Browse Element(s) Details


Os.40577.1.S1_at

Description gb:AK119343.1
DB_XREF= gi:37988966
TID=Os.40577.1
CNT=2
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.40577 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) P0458A05.10 (P0458A05.10), mRNA
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:001-131-D11, full insert sequence.
FL= gb:AK119343.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os09g0778010/11PPR986-12, putative, expressed
LOC_Os01g252702/11PPR986-12, putative
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os09g07740OsAffx.19542.3.S1_x_at5/119+3907395..3911298retrotransposon protein, putative, Ty1-copia subclass
LOC_Os09g07750NANA9+3916742..3922897retrotransposon protein, putative, unclassified
LOC_Os09g07760NANA9+3923525..3926665retrotransposon protein, putative, unclassified
LOC_Os09g07770OsAffx.19796.1.S1_x_at2/119+3930419..3931151hypothetical protein
LOC_Os09g07780Os.40577.1.S1_at10/119+3934220..3937411PPR986-12, putative, expressed
LOC_Os09g07790NANA9+3942821..3943273hypothetical protein
LOC_Os09g07800Os.32502.1.S1_at11/119+3948848..3952247C2 domain-containing protein, putative, expressed
LOC_Os09g07800Os.50043.1.A1_at1/119+3948848..3952247C2 domain-containing protein, putative, expressed
LOC_Os09g07810OsAffx.6195.1.S1_at10/119+3955029..3956133hypothetical protein
LOC_Os09g07820OsAffx.6196.1.S1_at11/119+3958894..39638943' exoribonuclease family, domain 2 containing protein, expressed
LOC_Os09g07820Os.16226.1.S1_s_at10/119+3958894..39638943' exoribonuclease family, domain 2 containing protein, expressed

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Gene Ontology Classification
GO idTypeName
GO:0009793biological_processembryonic development (sensu Magnoliophyta)
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.40577.1.S1_at--390--6292Chr01:14249265..14249289 (25 bp)
GATGTTGATCTCCATGATTTAGACA
LOC_Os01g25270
Os.40577.1.S1_at--341--3592Chr01:14249487..14249511 (25 bp)
CATTTCAGAGATGGGACATGTTCTT
LOC_Os01g25270
Os.40577.1.S1_at--1016--3471Chr09:3934435..3934459 (25 bp)
CAGGATTTTTTGTAGCTTTTTGAGA
LOC_Os09g07780
Os.40577.1.S1_at--212--6891Chr09:3934392..3934416 (25 bp)
GTATACACACGCTCAGAGAGGCTTA
LOC_Os09g07780
Os.40577.1.S1_at--880--5492Chr01:14249617..14249641 (25 bp)
GAAAATTTTGTACCCACTGTAGCAA
NONE
Os.40577.1.S1_at--352--8752Chr01:14249625..14249649 (25 bp)
TGTACCCACTGTAGCAACCATTTTA
NONE
Os.40577.1.S1_at--1016--10091Chr09:3934300..3934324 (25 bp)
TATGTGGTTTCTGTAGCTCAATCTA
LOC_Os09g07780
Os.40577.1.S1_at--73--6971Chr09:3934288..3934312 (25 bp)
GTAGCTCAATCTACAACACACTCCA
LOC_Os09g07780
Os.40577.1.S1_at--1089--2151Chr09:3934271..3934295 (25 bp)
ACACTCCACACTAAGCCAGAAAGGT
LOC_Os09g07780
Os.40577.1.S1_at--104--6632Chr01:14249749..14249773 (25 bp)
GTTGTGTTAACGAAGGAGCAGTCCT
NONE
Os.40577.1.S1_at--758--972Chr01:14249762..14249786 (25 bp)
AGGAGCAGTCCTCATGTACATGATT
NONE
Target Sequence 
GATGTTGATCTCCATGATTTAGACAGGAGTGAAAAGGAGTTNCTTCTTTCTCATCATAGTGAAAGGCTNGCTGTNGCNTT
CGCTTTGCTCAGCACTCCACCTGGAGCACCCATTAGNGTCAAGAAAAATCTGCGCATATGNAGAGATTGCCATNTGGCAT
TTAAGTTCATTTCAAANATTGTTTCGAGGGAAATTATCATCAGAGACATNAACCGATTCCATCATTTCAGAGATGGGACA
TGTTCTTGNGGTGATTACTGGTAGAAACATCGGAACAGGATTTTTTGTAGCTTTTTGAGAATTGTGGTGGTCAGAAAAGT
ATACACACGCTCAGAGAGGCTTAACAATTTAGAAAATTTTGTACCCACTGTAGCAACCATTTTAGACAGTTGTTGGAGTA
TTCAATAAGCTATGTGGTTTCTGTAGCTCAATCTACAACACACTCCACACTAAGCCAGAAAGGTCCAAAATTTTGTTTTT
TCTGTTGTGTTAACGAAGGAGCAGTCCTCATGTACATGATT

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.40577.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis