Browse Element(s) Details


Os.53842.1.S2_at

Description gb:AK100359.1
DB_XREF= gi:32985568
TID=Os.53842.1
CNT=2
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.53842 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:002-119-G07, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:J023083K23, full insert sequence.
FL= gb:AK100359.1 gb:AK106958.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os05g2062011/11expressed protein
LOC_Os04g077842/11transposon protein, putative, Mutator sub-class
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os05g20570Os.22396.1.S1_at11/115+12048811..12049866pectinesterase inhibitor domain containing protein, expressed
LOC_Os05g20579NANA5+12053572..12053991NA
LOC_Os05g20590OsAffx.14771.1.S1_at11/115+12064091..12065637hypothetical protein
LOC_Os05g20590Os.39596.1.A1_x_at1/115+12064091..12065637hypothetical protein
LOC_Os05g20590Os.31845.2.S1_x_at1/115+12064091..12065637hypothetical protein
LOC_Os05g20600NANA5+12068562..12068888hypothetical protein
LOC_Os05g20610NANA5+12070423..12071679retrotransposon protein, putative, unclassified, expressed
LOC_Os05g20620Os.53842.1.S2_at11/115+12073230..12081647expressed protein
LOC_Os05g20620Os.53842.1.S1_x_at11/115+12073230..12081647expressed protein
LOC_Os05g20620Os.53842.2.S1_x_at11/115+12073230..12081647expressed protein
LOC_Os05g20620Os.46610.1.A1_x_at1/115+12073230..12081647expressed protein
LOC_Os05g20620OsAffx.22452.1.S1_x_at1/115+12073230..12081647expressed protein
LOC_Os05g20620OsAffx.27810.1.S1_x_at1/115+12073230..12081647expressed protein
LOC_Os05g20630Os.46610.1.A1_x_at3/115+12080425..12084817hypothetical protein
LOC_Os05g20630OsAffx.3347.1.S1_at1/115+12080425..12084817hypothetical protein
LOC_Os05g20640NANA5+12085539..12085985hypothetical protein
LOC_Os05g20650Os.24831.1.S1_x_at9/115+12092317..12092954retrotransposon protein, putative, unclassified
LOC_Os05g20650Os.24831.3.S1_x_at5/115+12092317..12092954retrotransposon protein, putative, unclassified
LOC_Os05g20650Os.24831.4.S1_x_at2/115+12092317..12092954retrotransposon protein, putative, unclassified
LOC_Os05g20660OsAffx.14773.2.S1_at11/115+12095510..12096947hypothetical protein
LOC_Os05g20660OsAffx.14773.1.S1_at4/115+12095510..12096947hypothetical protein
LOC_Os05g20670NANA5+12098052..12098840retrotransposon protein, putative, Ty1-copia subclass
LOC_Os05g20680NANA5+12103527..12107032retrotransposon protein, putative, Ty3-gypsy subclass

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.53842.1.S2_at--971--2545Chr12:11638518..11638542 (25 bp)
ATATGCCCTTGCACTAGATAGGCCT
NONE
Os.53842.1.S2_at--1156--12510Chr12:11638533..11638556 (24 bp)
AGATAGGCCTCATCAATACGCGGAT
NONE
Os.53842.1.S2_at--1087--4496Chr12:14308066..14308090 (25 bp)
GCCCTTTTGCTATCCAAGTAATCAG
NONE
Os.53842.1.S2_at--723--31346Chr12:8629036..8629060 (25 bp)
AATTTTGATCTTTCTAACCATGGCA
NONE
Os.53842.1.S2_at--757--1333Chr12:16744218..16744242 (25 bp)
ATTAATTCATCTCCCCTAATGGGTC
NONE
Os.53842.1.S2_at--854--29722Chr12:16744235..16744259 (25 bp)
AATGGGTCTCAGATCACTTCTAGGA
NONE
Os.53842.1.S2_at--451--51962Chr12:14308250..14308274 (25 bp)
GCAATCCATTTGTGCATGAGCCTAA
NONE
Os.53842.1.S2_at--455--4340Chr12:16744313..16744337 (25 bp)
ATCATTCGTTCTAGGTTTCTTGCAA
NONE
Os.53842.1.S2_at--904--14114Chr11:4706331..4706350 (20 bp)
AGAAATTCCTTTCTGGAGATCAATT
NONE
Os.53842.1.S2_at--605--2636Chr05:12081481..12081505 (25 bp)
AACCAAGAAGTGTACTCAAGCCCTT
LOC_Os05g20620
Os.53842.1.S2_at--921--2651Chr05:12081498..12081522 (25 bp)
AAGCCCTTCCATGTGAGTGTTGTCA
LOC_Os05g20620
Target Sequence 
ATATGCCCTTGCACTAGATAGGCCTCATCAATACGCGGATGAGCGGCTGAGATAAAAGCAATTTGGTCGCTAACGACCCC
TAGCCCTTTTGCTATCCAAGTAATCAGACAAGTGCACTCAACAGGAGCAGAGAACTTTATACTTTCTAACCATTGTCTTA
TCATACATTACACAGGAGAAATTTTGATCTTTCTAACCATGGCAAACATGATAATTAATTCATCTCCCCTAATGGGTCTC
AGATCACTTCTAGGAAACAAAGTCATAGCAATCCATTTGTGCATGAGCCTAAGTGTAGGATTATGGATATCATTCGTTCT
AGGTTTCTTGCAAATTGGAGCACTAGAAATATCTTCCCAAAACCTATTTTTCTCGAACCCAGAAATTCCTTTCTGGAGAT
CAATTTTACAGGAATCGTAAAAACCAAGAAGTGTACTCAAGCCCTTCCATGTGAGTGTTGTCA

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.53842.1.S2_at     

Putative homologies in rice

Putative homologies in arabidopsis