11628; Fungi - 6530; Plants - 3814; Viruses - 23; Other Eukaryotes - 4068 (source: NCBI BLink).
Link
InterPro Scan - TAIR

Mutant lines with RAFL09-11-M18 introduced

  • F29224 - Specific phenotypes were NOT observed.
  • F29448 - rosette leaf::increased width / rosette leaf::present in fewer numbers in organism / stem::increased thickness / stem::abnormal / whole plant::decreased height / stem::abnormal

Mutant lines with disrupted or induced

2 mutant lines found