Browse Element(s) Details


OsAffx.20440.1.S1_x_at

Description gb:NM_196086.1
DB_XREF= gi:37533531
TID=OsAffx.20440.1
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Oryza sativa (japonica cultivar-group) putative retrotransposon protein (OSJNBa0083M08.12), mRNA.
PROD=putative retrotransposon protein
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os10g2226011/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os01g151901/11retrotransposon protein, putative, unclassified
LOC_Os03g364701/11retrotransposon protein, putative, unclassified
LOC_Os03g238701/11retrotransposon protein, putative, unclassified
LOC_Os02g239801/11retrotransposon protein, putative, unclassified
LOC_Os11g226901/11retrotransposon protein, putative, unclassified
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os10g22220OsAffx.15648.1.S1_at1/1110+11163371..11166699Zinc knuckle family protein
LOC_Os10g22230NANA10+11174458..11175845Zinc knuckle family protein
LOC_Os10g22240NANA10+11178521..11181474retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g22250OsAffx.22722.1.S1_x_at1/1110+11181967..11184492retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g22260OsAffx.20440.1.S1_at11/1110+11186035..11188953retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g22260OsAffx.20440.1.S1_x_at11/1110+11186035..11188953retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g22260OsAffx.20440.2.S1_x_at3/1110+11186035..11188953retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g22270OsAffx.18344.1.S1_at11/1110+11191642..11191958hypothetical protein
LOC_Os10g22290OsAffx.30497.1.S1_at10/1110+11194428..11196644hypothetical protein
LOC_Os10g22290Os.41248.5.S1_x_at5/1110+11194428..11196644hypothetical protein
LOC_Os10g22290Os.41248.2.A1_at2/1110+11194428..11196644hypothetical protein
LOC_Os10g22300OsAffx.20439.1.S1_at11/1110+11197659..11204011NB-ARC domain containing protein, expressed
LOC_Os10g22310Os.46885.2.S1_x_at11/1110+11206257..11207568glutathione transferase, putative, expressed
LOC_Os10g22310Os.46885.1.S1_x_at11/1110+11206257..11207568glutathione transferase, putative, expressed
LOC_Os10g22310Os.46885.1.S1_at11/1110+11206257..11207568glutathione transferase, putative, expressed
LOC_Os10g22310Os.46885.2.S1_at10/1110+11206257..11207568glutathione transferase, putative, expressed
LOC_Os10g22320NANA10+11208808..11209218hypothetical protein
LOC_Os10g22330Os.7061.1.S1_at10/1110+11211712..11214648Adapter-related protein complex 4 sigma 1 subunit, putative, expressed

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.20440.1.S1_x_at--242--6591Chr10:11186753..11186777 (25 bp)
GATTGCTGAGCTTCAAGATACCAAC
LOC_Os10g22260
OsAffx.20440.1.S1_x_at--575--4371Chr10:11186733..11186757 (25 bp)
CCAACTTTGAGTTGACTAGTTCGTC
LOC_Os10g22260
OsAffx.20440.1.S1_x_at--712--10051Chr10:11186645..11186741 (25 bp)
TAGTTCGTCAAAAGTGCAAGCTGCC
LOC_Os10g22260
OsAffx.20440.1.S1_x_at--722--1596Chr11:12580749..12580768 (20 bp)
AGCTGCCAAGATCACCGAGCCGGAG
LOC_Os11g22690
OsAffx.20440.1.S1_x_at--13--4491Chr10:11186609..11186633 (25 bp)
GCCGGAGAAACGGATCAAAGCTCTT
LOC_Os10g22260
OsAffx.20440.1.S1_x_at--286--6212Chr10:11186436..11186460 (25 bp)
GAGGCTCAGTTTGATGTCTTGATTA
LOC_Os10g22260
OsAffx.20440.1.S1_x_at--811--1231Chr10:11186377..11186401 (25 bp)
AGTTGCCAATGCTGCTACACCGCTG
LOC_Os10g22260
OsAffx.20440.1.S1_x_at--789--8851Chr10:11186354..11186378 (25 bp)
TGATCCCAGCCATGTTCTACAATAA
LOC_Os10g22260
OsAffx.20440.1.S1_x_at--219--3171Chr10:11186314..11186338 (25 bp)
AATTGATGCTGTTGAAGTCTTCGAC
LOC_Os10g22260
OsAffx.20440.1.S1_x_at--678--3731Chr10:11186286..11186310 (25 bp)
CTAAGAGCTGCTCCGGACACATATT
LOC_Os10g22260
OsAffx.20440.1.S1_x_at--114--2811Chr10:11186141..11186165 (25 bp)
AAGATGCTCTTGACCTCATTAATGA
LOC_Os10g22260
Target Sequence 
GATTGCTGAGCTTCAAGATACCAACTTTGAGTTGACTAGTTCGTCAAAAGTGCAAGCTGCCAAGATCACCGAGCCGGAGA
AACGGATCAAAGCTCTTGAAAAGGACAAGGGTGATCTCACAAAGGAAAGAGACTTGGCCATCAAAGATGTCGAAGATCGC
AAAATTAAATCTGAGGCTCAGTTTGATGTCTTGATTACCATGATTAAAAAACTTGAAGGGGCTAGAGATGAAGTTGCCAA
TGCTGCTACACCGCTGATCCCAGCCATGTTCTACAATAACAATGGTCCGAGTACAATTGATGCTGTTGAAGTCTTCGACA
AACTAAGAGCTGCTCCGGACACATATTTCAAGAATATTAATGAGGCTGGAAGCATGGGAGCAAGCATGGCTCTGGCGATG
ACTAAGTCCTTGTATTCGAAGATCGACATTGATGCCATTGATGGCTTTGTAGATGGAACAAGCGAAGAAGATGCTCTTGA
CCTCATTAATGA

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.20440.1.S1_x_at     

Putative homologies in rice

Putative homologies in arabidopsis