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  3. RAFL08-12-N11

RAFL08-12-N11

RIKEN Arabidopsis Full-length cDNAs

Resource: (pda17586)

full reading [+] show sequence

Nucleotide sequence: RAFL08-12-N11 - full reading 
TGAAAATAGT TTGGTTTCTG CATCCACCCC TTTCTTCGAA TCTCGACGGC 
TGAAACAGAT TCTAAATTTA TCTCCGGTGA GAAAGAGATA GAGAGCGTTG 
ATTCCGGCGA AAAGATGTCT GAATTCGAAG ATCACGAGGG AAACGGTACG 
GTTGCTGACG CGATTTACGA CGAAGAGAAT GGTGGCCGCG ACGGCGAAAT 
CGAGGATCAA TTGGACTCGA AACCCAAGAG AGAATCGCGT GACCATGAAA 
GAGAGACATC AAGAAGTAAA GATAGAGAAA GAGAGAAGGG TCGTGATAAG 
GACAGAGAAA GAGACTCTGA AGTCTCTCGC CGAAGCAGGG ATAGAGATGG 
AGAGAAAAGC AAGGAGAGGA GTAGAGACAA AGACAGAGAT CATCGTGAGC 
GTCATCACAG AAGTAGTCGT CACAGGGATC ATAGCAGGGA GCGTGGTGAA 
AGAAGAGAAC GTGGTGGTAG GGATGATGAT GATTACCGTC GAAGCCGTGA 
TCGTGACCAT GATAGGCGGA GAGATGATAG AGGAGGAAGA CGCAGTCGTC 
GATCTCGATC TCGTTCAAAG GATAGATCTG AGCGCAGAAC AAGGTCACGA 
TCTCCATCGA AAAGTAAGCA GCGAGTCAGT GGATTCGATA TGGCACCTCC 
AGCCTCTGCA ATGTTAGCTG CTGGTGCTGC TGTTACAGGC CAAGTTCCTC 
CCGCTCCACC AACTCTTCCT GGGGCTGGAA TGTTTCCCAA CATGTTTCCA 
TTGCCGACTG GACAGTCATT TGGGGGACTC TCTATGATGC CAATTCAGGC 
TATGACACAG CAGGCAACTA GACATGCTCG CAGAGTCTAT GTCGGTGGGC 
TTTCCCCTAC GGCAAATGAA CAGTCTGTGG CTACATTTTT TAGTCAAGTT 
ATGGCTGCTG TTGGTGGAAA CACTGCTGGT CCAGGTGATG CAGTTGTTAA 
TGTCTACATA AACCACGAGA AGAAGTTTGC TTTTGTGGAG ATGCGATCTG 
TTGAAGAGGC AAGTAACGCT ATGTCTTTGG ATGGGATTAT ATTTGAGGGA 
GCTCCGGTGA AGGTGCTTCT GGTGGGCTTG AGGGACCAGA TCGTATTTTT 
GTTGGTGGAC TTCCATATTA CTTCACGGAA TCACAAGTGA GGGAGTTGTT 
GGAGTCCTTT GGAGGCCTCA AGGGCTTTGA TCTTGTAAAA GATCGAGAAA 
CAGGGAACTC TAAAGGATAT GCCTTTTGTG TGTACCAAGA TCTTTCTGTT 
ACAGATATCG CGTGCGCTGC CCTAAATGGT ATCAAGATGG GAGATAAGAC 
TCTTACAGTG AGACGTGCCA ACCAGGGAAC AATGCTACAA AAGCCTGAAC 
AAGAGAACGT ATTATTGCAT GCACAGCAGC AAATAGCTTT TCAGAGGGTT 
ATGTTACAGC CTGGTGCAGT GGCAACCACT GTGGTGTGTC TGACTCAAGT 
TGTTACTGAG GATGAGCTTA GAGATGATGA GGAGTATGGA GATATAATGG 
AAGACATGAG ACAGGAAGGC GGAAAGTTTG CCTTTTGCTA TAAAGAATCA 
GCCCTAACAT ACACAGACAG GAGACTGCAT AAACCTCCTA ATCTATTTAT 
CACCAATGGC CACTATTTCT TAAAAGAAAA AACTGACTTG TTTTTGTCTG 
TGTTTTCTTG TCTTGTATTC GAAATGTTTT GTTCTTTAAC TCTTAAAATG 
CAGGTGCTTT GACCAATGTT GTGATTCCGC GTCCAAGCCC CAATGGTGAG 
CCAGTGGCAG GCCTTGGCAA GGTGTTTTTG AAGTATGCCG ATACAGATGG 
CTCGACTAGG GCAAGATTCG GGATGAATGG TAGGAAATTT GGAGGAAATG 
AAGTCGTTGC AGTGTATTAC CCTGAAGACA AGTTTGAACA GGGTGATTAT 
GGAGCCTGAT CACTTCTTTG TTTGCTTTCT ATTACTTAAA AGTTAAGTAC 
TTTGCTTCAG TTTCAAGACC CTTTTGCGTG ATTGTAAGAG TATGAGATTA 
TCGACACGTT GCTTATTATA ACGTTTTTAT CACAAAAAAA A

Gene models with high sequence identity

  1. AT4G36690.2 [+] show detail - U2 snRNP auxilliary factor, large subunit, splicing factor
    E-value: 0; Score: 100.00

 

InterPro Scan Digest

Program Description E-value
HMMPfam RNA recognition motif, RNP-1 1.3e-17
Gene3D Nucleotide-binding, alpha-beta plait 5.6e-19
Gene3D Nucleotide-binding, alpha-beta plait 2.4e-14
Gene3D Nucleotide-binding, alpha-beta plait 2.6e-20
Gene3D Nucleotide-binding, alpha-beta plait 5.8e-05
ProfileScan RNA recognition motif, RNP-1 11.656
ProfileScan RNA recognition motif, RNP-1 15.443
HMMSmart RNA recognition motif, RNP-1 9.5e-12
HMMSmart RNA recognition motif, RNP-1 1.4e-20
HMMPanther SPLICING FACTOR U2AF LARGE SUBUNIT 2.3e-20
HMMPanther RNA-BINDING PROTEIN 2.3e-20
HMMPanther SPLICING FACTOR U2AF LARGE SUBUNIT 2.6e-71
HMMPanther RNA-BINDING PROTEIN 2.6e-71
superfamily RNA-binding domain, RBD 8.5e-14
superfamily RNA-binding domain, RBD 6.6e-06
superfamily RNA-binding domain, RBD 1e-20

See the detailed result >

AT4G36690.2

Model type
Protein coding
Short Description
U2 snRNP auxilliary factor, large subunit, splicing factor
Computational Description
ATU2AF65A; FUNCTIONS IN: RNA binding, nucleotide binding, nucleic acid binding; INVOLVED IN: nuclear mRNA splicing, via spliceosome, defense response to bacterium; LOCATED IN: nucleus; EXPRESSED IN: 25 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: RNA recognition motif, RNP-1 (InterPro:IPR000504), Nucleotide-binding, alpha-beta plait (InterPro:IPR012677), U2 snRNP auxilliary factor, large subunit, splicing factor (InterPro:IPR006529); BEST Arabidopsis thaliana protein match is: U2 snRNP auxilliary factor, large subunit, splicing factor (TAIR:AT1G60900.1); Has 65300 Blast hits to 34004 proteins in 1640 species: Archae - 71; Bacteria - 4901; Metazoa - 34634; Fungi - 7219; Plants - 6371; Viruses - 283; Other Eukaryotes - 11821 (source: NCBI BLink).
Link
InterPro Scan - TAIR

Mutant lines with RAFL08-12-N11 introduced

  • F06046 - seed::increased size / seed::increased length

Mutant lines with disrupted or induced

1 mutant line founds