Browse Element(s) Details


Os.53952.1.S1_at

Description gb:AK100989.1
DB_XREF= gi:32986198
TID=Os.53952.1
CNT=1
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.53952 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:J023145I15, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:J023145I15, full insert sequence.
FL= gb:AK100989.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os04g0135411/11Chalcone and stilbene synthases, N-terminal domain containing protein, expressed
LOC_Os10g306901/11hypothetical protein
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os04g01310Os.53673.1.S1_at10/114+231089..233845D-mannose binding lectin family protein, expressed
LOC_Os04g01320Os.54385.1.S1_at10/114+237075..239769D-mannose binding lectin family protein, expressed
LOC_Os04g01330Os.56956.1.S1_at11/114+241000..241928expressed protein
LOC_Os04g01340OsAffx.10458.1.S1_at7/114+242538..245183retrotransposon protein, putative, LINE subclass
LOC_Os04g01354Os.53952.1.S1_at11/114+249358..253546Chalcone and stilbene synthases, N-terminal domain containing protein, expressed
LOC_Os04g01354OsAffx.32197.1.A1_x_at5/114+249358..253546Chalcone and stilbene synthases, N-terminal domain containing protein, expressed
LOC_Os04g01354OsAffx.7027.1.S1_at3/114+249358..253546Chalcone and stilbene synthases, N-terminal domain containing protein, expressed
LOC_Os04g01370OsAffx.11259.1.S1_at1/114+263221..268013retrotransposon protein, putative, unclassified
LOC_Os04g01370OsAffx.22850.1.S1_x_at1/114+263221..268013retrotransposon protein, putative, unclassified
LOC_Os04g01370OsAffx.20615.1.S1_at1/114+263221..268013retrotransposon protein, putative, unclassified
LOC_Os04g01370OsAffx.30486.1.S1_at1/114+263221..268013retrotransposon protein, putative, unclassified
LOC_Os04g01380OsAffx.13607.1.S1_at11/114+268610..271182hypothetical protein
LOC_Os04g01390NANA4+271820..273118hypothetical protein
LOC_Os04g01400OsAffx.24744.4.A1_at1/114+273634..278329retrotransposon protein, putative, unclassified
LOC_Os04g01400OsAffx.22699.1.S1_x_at1/114+273634..278329retrotransposon protein, putative, unclassified

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Gene Ontology Classification
GO idTypeName
GO:0009699biological_processphenylpropanoid biosynthesis
GO:0009715biological_processchalcone biosynthesis
GO:0009813biological_processflavonoid biosynthesis
GO:0009926biological_processauxin polar transport
GO:0005634cellular_componentnucleus
GO:0005783cellular_componentendoplasmic reticulum
GO:0009705cellular_componentvacuolar membrane (sensu Magnoliophyta)
GO:0016210molecular_functionnaringenin-chalcone synthase activity
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.53952.1.S1_at--542--10611Chr04:249904..249928 (25 bp)
TTCTGGCTGGTGCATCCCGGCGGGA
LOC_Os04g01354
Os.53952.1.S1_at--969--551Chr04:249874..249898 (25 bp)
ATCCTGGACCGGGTGGTTCTCACGC
LOC_Os04g01354
Os.53952.1.S1_at--1149--7171Chr04:249616..249640 (25 bp)
GTCTGATGTGATTCTCTCATCCATC
LOC_Os04g01354
Os.53952.1.S1_at--828--6611Chr04:249579..249603 (25 bp)
GTTCGTCCGTCCCTCCAATATTTGG
LOC_Os04g01354
Os.53952.1.S1_at--745--105311Chr12:24348816..24349075 (25 bp)
TTCTCCTAAACTATTTATCCGATCA
NONE
Os.53952.1.S1_at--1098--178Chr12:261213..261233 (21 bp)
ATTTATCCGATCACACCGTTATATT
NONE
Os.53952.1.S1_at--259--6458Chr10:20549943..20549963 (21 bp)
GATCACACCGTTATATTCGTTATAA
NONE
Os.53952.1.S1_at--1100--3193Chr10:15657246..15657321 (25 bp)
CAATGTTTCATGTTTCATATGTAAT
LOC_Os10g30690
Os.53952.1.S1_at--578--6791Chr04:249397..249421 (25 bp)
GTTATATCTTTCAATGTGTATCATC
LOC_Os04g01354
Os.53952.1.S1_at--374--9611Chr04:249377..249401 (25 bp)
TCATCATTGTGTTCCTCAAAATTCA
LOC_Os04g01354
Os.53952.1.S1_at--662--7411Chr04:249369..249393 (25 bp)
GTGTTCCTCAAAATTCACAGAACTA
LOC_Os04g01354
Target Sequence 
TTCTGGCTGGTGCATCCCGGCGGGAGGGACATCCTGGACCGGGTGGTTCTCACGCTCGGCCTCCGCGACGACAAGGTGGC
CGTGTGCCGCGAGGTGATGAGGCAGCACGGCAACACGCTGAGCTCCTGCGTCATCATGGCCATGGAGGAGATGCGGCGGA
GGTCGGCGGAGCGGGGGCTGAGCACGGCCGGCGAGGGCCTCGAGTGGGGGCTGCTCTTCGGCTTCGGGCCAGGCCTCACC
GTGGAGACCATCCTCCTACGCGCGCCACCATGCAACCAAGCCCAAGCCGTCTGATGTGATTCTCTCATCCATCCATCCTC
CTTCCGTTCGTCCGTCCCTCCAATATTTGGAAAATATATTTTTCTCCTAAACTATTTATCCGATCACACCGTTATATTCG
TTATAATTAAACTTTTACAACAAAATATCATATGATTATATTCCAATAAAATAAAAATATTTGTTTCAAACCATTAAAAC
ACAATGTTTCATGTTTCATATGTAATAGTTATATCTTTCAATGTGTATCATCATTGTGTTCCTCAAAATTCACAGAACTA

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.53952.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis