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  3. RAFL04-17-P20

RAFL04-17-P20

RIKEN Arabidopsis Full-length cDNAs

Resource: (pda00613)

full reading [+] show sequence

Nucleotide sequence: RAFL04-17-P20 - full reading 
CCTGAAAACA TGAACACTCT TCCCGTCGTC TCTCTCACAG CTTCTTCTTC 
CTTCAAATTC TTCCATTTTC CTTCTCTGCA CCGTTCTCTC TCTCATTCCC 
CAAACTTCTC CTTCACCAAA TCCCTTATCC TCAATCCAAA CCACCTCTCC 
TTCAAATCCA CCTTAAATTC TCTTTCACCG TCTCAGTCTC AGCTCTACGA 
GGAAGAAGAC GACGAAGAAG AAGAAGAAGA AGACGAAGAT GATGATGACG 
AAGCTGCTGA CGAATACGAC AATATCTCCG ATGAAATTCG GAATAGCGAT 
GACGACGACG ACGATGAAGA AACCGAATTC TCCGTGGATT TGCCGACGGA 
ATCAGCTCGG GAACGAGTGG AGTTCCGGTG GCAGAGAGTG GAGAAGCTTC 
GTAGTCTTGT TAGAGATTTT GGTGTTGAGA TGATTGATAT CGATGAACTC 
ATTTCAATCT ACGATTTTCG AATCGACAAG TTTCAGAGAT TGGCTATTGA 
AGCTTTTCTT AGAGGTTCTT CTGTTGTGGT TTCTGCTCCG ACTAGTAGTG 
GCAAGACTTT GATTGCTGAA GCTGCTGCTG TTTCCACGGT GGCTAAAGGT 
CGCCGGTTGT TCTACACTAC ACCTCTTAAA GCACTCTCTA ATCAGAAGTT 
TCGTGAGTTT AGGGAGACAT TTGGGGATGA TAATGTTGGT TTACTCACAG 
GTGACTCTGA TATTAACAAA GATGCTCAGA TTGTGATTAT GACTACAGAG 
ATTCTCCGTA ACATGTTGTA TCAAAGTGTT GGAATGGCTT CTTCAGGAAC 
TGGACTTTTT CATGTTGATG CCATTGTTTT GGATGAGGTT CACTATTTAA 
GTGATATATC TAGGGGAACT GTGTGGGAAG AGATAGTCAT TTATTGTCCA 
AAGGAGGTTC AACTTATATG CCTATCAGCT ACAGTTGCAA ATCCGGATGA 
ATTAGCTGGT TGGATTGGTG AGATACATGG TAAAACTGAG TTGGTAACAT 
CGACAAGACG CCCAGTTCCA TTAACTTGGT ACTTTTCAAC AAAACATTCT 
TTATTACCTC TGCTTGATGA GAAAGGGATA AACGTGAATA GGAAGCTTTC 
TCTCAATTAT TTGCAACTGT CTGCCTCAGA AGCTAGATTC CGTGATGATG 
ATGACGGGTA TAGGAAAAGG AGGTCAAAGA AACGAGGAGG TGATACCAGC 
TACAACAACC TTGTGAACGT AACTGATTAT CCTCTTTCAA AGAATGAGAT 
AAACAAGATT CGTCGATCAC AGGTACCTCA AATTAGCGAC ACATTATGGC 
ATCTCCAGGG GAAAAATATG TTACCAGCGA TATGGTTCAT TTTTAACCGT 
AGAGGATGTG ATGCAGCTGT ACAGTATGTT GAAAATTTTC AGCTTTTAGA 
TGATTGCGAG AAGAGTGAGG TTGAGTTGGC CTTGAAGAAG TTTCGCGTTC 
TTTATCCAGA TGCAGTGAGA GAGAGTGCAG AGAAAGGACT GCTTAGGGGA 
ATTGCTGCTC ATCATGCAGG TTGTCTACCT CTTTGGAAAT CTTTCATTGA 
GGAACTTTTT CAGCGAGGAC TTGTTAAGGT TGTCTTTGCT ACTGAGACAC 
TTGCTGCTGG AATAAACATG CCGGCTAGAA CGGCTGTTAT CTCGTCTCTT 
TCAAAAAAGG CTGGTAATGA ACGAATAGAG TTGGGTCCTA ACGAATTGTA 
CCAGATGGCT GGGCGTGCTG GACGCAGAGG CATCGATGAA AAGGGCTACA 
CTGTGCTGGT TCAGACTGCT TTTGAAGGCG CTGAAGAGTG CTGCAAACTT 
GTCTTTGCTG GAGTTAAACC TCTCGTGTCA CAATTTACTG CTTCATATGG 
CATGGTACTG AATCTGGTAG CTGGTTCAAA AGTTACTCGT AAATCAAGTG 
GAACTGAGGC CGGGAAAGTC TTACAAGCAG GGAGAAGTCT GGAAGAAGCC 
AAGAAATTAG TTGAGAAGAG TTTTGGAAAC TATGTGAGCA GCAATGTGAC 
GGTTGCTGCG AAGCAGGAAC TTGCTGAAAT CGACAATAAG ATCGAGATTC 
TGTCATCTGA AATAAGTGAT GAAGCAATAG ATAAGAAGAG TAGGAAACTT 
CTTTCAGCGA GGGATTACAA GGAGATCACT GTACTTAAAG AAGAGCTACG 
GGAAGAGAAA CGCAAGCGTG CTGAACAACG AAGAAGAATG GAACTCGAAA 
GGTTCTTAGC TCTAAAACCG CTCTTAAAAG GGATGGAAGA GGGGAACTTA 
CCATTTATTT GTTTGGAGTT CAAGGATTCT GAAGGGAGGG AGCAGTCAGT 
CCCTGCTGTT TACTTGGGGC ATATTGATTC ATTTCAGGGT TCCAAACTTC 
AGAAGATGAT GTCTTTGGAT GAGTCTTTTG CGTTAAACTT AATCGAGGAT 
GAGCTGGCGG CTGATGAACC TGGAAAGCCT AATGTTAAAC CGTCTTACTA 
TGTGGCCCTT GGCTCTGATA ACTCATGGTA TCTCTTTACT GAGAAGTGGG 
TTAGGACTGT CTACAGAACT GGTTTCCCTA ACATTGCTCT AGCGCTTGGA 
GATGCTTTGC CTCGAGAAAT CATGAAGAAT CTCCTGGATA AAGCAGATAT 
GCAGTGGGAT AAACTAGCTG AATCTGAACT TGGAAGTTTG TGGAGATTGG 
AAGGATCTCT AGAGACATGG TCCTGGAGTT TAAACGTACC TGTCCTAAGC 
AGCCTTTCTG ACGAAGATGA GGTGTTACAT ATGTCCGAAG AGTATGATAA 
CGCGGCG

Gene models with high sequence identity

  1. AT1G70070.1 [+] show detail - DEAD/DEAH box helicase, putative
    E-value: 0; Score: 99.93

 

InterPro Scan Digest

Program Description E-value
HMMSmart DEAD-like helicase, N-terminal 3.5e-32
HMMSmart DNA/RNA helicase, C-terminal 1.2e-12
Gene3D no description 8.4e-18
HMMPfam DNA/RNA helicase, DEAD/DEAH box type, N-terminal 1.5e-22
HMMPfam DNA/RNA helicase, C-terminal 2.4e-05
superfamily P-loop containing nucleoside triphosphate hyd 4.6e-45
superfamily P-loop containing nucleoside triphosphate hyd 6e-28
Coil coiled-coil 0
Coil coiled-coil 0
ProfileScan Helicase, superfamily 1/2, ATP-binding domain 24.888
ProfileScan DNA/RNA helicase, C-terminal 8.891
HMMPanther HELICASE SKI2W 1.2e-211
HMMPanther HELICASE SKI2W 1.2e-211

See the detailed result >

AT1G70070.1

Model type
Protein coding
Short Description
DEAD/DEAH box helicase, putative
Curator Summary
Allelic to ISE2(increased size exclusion limit of plasmodesmata 2). Mutants maintain dilated plasmodesmata at the embryonic torpedo stage.
Computational Description
EMBRYO DEFECTIVE 25 (EMB25); FUNCTIONS IN: RNA helicase activity, ATP-dependent helicase activity; INVOLVED IN: posttranscriptional gene silencing, plasmodesmata-mediated intercellular transport, embryo development ending in seed dormancy; LOCATED IN: stress granule, chloroplast stroma, chloroplast; EXPRESSED IN: 21 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: DNA/RNA helicase, DEAD/DEAH box type, N-terminal (InterPro:IPR011545), DSH, C-terminal (InterPro:IPR012961), DEAD-like helicase, N-terminal (InterPro:IPR014001), DNA/RNA helicase, C-terminal (InterPro:IPR001650), Helicase, superfamily 1/2, ATP-binding domain (InterPro:IPR014021); BEST Arabidopsis thaliana protein match is: RNA helicase, ATP-dependent, SK12/DOB1 protein (TAIR:AT3G46960.1); Has 21396 Blast hits to 12786 proteins in 1473 species: Archae - 1027; Bacteria - 4600; Metazoa - 5457; Fungi - 2724; Plants - 1158; Viruses - 307; Other Eukaryotes - 6123 (source: NCBI BLink).
Link
InterPro Scan - TAIR

Mutant lines with RAFL04-17-P20 introduced

  • F03024 - Specific phenotypes were NOT observed.
  • F28038 - Specific phenotypes were NOT observed.

Mutant lines with disrupted or induced

3 mutant lines found