K14341

RIKEN rice full-length cDNA overexpressed Arabidopsis lines

Phenotypes

Morphological phenotypes

Generation	Anatomical entity /structure development stage	Phenotypes
T2	seed (PO:0009010)	low brightness (PATO:0000327) (Seed::Color::dark)

Invisible phenotypes

Specific phenotypes were NOT observed.

Original: K14341

Determination of introduced cDNA(s)

J013120O07 - Rice Full-length cDNAs - Original: J013120O07

full reading [+] show sequence

GGGCCGTCGC AAGGCCGCCG CATACTCTTC TCCCCTCTTT GACTCGTTTT 
GCGCCCAAGT CGATCCCCAA CGTCTCCTCC TCGCTGGTTC GCCCGCCGCG 
CCGCGCCGAT CTCCATCCGT TCCACGAGCA GCGGTGACCG GGTGCTGTCG 
TCCTGCTCCC CGCTTCCCTT CCGGCTCCGA TTTGAGGCGC TAAAGTTTCC 
ATTCCGTGTT ACGAAAAGCT GCATTAGGAC ATGGACATGG CATTGCCAAT 
AGTGAATGCC ACCGCAGCGG TGCTTGCTCG TGTCTCAGCT GCATTCAATG 
CCCCTTTTGC CCGCGCAGTT GTCTTTGGGG TTCATATCGA TGGGCACCTG 
GTTGTTGAAG GGCTCCTTAT AGCGGTCATA GTGTTTCAGC TTTCTAGGAA 
GAGCTACAAA CCGCCCAAGA AGCCACTCAG TGAAAAGGAG ATTGACGAGC 
TATGTGATGA ATGGGAGCCA GAACCTCTGT GTCCTCCGAT CAAGGATGGG 
GCCCGAATTG ACACACCAAT GTTGGAAAGT GCTGCTGCTC CACATACAAC 
CATTGATGGG AAAGAAGTTA TAAACTTTGC ATCAGCAAAT TATCTTGGTT 
TGATTGGCAA TGAGAAGATT ATTGATTCTT GTGTTGGTTC ACTGGAGAAA 
TATGGTGTTG GTTCTTGTGG TCCACGTGGC TTTTATGGAA CAATTGATGT 
CCACCTTGAC TGTGAGGCAA AAATAGCGAA GTTTCTTGGA ACTCCAGACT 
CAATTCTGTA TTCATATGGG ATTTCTACAA TATTTAGTGT GATACCTGCC 
TTTTGTAAGA AAGGAGACAT CATAGTTGCT GATGAAGGTG TGCACTGGGC 
AGTGCAAAAT GGTCTTCATC TGTCAAGAAG CACTGTTGTT TATTTTAAAC 
ACAATGATAT GGCTTCACTT GCAAACACTT TGGAAAAACT TACACGTGGA 
AATAAACGAG CAGAAAAGAT CAGACGATAC ATTGTTGTAG AATCTATCTA 
CCAGAATTCT GGTCAAATTG CTCCCTTGGA TGAGATTGTC AGATTGAAGG 
AGAAATATCG ATTCCGTGTT ATTCTGGAGG AAAGCCATTC TTTTGGTGTG 
CTTGGCCAGT CTGGACGAGG CCTTGCTGAA CATTATGGAG TTCCAATTGA 
CAAAATTGAT ATTATCACTG CTGGAATGGG GAATGCATTA GCTACTGATG 
GTGGCTTTTG TACAGGAAGT GTTAGAGTTG TTGATCATCA GCGTCTAAGC 
AGTTCTGGCT ATGTTTTCTC GGCTTCTCTG CCACCTTATC TTGCCAGCGC 
TGCGGTTTCT GCTGTCAGCT ACCTGGAGGG GAACCCGTCA GTTCTTGCAG 
ACCTGAGGAG CAACATTTCT TTCCTGCATA AAGAACTGTC AGGTACTCCA 
GGACTTGAAA TTTCCAGCCA TGTTCTGTCA CCTATCGTTT TCCTCAAACT 
GAAGAAATCG ACGGGTTCAT CAAACACCGA TATAGATCTT CTTGAAACTA 
TTGCTGAGAG GGTATTGAAG GAAGATTCAG TTTTTATCGT GGCGTCAAAG 
CGGTCACCTT TGGATAGGTG CAAACTTCCC GTCGGAATAC GCCTCTTCAT 
GTCAGCCGGC CACACCGATT CAGACATCTC CAAAGTGTCC TCATCCTTGA 
AGCGGGTCTC AGCATCAGTT CTGTCAGATT ACATCTGATC CCCTTTCTCT 
ACGAGCTGTG CACTAATCTC TGTGTGCATG TTTGGTTAAT GTACATAACC 
TGTACATTTG TAGGTTCCGA TGATTCCCGT TGCCGCTCAT ACTTGCAAAC 
ACTTCGAAAA ATAGACGTAG AACAGTGAAA TTAGGTGTGT TATGTATCGT 
TCGGTCTTCT GGTAGTGGTT TCCCGGTAGA ATTCATTCTA TATCTTTAAT 
TTTGTCCTCT ATTCATCACT TTTATCATTT TGGCTTCAAT TCATCACTTT 
CTGGTGGATT TATATTCTTT TTTTTAGTGT AGATTGGTTG CGCAAATGGC 
GAAAAGACCC CAAATTCTCA AATCGGCACA AATCGTTTCC AGGTTTCATC 
TTACCCAATC GCTCCTTCCT TGCAAATCCA ACCTGAGCAG CCATATTAAC 
CAAACTGAAA GCGCTGCCTA TCGAACACCA CAGGCGGAGA CGATGGATTT 
GTGCCGGACA ACCGGAGCAC GTGCAACGCG TCCATGTTCA GCACAAAAAA 
ATATAACTAC TTCAAGCTAT TAGGACAATG TTATATCCAA ATACATAGAA 
AAAATATTGC TATATTTTGG AATGGAGATA GTACTTCCAT TCAAATCATG 
ATATATATAA ATATTAAATT TGAAAATGC

Gene models with high sequence identity

AT4G36480.2 [+] show detail - long-chain base1
E-value: 6e-180; Score: 628.00

InterPro Scan Digest

Program	Description	E-value
HMMPanther	SERINE PALMITOYLTRANSFERASE I	1.4e-226
HMMPanther	CLASS II AMINOTRANSFERASE/8-AMINO-7-OXONONANO	1.4e-226
HMMPfam	Aminotransferase, class I/II	3e-40
Coil	coiled-coil	0
superfamily	Pyridoxal phosphate-dependent transferase, major domain	2.7e-70
Gene3D	Pyridoxal phosphate-dependent transferase, major region, subdomain 1	3e-71

See the detailed result >

AT4G36480.2

Model type: Protein coding
Short Description: long-chain base1
Curator Summary: Encodes the LCB1 subunit of serine palmitoyltransferase. Together with the LCB2 subunit, forms a functional serine palmitoyltransferase complex, which catalyzes the first reaction of sphingolipid biosynthesis. Knockout of LCB1 was embryo lethal. Partial suppression of LCB1 expression led to smaller plants due to reduced cell expansion.
Computational Description: long-chain base1 (LCB1); FUNCTIONS IN: protein binding, serine C-palmitoyltransferase activity; INVOLVED IN: cell growth, sphingolipid biosynthetic process; LOCATED IN: endoplasmic reticulum; EXPRESSED IN: 20 plant structures; EXPRESSED DURING: 12 growth stages; CONTAINS InterPro DOMAIN/s: Pyridoxal phosphate-dependent transferase, major domain (InterPro:IPR015424), Aminotransferase, class I/classII (InterPro:IPR004839), Pyridoxal phosphate-dependent transferase, major region, subdomain 1 (InterPro:IPR015421); BEST Arabidopsis thaliana protein match is: long chain base2 (TAIR:AT5G23670.2); Has 35333 Blast hits to 34131 proteins in 2444 species: Archae - 798; Bacteria - 22429; Metazoa - 974; Fungi - 991; Plants - 531; Viruses - 0; Other Eukaryotes - 9610 (source: NCBI BLink).
Link: InterPro Scan - TAIR