Browse Element(s) Details


Os.4377.1.S1_at

Description gb:AK105636.1
DB_XREF= gi:32990845
TID=Os.4377.1
CNT=6
FEA=FLmRNA
TIER=FL
STK=2
UG=Os.4377 (NCBI UniGene Cluster)
UG_TITLE=4-coumarate:CoA ligase isoform 2 (4cl.2) mRNA, complete cds
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:001-200-D12, full insert sequence.
FL= gb:L43362.1 gb:AK105636.1 gb:AK060627.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os02g4697011/114-coumarate-CoA ligase 2, putative, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os02g46940OsAffx.12531.1.S1_at11/112+28646886..28649646myb-like DNA-binding domain, SHAQKYF class family protein, expressed
LOC_Os02g46950OsAffx.24758.1.S1_at11/112+28659035..28659376hypothetical protein
LOC_Os02g46956Os.37986.1.S1_at11/112+28663177..28666484expressed protein
LOC_Os02g46956OsAffx.32273.1.S1_at9/112+28663177..28666484expressed protein
LOC_Os02g46956OsAffx.19953.6.S1_s_at3/112+28663177..28666484expressed protein
LOC_Os02g46962Os.11656.1.S1_at11/112+28667136..28670993VHS domain-containing protein, putative, expressed
LOC_Os02g46970Os.4377.1.S1_at11/112+28671336..286749954-coumarate-CoA ligase 2, putative, expressed
LOC_Os02g46980Os.5377.1.S1_at11/112+28675812..28677978pentatricopeptide, putative, expressed
LOC_Os02g46980Os.5377.2.S1_x_at10/112+28675812..28677978pentatricopeptide, putative, expressed
LOC_Os02g46980OsAffx.23312.1.S1_s_at2/112+28675812..28677978pentatricopeptide, putative, expressed
LOC_Os02g46980Os.5391.1.S1_at1/112+28675812..28677978pentatricopeptide, putative, expressed
LOC_Os02g46990Os.12949.1.S1_at11/112+28683631..28688289ATPase, AAA family protein, expressed
LOC_Os02g47000Os.10594.1.S1_at11/112+28688829..28690578expressed protein
LOC_Os02g47010Os.5837.1.S1_at10/112+28690809..28694497secretory carrier membrane protein, putative, expressed
LOC_Os02g47010OsAffx.12532.1.S1_at2/112+28690809..28694497secretory carrier membrane protein, putative, expressed
LOC_Os02g47020Os.46383.2.A1_s_at11/112+28695935..28698540Phosphoribulokinase, chloroplast precursor, putative, expressed
LOC_Os02g47030Os.25469.1.S1_at11/112+28698849..28700331expressed protein

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Gene Ontology Classification
GO idTypeName
GO:0009411biological_processresponse to UV
GO:0009611biological_processresponse to wounding
GO:0009621biological_processresponse to pathogenic fungi
GO:0009698biological_processphenylpropanoid metabolism
GO:0016207molecular_function4-coumarate-CoA ligase activity
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.4377.1.S1_at--874--7231Chr02:28671966..28672085 (25 bp)
GTCCCGCAAAAGGATGACGTCGCCG
LOC_Os02g46970
Os.4377.1.S1_at--480--4231Chr02:28671902..28671926 (25 bp)
CCGACATCACGGAGGAGTCCATCAA
LOC_Os02g46970
Os.4377.1.S1_at--79--2231Chr02:28671745..28671769 (25 bp)
ACAAGGTGCACTTCATCCATGCGAT
LOC_Os02g46970
Os.4377.1.S1_at--78--2851Chr02:28671716..28671740 (25 bp)
AAGTCGGCGTCTGGGAAGATACTGA
LOC_Os02g46970
Os.4377.1.S1_at--781--6231Chr02:28671636..28671660 (25 bp)
GATGGCTAGGCTATACATGCGTTCT
LOC_Os02g46970
Os.4377.1.S1_at--311--2831Chr02:28671584..28671608 (25 bp)
AAGTTCTGGTTGATTTGTGGTCGTA
LOC_Os02g46970
Os.4377.1.S1_at--499--10211Chr02:28671523..28671547 (25 bp)
TATTCTTTTTGCTAGCCAGTATACT
LOC_Os02g46970
Os.4377.1.S1_at--168--1991Chr02:28671501..28671525 (25 bp)
ACTGCTGAATTTGATGCCAGGCGCA
LOC_Os02g46970
Os.4377.1.S1_at--138--5551Chr02:28671465..28671489 (25 bp)
GAAACTGCGGCAAACTTGGCAACTT
LOC_Os02g46970
Os.4377.1.S1_at--976--6951Chr02:28671408..28671432 (25 bp)
GTAGCATTTGTACGTGTTGTTGCCA
LOC_Os02g46970
Os.4377.1.S1_at--1106--9931Chr02:28671374..28671398 (25 bp)
TACGACTACCGTGTATTGGATTCAT
LOC_Os02g46970
Target Sequence 
GTCCCGCAAAAGGATGACGTCGCCGGCGAGNTCCCGGTCGCGTTCGTGGTCCGCGCCGCCGACTCCGACATCACGGAGGA
GTCCATCAAGGAATTCATATCCAAGCAGGTGGTGTTCTACAAGAGGCTACACAAGGTGCACTTCATCCATGCGATCCCCA
AGTCGGCGTCTGGGAAGATACTGAGGAGAGAGCTCAGANCCAAGCTCGCGGCGTGCTGACCATGTCAATGATGGATAATG
ATGGCTAGGCTATACATGCGTTCTACTATGTATTACTCTGAAAATGCAGTGAAGTTCTGGTTGATTTGTGGTCGTATTTG
TGACGAGATTTATTTTCTGAGAAAAAAAAGTTTATTCTTTTTGCTAGCCAGTATACTGCTGAATTTGATGCCAGGCGCAC
ATTTGCGAAAGAAACTGCGGCAAACTTGGCAACTTTTTAGTATATGATCAAAACAAACGTGTACAATGTAGCATTTGTAC
GTGTTGTTGCCAGTTGGGGAATACGACTACCGTGTATTGGATTCAT

BLASTn GenBank NR

Expression Profiles Gene Chronologer
Gene Chronologer (Grouped)
Heterosis View
Gene Correlator (coexpression analysis)
SALK RiceGE
Rice MPSS  MPSS logo
RiceArray Coexpression Database
Miscellaneous SNP data between Minghui 63 and Zhenshan 97 from OryzaSNP project:
extend bp around Os.4377.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis