Browse Element(s) Details


Os.52172.1.S1_x_at

Description gb:AK102311.1
DB_XREF= gi:32987520
TID=Os.52172.1
CNT=2
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.52172 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:J033090D11, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:J033090D11, full insert sequence.
FL= gb:AK102311.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os03g4757011/11retrotransposon, putative, centromere-specific
LOC_Os03g361305/11retrotransposon, putative, centromere-specific, expressed
LOC_Os09g038701/11retrotransposon protein, putative, Ty3-gypsy subclass
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os03g47530NANA3+26827317..26828548Glycosyl transferase family 8 protein, expressed
LOC_Os03g47540OsAffx.25610.1.S1_at11/113+26831220..26834431hypothetical protein
LOC_Os03g47540OsAffx.25610.1.S1_s_at11/113+26831220..26834431hypothetical protein
LOC_Os03g47550Os.1799.1.S1_a_at11/113+26834905..26837463expressed protein
LOC_Os03g47560NANA3+26841183..26845572hypothetical protein
LOC_Os03g47564NANA3+26847452..26848026hypothetical protein
LOC_Os03g47570Os.52172.1.S1_at11/113+26849321..26852129retrotransposon, putative, centromere-specific
LOC_Os03g47570Os.52172.1.S1_x_at11/113+26849321..26852129retrotransposon, putative, centromere-specific
LOC_Os03g47574NANA3+26852696..26853007hypothetical protein
LOC_Os03g47580Os.48021.1.S1_x_at11/113+26866979..26873644Ubiquitin-conjugating enzyme family protein, expressed
LOC_Os03g47580Os.18766.1.S1_s_at6/113+26866979..26873644Ubiquitin-conjugating enzyme family protein, expressed
LOC_Os03g47580Os.18766.1.S1_x_at5/113+26866979..26873644Ubiquitin-conjugating enzyme family protein, expressed
LOC_Os03g47580Os.52172.2.S1_x_at1/113+26866979..26873644Ubiquitin-conjugating enzyme family protein, expressed
LOC_Os03g47584NANA3+26874819..26875562hypothetical protein

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.52172.1.S1_x_at--982--1235Chr09:1959742..1959766 (25 bp)
AGTTGCATAGCTTCTGTTTGGTGGC
LOC_Os09g03870
Os.52172.1.S1_x_at--1088--6851Chr03:26850896..26850920 (25 bp)
GTTTGGTTTCTATTTAGTGTCGAGT
LOC_Os03g47570
Os.52172.1.S1_x_at--1085--7451Chr03:26850880..26850904 (25 bp)
GTGTCGAGTATGTTTCTATTTATCA
LOC_Os03g47570
Os.52172.1.S1_x_at--1079--3674Chr08:12816164..12816188 (25 bp)
CTATTTATCACCTGGTACCTTTCCA
NONE
Os.52172.1.S1_x_at--843--3274Chr05:13857034..13857054 (21 bp)
CAAACCGAGGCCGAGTGGGATTCCT
NONE
Os.52172.1.S1_x_at--840--8411Chr03:26850799..26850823 (25 bp)
GGCCGAGACTTGTGAGTCCGATTCA
LOC_Os03g47570
Os.52172.1.S1_x_at--834--1991Chr03:26850773..26850797 (25 bp)
ACTCCCTCATGATTGTTTCTGTCTG
LOC_Os03g47570
Os.52172.1.S1_x_at--189--10611Chr03:26850757..26850781 (25 bp)
TTCTGTCTGGGTTGGTTAAACACTT
LOC_Os03g47570
Os.52172.1.S1_x_at--506--1933Chr08:12816343..12816800 (25 bp)
ACGGAACCGACATAACTTGAGCATT
NONE
Os.52172.1.S1_x_at--118--6092Chr03:26850588..26850612 (25 bp)
GAGTCCCTTTGACCTTACATTGAGG
LOC_Os03g47570
Os.52172.1.S1_x_at--1138--8872Chr03:26850568..26850592 (25 bp)
TGAGGTCCTTGAGTCGGTTTTTGGT
LOC_Os03g47570
Target Sequence 
AGTTGCATAGCTTCTGTTTGGTGGCTGTGCCGTGATGGTGCGCTTGTGCATGTGCGCGTGAGAAAGATGGAAGGAGAATA
TTAGATTAGATTGACTGGTTTGGTTTCTATTTAGTGTCGAGTATGTTTCTATTTATCACCTGGTACCTTTCCAAACCGAG
GCCGAGTGGGATTCCTTCCCTTGCGTCATCTCGTGGCCGAGACTTGTGAGTCCGATTCACACTCCCTCATGATTGTTTCT
GTCTGGGTTGGTTAAACACTTCGGTGAAATTTTATTTTGGTGTCGGATTCAAGATCCGTTTGCAAAAACGGAACCGACAT
AACTTGAGCATTCCATTTTTGTATAATTTTTAATTTTGGTTTGGACTTTTACAGTTGAGTCCCTGTAATTTTCATATTTA
CATTTGAGTCCCTTTGACCTTACATTGAGGTCCTTGAGTCGGTTTTTGGT

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.52172.1.S1_x_at     

Putative homologies in rice

Putative homologies in arabidopsis