F16001

RIKEN Arabidopsis full-length cDNA overexpressed Arabidopsis lines

Phenotypes

Morphological phenotypes

Generation	Anatomical entity /structure development stage	Phenotypes
T1
	whole plant (PO:0000003)	decreased height (PATO:0000569) (Adult plant::Plant height::short)
	rosette leaf (PO:0000014)	abnormal (PATO:0000460) (Rosette leaf::Others) increased width (PATO:0000600) (Rosette leaf::Shape::wide)
	stem (PO:0009047)	decreased thickness (PATO:0000592) (Stem::Shape::thin)
T2
	whole plant (PO:0000003)	decreased height (PATO:0000569) (Adult plant::Plant height::short)
	cauline leaf (PO:0000013)	decreased size (PATO:0000587) (Cauline leaf::Shape::small) present in fewer numbers in organism (PATO:0001997) (Cauline leaf::Number::few)
	rosette leaf (PO:0000014)	decreased size (PATO:0000587) (Rosette leaf::Shape::small) increased width (PATO:0000600) (Rosette leaf::Shape::wide)
	whole plant flowering stage (PO:0007016)	premature (PATO:0000694) (Adult plant::Flowering::early)
	sporophyte vegetative stage (PO:0007134)	increased speed (PATO:0000303) (Adult plant::Growth::fast)
	stem (PO:0009047)	decreased thickness (PATO:0000592) (Stem::Shape::thin)

Invisible phenotypes

Specific phenotypes were NOT observed.

Original: F16001

Determination of introduced cDNA(s)

RAFL06-73-D20 - RIKEN Arabidopsis Full-length cDNAs - Original: RAFL06-73-D20 - Resource: pda03431

full reading [+] show sequence

GGATCAAGTT CTCAATTTCT CTCCGTTATC TCAATCGCGA CCAAAGATCT 
CTTCGATCAA AACCCTAGCT CTAAATTCCC CCAAATCTGA TTCTTCTCCT 
CCGATAAGCT TTTGTTGAAT TCACAAAGCA GCGTAAATGG TGTTGGCGGA 
GCTAGGCGGG CGGATTACCC GCGCGATACA GCAGATGAGC AATGTGACAA 
TTATCGATGA GAAGGCTTTG AATGAATGCT TGAACGAGAT CACTCGTGCT 
TTGCTTCAAT CCGATGTTTC ATTTCCCCTT GTGAAAGAGA TGCAGAGTAA 
TATTAAGAAA ATCGTCAATC TTGAAGATCT AGCAGCTGGT CACAACAAGC 
GCCGGATCAT TGAACAGGCT ATCTTTAGTG AACTCTGTAA GATGTTGGAT 
CCAGGGAAGC CTGCGTTTGC TCCTAAAAAA GCTAAAGCTA GTGTAGTTAT 
GTTTGTTGGA TTACAAGGTG CTGGAAAGAC GACAACTTGT ACTAAGTATG 
CTTATTATCA TCAGAAGAAA GGATACAAAC CAGCTTTGGT TTGTGCGGAT 
ACTTTCAGGG CTGGTGCGTT CGATCAGCTG AAACAGAATG CTACCAAGGC 
TAAGATCCCC TTTTATGGAA GCTACACGGA ATCCGATCCT GTGAAAATTG 
CTGTTGAGGG AGTAGATACG TTTAAGAAAG AAAACTGTGA TCTCATTATT 
GTTGATACCA GTGGTCGCCA TAAACAAGAA GCTTCTCTCT TTGAAGAAAT 
GCGTCAAGTT GCTGAAGCAA CGAAACCAGA TCTTGTTATA TTTGTTATGG 
ATAGCAGTAT TGGTCAAGCT GCATTTGATC AAGCTCAAGC CTTTAAGCAG 
AGTGTTGCTG TTGGAGCTGT AATTATTACT AAGATGGACG GCCATGCCAA 
GGGTGGTGGG GCTCTTAGCG CTGTTGCAGC TACGAAAAGT CCTGTGATAT 
TTATCGGAAC AGGAGAGCAT ATGGATGAGT TTGAAGTGTT TGACGTCAAA 
CCATTTGTCA GCCGTCTCTT AGGAATGGGT GATTGGTCTG GATTCGTGGA 
TAAGCTACAA GAGGTAGTAC CTAAAGATCA ACAGCCTGAA CTTCTGGAAA 
AGCTCTCTCA GGGTAACTTT ACGTTGAGAA TTATGTACGA CCAGTTCCAG 
AACATACTGA ACATGGGTCC ACTTAAGGAG GTTTTCTCAA TGCTGCCTGG 
AATTAGTGCT GAAATGATGC CGAAAGGACA TGAGAAAGAA AGCCAGGCGA 
AGATAAAGCG GTACATGACA ATGATGGATT CTATGACAAA TGATGAACTG 
GACAGCTCAA ACCCAAAGGT GTTTAACGAG TCACGGATGA TGCGGATAGC 
AAGAGGGTCA GGGAGGCAAG TAAGAGAAGT GATGGAGATG TTGGAAGAGT 
ACAAGAGGCT AGCGAAGATA TGGAGCAAGA TGAAAGGACT CAAGATCCCA 
AAGAATGGAG ATATGAGTGC ACTCTCGAGA AACATGAACG CACAGCACAT 
GAGCAAGGTC CTCCCACCTC AGATGCTCAA GCAGATTGGC GGCATGGGCG 
GTCTGCAGAG TCTAATGAAG CAGATGGGTT CCGGCAAGGA CATGATGGGA 
ATGTTCGGTG GCGGAGACAA GTAGTATCTT TCTTCCTTCC TTTGCACACC 
AAAAACTAGA CATTCTTACG TTGTCATTAT TAGAGTTTTC CCCTTTGTAT 
TTGTAAAATA TTTGCAAATT TTCTCCAATT TTACAAAAAG AGATTTGGTA 
ACAAAATAAT GTCTAGGGTC CAGTCGTGGA CATTATATAT TGAAAACCAA 
AAAAAAATTT ATATC

Gene models with high sequence identity

AT1G48900.1 [+] show detail - Signal recognition particle, SRP54 subunit protein
E-value: 0; Score: 99.94

InterPro Scan Digest

Program	Description	E-value
HMMTigr	Signal recognition particle, SRP54 subunit	0
Gene3D	Signal recognition particle, SRP54 subunit, helical bundle	1.6e-18
Gene3D	no description	1.4e-65
Gene3D	Signal recognition particle, SRP54 subunit, M-domain	1e-28
HMMPfam	Signal recognition particle, SRP54 subunit, GTPase	3.2e-76
HMMPfam	Signal recognition particle, SRP54 subunit, M-domain	3.2e-28
HMMPfam	Signal recognition particle, SRP54 subunit, helical bundle	0.00000000000042
HMMSmart	ATPase, AAA+ type, core	0.0048
superfamily	P-loop containing nucleoside triphosphate hyd	1.8e-67
superfamily	Signal recognition particle, SRP54 subunit, M-domain	2.3e-41
superfamily	Signal recognition particle, SRP54 subunit, helical bundle	1.3e-19
HMMPanther	SIGNAL RECOGNITION PARTICLE 54 KDA PROTEIN	1.9e-269
HMMPanther	GTPASE CONTAINING FAMILY OF SIGNAL RECOGNITIO	1.9e-269
PatternScan	Signal recognition particle, SRP54 subunit, GTPase	0

See the detailed result >

AT1G48900.1

Model type: Protein coding
Short Description: Signal recognition particle, SRP54 subunit protein
Computational Description: Signal recognition particle, SRP54 subunit protein; FUNCTIONS IN: 7S RNA binding, mRNA binding, nucleoside-triphosphatase activity, GTP binding, nucleotide binding; INVOLVED IN: SRP-dependent cotranslational protein targeting to membrane, signal sequence recognition, SRP-dependent cotranslational protein targeting to membrane; LOCATED IN: signal recognition particle, signal recognition particle, endoplasmic reticulum targeting; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: ATPase, AAA+ type, core (InterPro:IPR003593), Signal recognition particle, SRP54 subunit, helical bundle (InterPro:IPR013822), Signal recognition particle, SRP54 subunit, M-domain (InterPro:IPR004125), Signal recognition particle, SRP54 subunit (InterPro:IPR006325), Signal recognition particle, SRP54 subunit, GTPase (InterPro:IPR000897); BEST Arabidopsis thaliana protein match is: Signal recognition particle, SRP54 subunit protein (TAIR:AT5G49500.1); Has 17579 Blast hits to 17572 proteins in 2934 species: Archae - 472; Bacteria - 10667; Metazoa - 363; Fungi - 296; Plants - 287; Viruses - 1; Other Eukaryotes - 5493 (source: NCBI BLink).
Link: InterPro Scan - TAIR

RAFL09-13-G15 - RIKEN Arabidopsis Full-length cDNAs - Original: RAFL09-13-G15 - Resource: pda01755

full reading [+] show sequence

AGATTTTGGT TTTGTGTTGA GAACAACTCC AAAGAGACGA GAAGCAGCGA 
ATCGTACGAG CAGAGAGATA TATGTTTCAT TACGTCGATG ATGGATTCTG 
CTTTATATCA TCCTCGAATC TTTTTCGCTC ACAGCTTCAT CAATGGCTTG 
TATAGTTCTC CTAGGTTTGC TAATACTTGC TGGAGATTGG TTAGTCGTTC 
AAGTTGGGAG ATCAAGGCTA GTGAGAATAG TGATCGCAAT GTGTTCGATG 
AAAATCCTGT TAGGAAAACC GACGGGTCGT TGTTTGATTC TGCTTCGTTT 
GAGACAGTTG ACGCGGAAAT CACGCCTGAG ACTGATGATT TCTTCGTGAG 
TGACGCAGAG GGTGATCCAG ATTGTCCTAC TCAAGGTTAT TCCTCTATTG 
AACTTGCTCT TCAAGCTCTA CGCAAAGGAA AGTTTGTGAT CGTTGTTGAC 
GATGAAACCG GAGATGTTGA AGGGAATCTG ATCATGGCTG CAACTCTTAC 
GAGTCCAAAA GACATAGCTT TTCTGATTAA GAATGGTTCA GGTATTGTCT 
CAGTTGGTAT GAAGAAAGAA AACCTTGAAA GATTAAGCCT TACACTTATG 
TCACCTGAAA TGGAAGACGA AGATTCCTCT GCTCCAACTT TCACCATCAC 
TGTGGATGCA AAATCTGGAA CATCAACTGG AGTATCAGCT TCAGACAGGG 
CGATGACGGT TCTTGCACTT TCGTCTCTCG ATGCTAAACC AGATGATTTC 
AGGAGGCCTG GTCATGTATT CCCTCTCAAG TACAGAGATG GTGGAGTTTT 
AAGGAGAGCT GGTCACACCG AAGCTTCAGT GGATCTAATG ATATTGGCTG 
GTTTACGTCC CCTCTCTGTT CTTTCAGCTA TTCTTGATCA AGAAGATGGG 
TCTATGGCTT CACTGCCGTA TATGAAAAAG CTTGCTACGG AACATGATAT 
CCCCATTGTA TCGTTGACTG ATTTAATCAG ATATCGAAGA AAGCGAGATA 
AGCTTGTTGA GAGAATCACA GTGTCTCGTT TGCCTACCAA ATGGGGTCTT 
TTCCAAGCTT ATTGTTATCG ATCTAAACTC GATGGAACCG AAAATATCGC 
CCTCGTTAAG GGAAACGTTG GAAATGGTGA GGACATTCTG GTGCGAGTGC 
ATTCAGAGTG CTTGACAGGA GACATTTTTG GCTCAGCACG GTGTGACTGT 
GGAAACCAAT TGGACTTAGC CATGGAGTTA ATCGAGAAAG AGGGAAGAGG 
AGTTGTTGTG TATCTCCGTG GCCACGAAGG AAGAGGCATT GGCCTTGGTC 
ACAAGCTTAG AGCTTATAAC TTGCAGGACG AAGGACACGA CACTGTTCAG 
GCCAATGTTG AACTTGGCCT ATCCATTGAT TCTCGTGAAT ACGGTATCGG 
TGCTCAGATG CTACGAGACA TAGGAGTGAG AACAATGAGA CTAATGACGA 
ATAACCCTGC CAAATTCACT GGTCTGAAAG GGTACGGACT CGCTGTAGTT 
GGCCGTGTGC CGGTGGTGAC ACCAATCACC AAGGAGAACA GAAGATATAT 
GGAGACCAAA CGCAAGAAGA TGGGTCACAT TTATATCTCT GATAACAACG 
ATCAGCCATT AGCTTGACCC AAAAGCTTTT GATAGAAACA CACACTTTTG 
AATTTTGTAT TTATAAATTG ATTCATTCTT ATGTAATCAT CAACCACAAT 
TACTTTTTTT CTGGAAGATT TGACATAAAA TCGAATTATA GTTTC

Gene models with high sequence identity

AT5G59750.1 [+] show detail - DHBP synthase RibB-like alpha/beta domain;GTP cyclohydrolase II
E-value: 0; Score: 100.00

InterPro Scan Digest

Program	Description	E-value
HMMTigr	DHBP synthase RibB	7.2e-69
HMMTigr	GTP cyclohydrolase II	4.8e-95
HAMAP	GTP cyclohydrolase II	39.401
HAMAP	RIBBA_MF_01283	49.719
HMMPfam	GTP cyclohydrolase II	3e-74
HMMPfam	DHBP synthase RibB	3e-67
Gene3D	DHBP synthase RibB-like alpha/beta domain	3.2e-67
HMMPanther	GTP CYCLOHYDROLASE II	1.1e-169
HMMPanther	GTP CYCLOHYDROLASE II-RELATED	1.1e-169
superfamily	DHBP synthase RibB-like alpha/beta domain	3.6e-69

See the detailed result >

AT5G59750.1

Model type: Protein coding
Short Description: DHBP synthase RibB-like alpha/beta domain;GTP cyclohydrolase II
Computational Description: DHBP synthase RibB-like alpha/beta domain;GTP cyclohydrolase II; FUNCTIONS IN: 3,4-dihydroxy-2-butanone-4-phosphate synthase activity, GTP cyclohydrolase II activity; INVOLVED IN: riboflavin biosynthetic process; LOCATED IN: chloroplast; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: GTP cyclohydrolase II (InterPro:IPR000926), DHBP synthase RibB (InterPro:IPR000422), DHBP synthase RibB-like alpha/beta domain (InterPro:IPR017945); BEST Arabidopsis thaliana protein match is: GTP cyclohydrolase II (TAIR:AT5G64300.1); Has 30201 Blast hits to 17322 proteins in 780 species: Archae - 12; Bacteria - 1396; Metazoa - 17338; Fungi - 3422; Plants - 5037; Viruses - 0; Other Eukaryotes - 2996 (source: NCBI BLink).
Link: InterPro Scan - TAIR