Browse Element(s) Details


OsAffx.20464.1.S1_at

Description gb:NM_196001.1
DB_XREF= gi:37533361
TID=OsAffx.20464.1
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Oryza sativa (japonica cultivar-group) putative gypsy-type retrotransposon (OSJNBa0022D10.6), mRNA.
PROD=putative gypsy-type retrotransposon
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os10g2138011/11retrotransposon protein, putative, Ty3-gypsy subclass
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os10g21350OsAffx.242.1.S1_at11/1110+10590023..10594592retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g21360Os.15305.1.S1_at11/1110+10600802..10607988N-dimethylguanosine tRNA methyltransferase, putative, expressed
LOC_Os10g21380OsAffx.20464.1.S1_at11/1110+10611540..10613605retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g21390OsAffx.30478.1.S1_at11/1110+10613944..10615648hypothetical protein
LOC_Os10g21390OsAffx.4262.1.S1_at1/1110+10613944..10615648hypothetical protein
LOC_Os10g21400OsAffx.30479.1.S1_at11/1110+10624968..10627769NB-ARC domain containing protein, expressed
LOC_Os10g21410NANA10+10633568..10635640hypothetical protein
LOC_Os10g21420NANA10+10637912..10639326retrotransposon, putative, centromere-specific

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.20464.1.S1_at--470--7011Chr10:10612076..10612100 (25 bp)
GTACTTGTCGACAGAGGCAGCGCCC
LOC_Os10g21380
OsAffx.20464.1.S1_at--295--1031Chr10:10611934..10611958 (25 bp)
AGGTCACTCTTCAGGTCACTTTCTG
LOC_Os10g21380
OsAffx.20464.1.S1_at--767--2631Chr10:10611907..10611931 (25 bp)
AACCAGATAATTTCCGCACCGAGAG
LOC_Os10g21380
OsAffx.20464.1.S1_at--571--6151Chr10:10611872..10611896 (25 bp)
GAGGTCGCCAACTTCGAAACGGCCT
LOC_Os10g21380
OsAffx.20464.1.S1_at--383--8451Chr10:10611819..10611843 (25 bp)
GGCCAAATTCATGGTTGTTCCTCAC
LOC_Os10g21380
OsAffx.20464.1.S1_at--727--3091Chr10:10611761..10611785 (25 bp)
AATAGCATAATCTCCCTCCGAGCAG
LOC_Os10g21380
OsAffx.20464.1.S1_at--658--2091Chr10:10611736..10611760 (25 bp)
ACATCAGGCAATTCTTCGTCTGCGA
LOC_Os10g21380
OsAffx.20464.1.S1_at--526--2751Chr10:10611709..10611733 (25 bp)
AAGAAAGCTGCGACATGGCCCAATC
LOC_Os10g21380
OsAffx.20464.1.S1_at--481--2231Chr10:10611642..10611666 (25 bp)
AAATCAGCCGGCGACATTGAGTTGT
LOC_Os10g21380
OsAffx.20464.1.S1_at--520--6051Chr10:10611624..10611648 (25 bp)
GAGTTGTCTGCTTCCAAAACTTCCA
LOC_Os10g21380
OsAffx.20464.1.S1_at--104--1291Chr10:10611599..10611623 (25 bp)
AGATCTCCATCGACACATCTGATGC
LOC_Os10g21380
Target Sequence 
GTACTTGTCGACAGAGGCAGCGCCCTCAACATCCAATTCTCCAAGACCTTCAAGGACATGGGGCTCTCGCAATCCCTCCT
CCAACCAAGCAAGTCACCATTCCATGGTGTCATCCCTGGCACTTCATCAACTCCCCTTGGCCAGGTCACTCTTCAGGTCA
CTTTCTGCAAACCAGATAATTTCCGCACCGAGAGCGTGGTCTTCGAGGTCGCCAACTTCGAAACGGCCTACCACGCTATC
TTCGGCAGGCCAGCGATGGCCAAATTCATGGTTGTTCCTCACTACGCCTACGCGATGATGAAGATGCCCAGCCCCAATAG
CATAATCTCCCTCCGAGCAGACATCAGGCAATTCTTCGTCTGCGACAAAGAAAGCTGCGACATGGCCCAATCCCTCGAGG
CCATCAAGAGGCTATCGCCAACGACGCATTGGCAAAATCAGCCGGCGACATTGAGTTGTCTGCTTCCAAAACTTCCAAGA
TCTCCATCGACACATCTGATGC

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.20464.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis