Browse Element(s) Details


Os.55580.1.S1_at

Description gb:AK108357.1
DB_XREF= gi:32993566
TID=Os.55580.1
CNT=1
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.55580 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:002-142-C06, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:002-142-C06, full insert sequence.
FL= gb:AK108357.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os03g416502/11hypothetical protein
LOC_Os12g414401/11retrotransposon protein, putative, LINE subclass
LOC_Os11g443701/11hypothetical protein
LOC_Os03g572301/11hypothetical protein
LOC_Os01g592201/11retrotransposon protein, putative, unclassified
LOC_Os10g030401/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os08g197501/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os07g436101/11hypothetical protein
LOC_Os02g399401/11hypothetical protein
LOC_Os11g246401/11hypothetical protein
LOC_Os12g159201/11laccase family protein, putative
LOC_Os03g356301/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os07g300401/11retrotransposon protein, putative, unclassified
LOC_Os01g325001/11retrotransposon protein, putative, Ty3-gypsy subclass
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os03g41600OsAffx.25472.1.S1_at11/113+23082591..23083514hypothetical protein
LOC_Os03g41612Os.18028.1.S1_at11/113+23090088..23094832ribosomal 5S rRNA E-loop binding protein Ctc/L25/TL5 containing protein, expressed
LOC_Os03g41624Os.47004.1.S1_at3/113+23097389..23101835retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g41624OsAffx.13882.2.S1_at2/113+23097389..23101835retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g41640OsAffx.13291.1.S1_at10/113+23104041..23105174GRF zinc finger family protein
LOC_Os03g41650OsAffx.25473.1.S1_at11/113+23105923..23108281hypothetical protein
LOC_Os03g41650Os.55580.1.S1_at2/113+23105923..23108281hypothetical protein
LOC_Os03g41650OsAffx.9508.1.S1_at1/113+23105923..23108281hypothetical protein
LOC_Os03g41662NANA3+23110201..23110707hypothetical protein
LOC_Os03g41674NANA3+23111383..23113639hypothetical protein
LOC_Os03g41690NANA3+23120066..23120449hypothetical protein
LOC_Os03g41700OsAffx.22385.1.S1_x_at3/113+23121732..23124692retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g41700OsAffx.20329.1.S1_at1/113+23121732..23124692retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g41710OsAffx.31869.1.S1_at8/113+23127670..23130923retrotransposon protein, putative, unclassified
LOC_Os03g41710Os.48015.1.A1_at4/113+23127670..23130923retrotransposon protein, putative, unclassified
LOC_Os03g41710OsAffx.3613.1.S1_at4/113+23127670..23130923retrotransposon protein, putative, unclassified
LOC_Os03g41710OsAffx.31869.5.S1_x_at4/113+23127670..23130923retrotransposon protein, putative, unclassified
LOC_Os03g41710OsAffx.3613.1.S1_x_at3/113+23127670..23130923retrotransposon protein, putative, unclassified
LOC_Os03g41710OsAffx.27522.1.S1_x_at2/113+23127670..23130923retrotransposon protein, putative, unclassified
LOC_Os03g41710Os.48015.1.A1_x_at2/113+23127670..23130923retrotransposon protein, putative, unclassified
LOC_Os03g41710OsAffx.31869.4.S1_x_at1/113+23127670..23130923retrotransposon protein, putative, unclassified
LOC_Os03g41710OsAffx.31869.2.S1_at1/113+23127670..23130923retrotransposon protein, putative, unclassified
LOC_Os03g41710OsAffx.16187.1.S1_at1/113+23127670..23130923retrotransposon protein, putative, unclassified
LOC_Os03g41710Os.20177.1.S1_at1/113+23127670..23130923retrotransposon protein, putative, unclassified
LOC_Os03g41720NANA3+23131269..23132114hypothetical protein

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.55580.1.S1_at--374--3073Chr02:6518573..6518597 (25 bp)
AATCTATCGGCTACGTTGGCGTTGT
NONE
Os.55580.1.S1_at--598--10851Chr02:6518588..6518612 (25 bp)
TTGGCGTTGTTCAAGGCTACATCTG
NONE
Os.55580.1.S1_at--252--4851Chr02:6518603..6518627 (25 bp)
GCTACATCTGTATATTCGACCTCTT
NONE
Os.55580.1.S1_at--545--41163Chr12:14726870..14726891 (22 bp)
ATCATGTCTCTGTTAATCTAGTCTT
NONE
Os.55580.1.S1_at--652--93518Chr12:9337188..9337212 (25 bp)
TCGCTTTAGGGTTTCTGCCAGTATC
NONE
Os.55580.1.S1_at--292--81348Chr12:2502920..2502943 (24 bp)
GGACATCTACCACCCTAAAAATCAG
NONE
Os.55580.1.S1_at--186--10451Chr02:6518887..6518911 (25 bp)
TTAGAGCCATGATCCCTAGCCTGCT
NONE
Os.55580.1.S1_at--236--4912Chr11:20153573..20153592 (20 bp)
GCTTCTTGATTACCTAGTGCTGCAT
NONE
Os.55580.1.S1_at--187--10451Chr02:6518962..6518986 (25 bp)
TTAGAGTCATGATCCCTAGCCTGCT
NONE
Os.55580.1.S1_at--2--691Chr02:6519129..6519153 (25 bp)
ATGACATCGGATCTTCATCTTCAGC
NONE
Os.55580.1.S1_at--745--9633Chr02:6519149..6519173 (25 bp)
TCAGCCGATGAATACTTTAACCTTC
NONE
Target Sequence 
AATCTATCGGCTACGTTGGCGTTGTTCAAGGCTACATCTGTATATTCGACCTCTTGGATTGCTCTGGTTCGGTTGATATT
TTTGCCTACCAATTTATCATGTCTCTGTTAATCTAGTCTTAGCATATCGATTTAGCTCTATCCGCTGCTTCTCGCTTTAG
GGTTTCTGCCAGTATCGGCTAAATCGTCTTGCTAGATTAGATTATCTTGGACATCTACCACCCTAAAAATCAGTCAATGG
CTTGATTGTATAGATATTATGTTTCTTTTCATACTTAGTGCTGCATCAGTTAAGTTTGATATACTAAGCCGTGCTTAGAG
CCATGATCCCTAGCCTGCTTCTTGATTACCTAGTGCTGCATCAGTTAAGTTTGATCTACTAAGCCGTGCTTAGAGTCATG
ATCCCTAGCCTGCTTCTTTGATTGCAAATAAGGGTTTCATTGGGGTTTCAGCCGATAAGGTATCTGGATGTTGTATCAGC
TTACAAGGATTACATATAGATTAGATTTAGCCGATGACAATAAAGATTTTATTATTTATCTAATATTGTGGATTTTATGA
CATCGGATCTTCATCTTCAGCCGATGAATACTTTAACCTTC

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.55580.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis