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  3. RAFL05-02-H10

RAFL05-02-H10

RIKEN Arabidopsis Full-length cDNAs

Resource: (pda02419)

full reading [+] show sequence

Nucleotide sequence: RAFL05-02-H10 - full reading 
ATCTTCTTCT TCCCCCTTCC TCTCTCAGCT TCTCTCCCAC CACTAAGGAG 
GAACGTTCCA AAGATCCCTT TCTCAGAGAA TTCCCAGAAA AATCTTCAAC 
AATTGAAACC CTAATGGAGA ATCATTCGGA TCCTTGAATC CTTTGGTTTG 
TCTCTCACCT CCATTTCTGA AATTTCATTG CTTTGTGATT CTTCTGCAGA 
TTCGTTTTGA AGAGAAGAAA GAAATGTCAT CGAACACTTC ACGAAGCTGT 
TCTACTAGAT CTAGACAAAA CTCTCGAGTT TCTTCACAAG TTCTCGTCGA 
CGCAAAGCTA CACGGAAACT TCGAAGAATC TGAGCGTTTA TTTGACTATT 
CAGCTTCAAT AAACTTGAAC ATGCCAAGTT CTTCCTGTGA GATTCCTTCT 
TCAGCTGTCT CAACGTACTT ACAGAAGATT CAGAGAGGGA TGTTGATTCA 
ACCCTTTGGT TGTTTAATCG TTGTTGATGA GAAAAACCTT AAAGTCATTG 
CCTTTAGTGA AAACACTCAA GAGATGTTGG GTTTGATTCC ACATACAGTA 
CCAAGTATGG AGCAGCGTGA AGCTTTGACT ATAGGAACTG ATGTGAAATC 
ATTGTTTCTG TCTCCAGGTT GTTCTGCTTT GGAGAAAGCT GTTGACTTTG 
GTGAGATTAG TATTTTGAAT CCTATCACGC TTCATTGTAG GTCTTCAAGT 
AAGCCTTTTT ATGCGATTCT GCATCGGATT GAGGAAGGTC TTGTTATAGA 
TTTGGAGCCT GTGAGTCCTG ATGAGGTGCC TGTGACTGCT GCCGGGGCTT 
TAAGATCGTA TAAGCTTGCG GCGAAATCGA TTTCGAGGTT GCAGGCATTG 
CCTAGTGGGA ATATGTTGTT GTTGTGTGAT GCTTTGGTTA AGGAAGTTAG 
TGAATTAACT GGTTATGATA GGGTGATGGT GTATAAGTTC CATGAGGATG 
GGCATGGGGA AGTGATTGCT GAATGCTGCC GGGAAGATAT GGAACCTTAT 
CTTGGGTTGC ATTACTCCGC TACTGATATA CCGCAAGCTT CGAGATTTCT 
GTTTATGAGA AACAAGGTTA GGATGATTTG TGATTGTTCA GCGGTTCCGG 
TTAAAGTCGT TCAAGATAAG AGTCTCTCAC AGCCAATAAG TCTTTCTGGA 
TCTACTTTGA GAGCTCCTCA TGGTTGTCAC GCACAGTATA TGAGTAATAT 
GGGATCAGTG GCGTCTCTTG TCATGTCTGT AACTATCAAT GGTAGTGATA 
GTGATGAGAT GAACAGAGAT TTACAGACTG GCAGACACTT ATGGGGCTTG 
GTGGTTTGTC ATCACGCAAG TCCTAGATTT GTTCCGTTTC CATTACGATA 
TGCTTGTGAA TTCTTGACTC AAGTATTTGG CGTGCAGATC AACAAAGAAG 
CGGAATCAGC TGTTCTGTTG AAAGAGAAGC GTATTTTGCA AACTCAGAGT 
GTGCTATGTG ACATGCTTTT CCGCAATGCA CCAATAGGTA TAGTCACTCA 
ATCACCAAAT ATAATGGATC TTGTTAAATG TGATGGAGCA GCATTATATT 
ACAGAGACAA CCTCTGGTCT CTAGGAGTTA CTCCCACAGA GACACAAATT 
AGAGATCTAA TTGACTGGGT TCTCAAAAGT CATGGAGGAA ACACTGGCTT 
TACCACTGAA AGTCTAATGG AGTCTGGCTA TCCGGATGCT TCTGTTCTTG 
GGGAGTCAAT ATGTGGAATG GCTGCCGTAT ATATTTCCGA AAAAGATTTC 
CTTTTCTGGT TCCGGTCTAG CACTGCAAAA CAGATCAAGT GGGGTGGTGC 
AAGACACGAT CCTAATGACA GAGATGGTAA GAGAATGCAT CCTAGATCCT 
CATTCAAGGC TTTTATGGAA ATAGTCAGGT GGAAAAGTGT GCCCTGGGAT 
GACATGGAAA TGGATGCAAT TAATTCTCTG CAGCTAATAA TAAAAGGCTC 
ATTGCAAGAG GAGCATTCAA AGACTGTTGT GGATGTCCCA CTTGTGGATA 
ATAGGGTTCA GAAGGTAGAT GAATTGTGTG TTATCGTGAA TGAAATGGTG 
CGGTTGATTG ATACAGCAGC TGTTCCCATC TTTGCGGTTG ATGCCTCTGG 
TGTTATAAAT GGTTGGAATT CTAAAGCGGC TGAGGTAACA GGATTGGCAG 
TTGAACAAGC AATAGGCAAA CCTGTATCAG ATCTCGTTGA GGACGATTCT 
GTAGAAACCG TGAAGAACAT GTTAGCCTTG GCTCTCGAAG GTAGTGAAGA 
ACGTGGTGCT GAGATCAGGA TCAGAGCATT TGGTCCTAAA AGGAAAAGCA 
GTCCGGTTGA GTTAGTTGTC AACACTTGTT GTAGCAGAGA TATGACGAAT 
AATGTTCTTG GTGTATGCTT CATTGGACAA GATGTTACAG GCCAGAAAAC 
GCTTACTGAA AACTATAGCC GCGTGAAAGG AGATTATGCC CGAATCATGT 
GGAGCCCTTC CACACTCATT CCACCAATTT TTATAACCAA TGAAAATGGG 
GTATGCTCAG AGTGGAACAA CGCAATGCAG AAGCTCTCTG GGATAAAGAG 
AGAAGAAGTT GTCAATAAAA TTCTTCTCGG GGAGGTTTTT ACCACAGATG 
ATTATGGTTG CTGCCTTAAA GACCATGACA CTTTAACGAA GCTGAGAATA 
GGTTTCAATG CTGTGATTTC TGGCCAAAAG AACATAGAGA AGCTTTTATT 
TGGCTTTTAC CATCGTGATG GTAGCTTCAT CGAGGCATTG CTTTCTGCAA 
ACAAAAGGAC TGATATTGAG GGAAAGGTTA CCGGGGTTTT ATGCTTTTTG 
CAAGTACCTA GTCCAGAACT CCAATATGCT CTACAGGTTC AGCAAATATC 
AGAGCATGCA ATTGCCTGTG CCCTCAACAA ATTGGCATAT CTCCGCCATG 
AAGTGAAGGA CCCCGAAAAG GCAATATCCT TCCTTCAAGA TTTGCTCCAT 
TCATCTGGAT TAAGTGAAGA CCAAAAGCGG CTCCTGAGGA CAAGCGTTTT 
ATGCAGGGAG CAGTTAGCCA AAGTCATAAG CGACTCAGAC ATAGAGGGAA 
TCGAAGAAGG CTATGTGGAA CTGGATTGCA GCGAATTCGG CCTGCAGGAA 
TCCCTGGAAG CAGTTGTAAA ACAAGTGATG GAGCTGAGCA TAGAACGTAA 
AGTACAAATC AGCTGCGATT ATCCTCAAGA AGTTTCATCA ATGAGATTGT 
ATGGAGACAA CTTAAGGCTT CAGCAAATCC TTTCAGAGAC ACTATTAAGC 
AGCATACGCT TCACGCCTGC ATTGAGAGGA TTGTGTGTCT CATTCAAGGT 
AATTGCACGG ATAGAAGCTA TAGG

Gene models with high sequence identity

  1. AT5G35840.1 [+] show detail - phytochrome C
    E-value: 0; Score: 100.00

 

InterPro Scan Digest

Program Description E-value
PatternScan Phytochrome chromophore binding site 0
HMMTigr PAS 0.000000000018
superfamily PYP-like sensor domain (PAS domain) 2.9e-17
superfamily PYP-like sensor domain (PAS domain) 0.000000000013
FPrintScan Phytochrome 2.1e-99
FPrintScan Phytochrome 2.1e-99
FPrintScan Phytochrome 2.1e-99
FPrintScan Phytochrome 2.1e-99
FPrintScan Phytochrome 2.1e-99
FPrintScan Phytochrome 2.1e-99
FPrintScan Phytochrome 2.1e-99
FPrintScan Phytochrome 2.1e-99
FPrintScan Phytochrome 2.1e-99
FPrintScan Phytochrome 2.1e-99
HMMSmart GAF 0.0000000015
HMMSmart PAS 0.0000000064
HMMSmart PAS 0.14
HMMSmart PAC motif 0.0022
ProfileScan Phytochrome chromophore attachment domain 66.417
ProfileScan Signal transduction histidine kinase, core 20.251
ProfileScan PAS 18.956
ProfileScan PAS 13.677
Gene3D no description 0.000000000049
HMMPanther PHYTOCHROME C 0
HMMPanther SENSOR HISTIDINE KINASE-RELATED 0
HMMPfam Phytochrome, central region 6.1e-66
HMMPfam PAS fold 2.3e-25
HMMPfam PAS fold 7e-26
HMMPfam PAS fold-2 2.4e-40
HMMPfam GAF 8.5e-39

See the detailed result >

AT5G35840.1

Model type
Protein coding
Short Description
phytochrome C
Curator Summary
Encodes the apoprotein of phytochrome;one of a family of photoreceptors that modulate plant growth and development.
Computational Description
phytochrome C (PHYC); FUNCTIONS IN: protein histidine kinase activity; INVOLVED IN: in 8 processes; LOCATED IN: membrane; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: PAC motif (InterPro:IPR001610), Phytochrome, central region (InterPro:IPR013515), Signal transduction histidine kinase, core (InterPro:IPR005467), PAS fold (InterPro:IPR013767), PAS (InterPro:IPR000014), Phytochrome chromophore attachment domain (InterPro:IPR016132), ATPase-like, ATP-binding domain (InterPro:IPR003594), PAS fold-2 (InterPro:IPR013654), Phytochrome A/B/C/D/E (InterPro:IPR012129), Phytochrome (InterPro:IPR001294), Signal transduction histidine kinase, subgroup 1, dimerisation/phosphoacceptor domain (InterPro:IPR003661), Phytochrome chromophore binding site (InterPro:IPR013516), GAF (InterPro:IPR003018); BEST Arabidopsis thaliana protein match is: phytochrome A (TAIR:AT1G09570.1); Has 1807 Blast hits to 1807 proteins in 277 species: Archae - 0; Bacteria - 0; Metazoa - 736; Fungi - 347; Plants - 385; Viruses - 0; Other Eukaryotes - 339 (source: NCBI BLink).
Link
InterPro Scan - TAIR

Mutant lines with RAFL05-02-H10 introduced

  • F09944 - rosette leaf::increased size / rosette leaf::epinastic / rosette leaf::present in greater numbers in organism / cauline leaf::decreased size / stem::dark green / whole plant::increased height / sporophyte vegetative stage::decreased speed / root::present in greater numbers in organism

Mutant lines with disrupted or induced

1 mutant line founds