K43641

RIKEN rice 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)
	cauline leaf (PO:0000013)	decreased size (PATO:0000587) (Cauline leaf::Shape::small) hyponastic (PATO:0002329) (Cauline leaf::Shape::hyponastic)
	rosette leaf (PO:0000014)	decreased size (PATO:0000587) (Rosette leaf::Shape::small) increased width (PATO:0000600) (Rosette leaf::Shape::wide) dark green (PATO:0001249) (Rosette leaf::Color::dark) present in greater numbers in organism (PATO:0000470) (Rosette leaf::Number::many)
	sporophyte vegetative stage (PO:0007134)	decreased speed (PATO:0000304) (Adult plant::Growth::slow)
	stem (PO:0009047)	increased thickness (PATO:0000591) (Stem::Shape::thick)
T2
	whole plant (PO:0000003)	decreased height (PATO:0000569) (Adult plant::Plant height::short)
	rosette leaf (PO:0000014)	decreased size (PATO:0000587) (Rosette leaf::Shape::small) increased width (PATO:0000600) (Rosette leaf::Shape::wide) dark green (PATO:0001249) (Rosette leaf::Color::dark) present in greater numbers in organism (PATO:0000470) (Rosette leaf::Number::many) abnormal (PATO:0000460) (Rosette leaf::Others)
	sporophyte vegetative stage (PO:0007134)	decreased speed (PATO:0000304) (Adult plant::Growth::slow)
	fruit (PO:0009001)	decreased length (PATO:0000574) (Silique::Shape::short)
	seed (PO:0009010)	increased size (PATO:0000586) (Seed::Shape::large) increased length (PATO:0000573) (Seed::Shape::long)
	stem (PO:0009047)	decreased thickness (PATO:0000592) (Stem::Shape::thin) abnormal (PATO:0000460) (Stem::Others)

Invisible phenotypes

Specific phenotypes were NOT observed.

Original: K43641

Determination of introduced cDNA(s)

J033024L02 - Rice Full-length cDNAs - Original: J033024L02

full reading [+] show sequence

GTAGCCTACC CGAGGCTCCC CTCTCCACTC CCCTTCCCTC ACCCGCGCCG 
CATCGCAGCC GCTATCCGCG TGGGCATTCC GCCGAGCACC TGGCGCGCAT 
GGCGATGGCT TCGCACCACC TCGCCCAGCC GCCCACGCGC GCGGCTCTCT 
CCTCGCGCCC CACCTACCCG CTCTCCAGCC ATCACCACTC CTCCCGTCTC 
CAGCTCCCGC TCGTCAGCGG GGCGCGGCGC AGCAGGCTGT CCCCCGCGGT 
GGCGACGTCC CCGGTCGCCG CCCCAGCGAT GGACGCCGTG GCCGACTGGG 
GGCTGACCAC TCTGGAGGAG GCTGACCCGG AGGTGTACGA CCTCGTCGAG 
CGCGAGAAGC GGCGGCAGCG CGCGGGCGTC GAGCTCATCG CGTCGGAGAA 
CTTCACCTCG CTCGCCGTCA TGGAGGCGCT GGGCTCGCCG CTCACCAACA 
AGTACTCCGA GGGCATGCCG GGGTCCCGCT ACTACGGAGG CAACGAGGTC 
ATCGACGAGG TGGAGGAGCT CTGCCGCGCC CGCGCGCTCG CCGCCTTCCA 
CCTCGACCCC GAGGCCTGGG GCGTCAACGT GCAGCCCTAC TCCGGCTCGC 
CGGCGAACTT CGCCGCCTAC ACCGGGCTGC TCCAACCCCA CGAGCGGATC 
ATGGGGCTCG ATTTGCCGTC CGGCGGCCAC CTCACGCACG GCTACTACAC 
CGCCGGCGGC AAAAAGATCT CCGCCACGTC CATCTACTTC GAGAGCCTGC 
CGTACAAGGT GAGCTCCGAG ACAGGATACG TCGATTATGA TAAGCTGGAG 
GAGAAGGCCA TGGATTTTCG GCCCAAGCTC ATCATCTGCG GCGGGAGCGC 
GTACCCGCGG GATTGGGATT ACGCCAGGTT CAGGGCCATC GCGGATAAGT 
GCGGCGCCAT GTTGCTCTGC GACATGGCTC ACATCAGTGG CCTAGTTGCC 
GCGCAGGAGG CTGCAAATCC TTTTCAATAT TCTGATGTGG TTACCACCAC 
CACCCACAAG AGTCTCCGAG GGCCAAGATC TGGTATGATC TTCTACAGGA 
AGGGCCTGAA GCCTCCCAAG AAAGGCCAGC CTGAGGGCGC TCTGTATGAC 
TACGAGGACA GGATCAACTT CGCAGTGTTT CCGTCGCTCC AAGGGGGCCC 
TCACAACCAC CAAATTGCTG CGCTAGCGGT TGGTTTGAAG CAGACTATGT 
CACCTGGATT CAAGTCTTAT ATTAAGCAGG TCAAGGCCAA TGCTGTTGCC 
CTTGGTAACC ATTTGATGAG TAAGGGCTAC AAATTGGTTA CTGACGGAAC 
AGAGAACCAT CTTGTTCTCT GGGATCTGCG CCCTCTTGGC TTGACTGGTA 
ACAAAGTTGA GAAGGTCTGT GATTTGTGCA GCATTACACT GAACAAAAAT 
GCTGTCTTTG GGGATAGCAG TGCAATGTCA CCTGGTGGTG TCCGCATTGG 
TACACCTGCC ATGACATCAA GGGGTTTGGT AGAGGAGGAC TTTGTACAGA 
TCGCCGAGTT CCTTCACCAG GCAGTGACCA TCTGCTTGGA TGTTCAGAAG 
GAGCGTGGCA AGCTTCTCAA GTACTTCAAC GAGGGCCTGG AGAACAACAA 
GGACATTGAG GACCTCAGGG CGGAGGTGGA GAAGTTTGCC ACTTCATTCG 
AGATGCCTGG CTTCAGGGTA TCCGACATGA AGTACAAGGA TTAGGCGGCA 
TCGTGCACAT CGTCCTCTTT CTCTTGCCCT GAACTTTGGC GCCCTTGAAA 
CCTGATTACT GTGGCGTGAA TCGTGGTGTA TGGATTTTGC TGAACTCTGG 
GTAGTCTCTA ACCGCTTTCG TCTACCTGAG CTGGTTGTGC CATTCAGTCG 
TTAAATGCTG GAATTGTAAT GATGTGGTAT AATAATAATA ACTAGCATGG 
TGGTCCGCGC AGATTGCGCG GCTAGCATCA TTATATTTTC TCTC

Gene models with high sequence identity

AT4G13930.1 [+] show detail - serine hydroxymethyltransferase 4
E-value: 0; Score: 805.00

InterPro Scan Digest

Program	Description	E-value
HMMPanther	Serine hydroxymethyltransferase	0
PatternScan	Serine hydroxymethyltransferase, pyridoxal phosphate binding site	0
superfamily	Pyridoxal phosphate-dependent transferase, major domain	7.9e-176
HMMPfam	Serine hydroxymethyltransferase	2.2e-186
Gene3D	Pyridoxal phosphate-dependent transferase, major region, subdomain 1	3.5e-100

See the detailed result >

AT4G13930.1

Model type: Protein coding
Short Description: serine hydroxymethyltransferase 4
Curator Summary: Encodes a serine hydroxymethyltransferase maximally expressed in root
Computational Description: serine hydroxymethyltransferase 4 (SHM4); FUNCTIONS IN: pyridoxal phosphate binding, glycine hydroxymethyltransferase activity, catalytic activity; INVOLVED IN: response to cadmium ion, glycine metabolic process, L-serine metabolic process; LOCATED IN: cytosol, plasma membrane, membrane; EXPRESSED IN: 9 plant structures; EXPRESSED DURING: seedling growth, seed development stages; CONTAINS InterPro DOMAIN/s: Pyridoxal phosphate-dependent transferase, major domain (InterPro:IPR015424), Serine hydroxymethyltransferase, pyridoxal phosphate binding site (InterPro:IPR019798), Pyridoxal phosphate-dependent transferase, major region, subdomain 1 (InterPro:IPR015421), Serine hydroxymethyltransferase (InterPro:IPR001085); BEST Arabidopsis thaliana protein match is: Pyridoxal phosphate (PLP)-dependent transferases superfamily protein (TAIR:AT4G13890.1); Has 11689 Blast hits to 11661 proteins in 2862 species: Archae - 259; Bacteria - 6437; Metazoa - 341; Fungi - 289; Plants - 375; Viruses - 6; Other Eukaryotes - 3982 (source: NCBI BLink).
Link: InterPro Scan - TAIR