Browse Element(s) Details


OsAffx.20553.1.S1_at

Description gb:NM_195654.1
DB_XREF= gi:37532667
TID=OsAffx.20553.1
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Oryza sativa (japonica cultivar-group) putative retroelement (OSJNAa0053D03.7), mRNA.
PROD=putative retroelement
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os10g1733011/11retrotransposon protein, putative, unclassified
LOC_Os04g217503/11retrotransposon protein, putative, unclassified
LOC_Os11g225301/11retrotransposon protein, putative, unclassified
LOC_Os02g260601/11retrotransposon protein, putative, unclassified
LOC_Os08g179101/11retrotransposon protein, putative, unclassified, expressed
LOC_Os04g164001/11retrotransposon protein, putative, unclassified
LOC_Os07g246401/11retrotransposon protein, putative, unclassified
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os10g17280Os.10703.1.S1_a_at11/1110+8360530..8365878ATP synthase gamma chain, mitochondrial precursor, putative, expressed
LOC_Os10g17280Os.10703.2.S1_x_at10/1110+8360530..8365878ATP synthase gamma chain, mitochondrial precursor, putative, expressed
LOC_Os10g17290OsAffx.20554.1.S1_at11/1110+8368042..8369336hypothetical protein
LOC_Os10g17300OsAffx.3761.1.S1_x_at2/1110+8371079..8374290hypothetical protein
LOC_Os10g17300OsAffx.30421.1.S1_s_at1/1110+8371079..8374290hypothetical protein
LOC_Os10g17300OsAffx.18377.1.S1_x_at1/1110+8371079..8374290hypothetical protein
LOC_Os10g17310NANA10+8374691..8377727retrotransposon protein, putative, unclassified
LOC_Os10g17320Os.45977.1.S1_at1/1110+8381966..8385632retrotransposon protein, putative, unclassified
LOC_Os10g17320Os.55127.1.S1_at1/1110+8381966..8385632retrotransposon protein, putative, unclassified
LOC_Os10g17330OsAffx.20553.1.S1_at11/1110+8389166..8390194retrotransposon protein, putative, unclassified
LOC_Os10g17340NANA10+8397189..8403744retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g17350OsAffx.31869.5.S1_x_at2/1110+8405930..8411914retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g17350Os.10731.2.A1_at2/1110+8405930..8411914retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g17350Os.47114.1.S1_x_at1/1110+8405930..8411914retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g17360NANA10+8413909..8420575retrotransposon protein, putative, Ty3-gypsy subclass

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.20553.1.S1_at--188--3033Chr08:10983215..10983235 (21 bp)
AATCCTTTCCCGGTGAACATGAAGC
LOC_Os08g17910
OsAffx.20553.1.S1_at--1047--8411Chr10:8389635..8389659 (25 bp)
GGCCGGTAAACCAAGACTGTGATCA
LOC_Os10g17330
OsAffx.20553.1.S1_at--809--3411Chr10:8389595..8389619 (25 bp)
CAGAAAAGCTCAATGGTGCCCTTCT
LOC_Os10g17330
OsAffx.20553.1.S1_at--630--2491Chr10:8389525..8389549 (25 bp)
AACAGAGTGCGCTTTCATGAGGTAG
LOC_Os10g17330
OsAffx.20553.1.S1_at--983--971Chr10:8389497..8389521 (25 bp)
AGGAGACTAACAATCGGCTGAAGAA
LOC_Os10g17330
OsAffx.20553.1.S1_at--15--7452Chr10:8389377..8389401 (25 bp)
GTGTCGTGACTGCATCGGTAAACTT
LOC_Os10g17330
OsAffx.20553.1.S1_at--411--2511Chr10:8389357..8389381 (25 bp)
AACTTGGTTTTTACATTGACTGCGG
LOC_Os10g17330
OsAffx.20553.1.S1_at--50--3611Chr10:8389344..8389368 (25 bp)
CATTGACTGCGGAATTTGGAGCTGA
LOC_Os10g17330
OsAffx.20553.1.S1_at--144--8551Chr10:8389328..8389352 (25 bp)
TGGAGCTGAACAAGCCGATGTTGAT
LOC_Os10g17330
OsAffx.20553.1.S1_at--69--7892Chr04:12283709..12283733 (25 bp)
GGTTTTGTCACTAGAGCAAGCAGTT
LOC_Os04g21750
OsAffx.20553.1.S1_at--198--3295Chr07:14019062..14019082 (21 bp)
CAAACCATTGTACATTAACGGCTAT
LOC_Os07g24640
Target Sequence 
AATCCTTTCCCGGTGAACATGAAGCAATCGGCTGAGGCAAACAAGAGTTCCTGTTCATCAAAGATTGGGCCGGTAAACCA
AGACTGTGATCAAGAAGATGATGAGGACAGAAAAGCTCAATGGTGCCCTTCTGGTATTTTCACGAAGAATCAGAAGAGAA
GGGTTCAAAGGTTAAGGAACAGAGTGCGCTTTCATGAGGTAGAACAGGAGACTAACAATCGGCTGAAGAAAACAAAGCCG
AGGCAAGAGTGGCGTGTTAAGAACCAAGCTGCCACAGCCGATGAGGTCAAAGCCGATGAAGCAAAAAGGTTTGCTAAAGG
GAAGAGTGTCGTGACTGCATCGGTAAACTTGGTTTTTACATTGACTGCGGAATTTGGAGCTGAACAAGCCGATGTTGATG
AAGTCGAGGAAGCTTCGGCTAGGTTGGTTTTGTCACTAGAGCAAGCAGTTTTTGAGAAGCCAAAAGGGACAGACAATCGG
CATCTCAAACCATTGTACATTAACGGCTAT

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 OsAffx.20553.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis