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RAFL08-18-C01

RIKEN Arabidopsis Full-length cDNAs

Resource: (pda04966)

full reading [+] show sequence

Nucleotide sequence: RAFL08-18-C01 - full reading 
AATAATCTTC TCCGAATTCG ACGGAGAGAT TTGGTGAAGA CGATGGAGAT 
GCAAGAGGCT AATCAAGGAG GAGGATCGGA GGTTTCTCCG AATCAGACGA 
TTTACATCAA CAATCTCAAC GAAAAAGTGA AGCTTGATGA GCTGAAGAAA 
TCGCTGAATG CAGTGTTCTC TCAGTTCGGG AAGATACTGG AGATATTGGC 
GTTTAAGACC TTTAAGCACA AAGGACAAGC TTGGGTAGTC TTCGACAACA 
CCGAGTCTGC TTCCACTGCT ATTGCTAAAA TGAATAATTT TCCTTTCTAC 
GACAAGGAGA TGAGAATACA ATATGCCAAA ACAAAATCAG ATGTTGTTGC 
CAAGGCCGAT GGTACATTTG TTCCTCGCGA GAAGAGAAAG AGACATGAGG 
AGAAAGGAGG CGGCAAGAAA AAGAAAGACC AGCACCATGA TTCTACACAG 
ATGGGCATGC CCATGAACTC AGCATATCCA GGTGTCTATG GAGCTGCACC 
TCCTCTATCG CAAGTACCAT ACCCTGGTGG TATGAAACCC AATATGCCCG 
AGGCACCAGC TCCGCCAAAT AATATTCTCT TTGTCCAAAA CCTTCCTCAC 
GAGACAACTC CAATGGTGCT TCAGATGTTG TTCTGCCAGT ACCAAGGATT 
TAAGGAAGTT AGAATGATTG AAGCCAAACC GGGAATCGCC TTTGTGGAGT 
TTGCTGATGA GATGCAGTCG ACGGTCGCAA TGCAGGGACT TCAAGGTTTC 
AAGATTCAGC AAAACCAGAT GCTCATCACG TATGCCAAGA AATAGACAAT 
TTCGTTTTAT TTGTGTTTCG ATGAGATATG TTTGTATCTG TCAATGTTAC 
TTCTTCCATG GTTTGCGCAA GAAGGAAACT TGTCTTTCTT GTGTGTTTGT 
TGTAGAATTG CTTAGAATAT TACACAATCA TCTAACTTAC AACT

Gene models with high sequence identity

  1. AT2G47580.1 [+] show detail - spliceosomal protein U1A
    E-value: 0; Score: 100.00

 

InterPro Scan Digest

Program Description E-value
HMMPfam RNA recognition motif, RNP-1 1.5e-10
HMMPfam RNA recognition motif, RNP-1 1.4e-12
superfamily RNA-binding domain, RBD 4.4e-22
superfamily RNA-binding domain, RBD 8.2e-18
HMMSmart RNA recognition motif, RNP-1 4.7e-13
HMMSmart RNA recognition motif, RNP-1 2e-11
HMMPanther SMALL NUCLEAR RIBONUCLEOPROTEIN U1A,U2B 1.3e-109
ProfileScan RNA recognition motif, RNP-1 14.88
ProfileScan RNA recognition motif, RNP-1 13.089
Gene3D Nucleotide-binding, alpha-beta plait 2.1e-29
Gene3D Nucleotide-binding, alpha-beta plait 6.3e-28

See the detailed result >

AT2G47580.1

Model type
Protein coding
Short Description
spliceosomal protein U1A
Curator Summary
encodes spliceosomal protein U1A
Computational Description
spliceosomal protein U1A (U1A); FUNCTIONS IN: RNA binding, nucleotide binding, nucleic acid binding; INVOLVED IN: response to salt stress, nuclear mRNA splicing, via spliceosome; LOCATED IN: nucleolus, nucleus, U1 snRNP; EXPRESSED IN: 23 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); BEST Arabidopsis thaliana protein match is: U2 small nuclear ribonucleoprotein B (TAIR:AT2G30260.1); Has 2473 Blast hits to 2417 proteins in 290 species: Archae - 0; Bacteria - 37; Metazoa - 1259; Fungi - 517; Plants - 407; Viruses - 1; Other Eukaryotes - 252 (source: NCBI BLink).
Link
InterPro Scan - TAIR

Mutant lines with RAFL08-18-C01 introduced

  • F04402 - Specific phenotypes were NOT observed.

Mutant lines with disrupted or induced

2 mutant lines found