Browse Element(s) Details


Os.54396.1.S1_at

Description gb:AK103887.1
DB_XREF= gi:32989096
TID=Os.54396.1
CNT=1
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.54396 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:J033150C13, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:J033150C13, full insert sequence.
FL= gb:AK103887.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os02g3394411/11transposon protein, putative, CACTA, En/Spm sub-class, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os02g33900OsAffx.25517.1.S1_at2/112+20197065..20199076transposon protein, putative, unclassified
LOC_Os02g33910NANA2+20201961..20207370retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os02g33920Os.43567.1.S1_x_at4/112+20209994..20211884transposon protein, putative, unclassified
LOC_Os02g33920Os.38172.1.S1_x_at4/112+20209994..20211884transposon protein, putative, unclassified
LOC_Os02g33920Os.53217.1.S1_x_at4/112+20209994..20211884transposon protein, putative, unclassified
LOC_Os02g33930OsAffx.2852.1.S1_at11/112+20215156..20218546hypothetical protein
LOC_Os02g33930Os.55788.1.S1_at4/112+20215156..20218546hypothetical protein
LOC_Os02g33944OsAffx.2853.1.S1_at11/112+20221158..20229248transposon protein, putative, CACTA, En/Spm sub-class, expressed
LOC_Os02g33944Os.54396.1.S1_at11/112+20221158..20229248transposon protein, putative, CACTA, En/Spm sub-class, expressed
LOC_Os02g33960NANA2+20234187..20235137retrotransposon protein, putative, Ty1-copia subclass
LOC_Os02g33970NANA2+20235705..20237471retrotransposon protein, putative, Ty1-copia subclass
LOC_Os02g33980OsAffx.12338.1.S1_at11/112+20252258..20252653hypothetical protein

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.54396.1.S1_at--9--331Chr02:20228079..20228103 (25 bp)
ATGAACCCAGGGTGGTCTGTAGTAA
LOC_Os02g33944
Os.54396.1.S1_at--424--1611Chr02:20228165..20228189 (25 bp)
AGCTGAGCCTTTTCATGTTTCACAC
LOC_Os02g33944
Os.54396.1.S1_at--1101--5671Chr02:20228272..20228296 (25 bp)
GACTTGGCACTGAGGTACTTTGGTA
LOC_Os02g33944
Os.54396.1.S1_at--590--7831Chr02:20228293..20228317 (25 bp)
GGTACTTTGTTAGCTCCATTCAAGG
LOC_Os02g33944
Os.54396.1.S1_at--1124--9811Chr02:20228915..20228939 (25 bp)
TAAAACCGCGTTGTCATGCACATGC
LOC_Os02g33944
Os.54396.1.S1_at--954--651Chr02:20228930..20228954 (25 bp)
ATGCACATGCTCCTACAGGTATGGA
LOC_Os02g33944
Os.54396.1.S1_at--706--1211Chr02:20229032..20229056 (25 bp)
AGTTTTCACATGTGGCAAGGCCTAC
LOC_Os02g33944
Os.54396.1.S1_at--870--4451Chr02:20229051..20229075 (25 bp)
GCCTACGTCAAGCAGTCTATTGGTT
LOC_Os02g33944
Os.54396.1.S1_at--157--931Chr02:20229101..20229125 (25 bp)
AGGCTTGTACTGTTGCAATGCCTCA
LOC_Os02g33944
Os.54396.1.S1_at--974--8332Chr06:6839316..6839336 (21 bp)
GGCTGTAGCTTTGTTCTAGTTCTAT
NONE
Os.54396.1.S1_at--690--5731Chr02:20229185..20229209 (25 bp)
GACTGTGCATTCCTAGACTGTGAAC
LOC_Os02g33944
Target Sequence 
ATGAACCCAGGGTGGTCTGTAGTAAGGAAAATGAAACCCATGGACATATATGATACTGGCAAAGAGGAATGGATAGATGA
GATGGAAGCTGAGCCTTTTCATGTTTCACACCTCGGGGAGTTATTCGATCAATCAAACAATCAACACTGGGTTAGAGCTG
ATGTTGAAGGAACAATGGTTGATGCTAATAATGGACTTGGCACTGAGGTACTTTGGTACTTTGTTAGCTCCATTCAAGGA
AATTAAAACCGCGTTGTCATGCACATGCTCCTACAGGTATGGAAAGGAATAAACAATACAAGATGCTGGAAGAGAATGGT
AAAAACTTAATAGTTATCCAAGTCAGTAGAGAACAAATGAAGTTTTCACATGTGGCAAGGCCTACGTCAAGCAGTCTATT
GGTTACCTAGTTGTAGCTGTGATTTTGCAAGGCTTGTACTGTTGCAATGCCTCATGTTATTCCCCCTTTACCTGTAGGCT
GTAGCTTTGTTCTAGTTCTATTTAAGTCTTTTGGACTGTGCATTCCTAGACTGTGAAC

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.54396.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis