Browse Element(s) Details


OsAffx.20809.1.S1_at

Description gb:NM_194541.1
DB_XREF= gi:37530441
TID=OsAffx.20809.1
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Oryza sativa (japonica cultivar-group) putative retroelement (OSJNBa0015O22.7), mRNA.
PROD=putative retroelement
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os10g0191011/11retrotransposon protein, putative, Ty1-copia subclass, expressed
LOC_Os09g269701/11retrotransposon protein, putative, Ty1-copia subclass, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os10g01850Os.19099.1.S1_x_at11/1110+535554..542282retrotransposon, putative, centromere-specific
LOC_Os10g01850OsAffx.30486.1.S1_at1/1110+535554..542282retrotransposon, putative, centromere-specific
LOC_Os10g01850Os.49373.1.S1_at1/1110+535554..542282retrotransposon, putative, centromere-specific
LOC_Os10g01860OsAffx.20812.1.S1_at11/1110+544493..545748retrotransposon protein, putative, LINE subclass
LOC_Os10g01870OsAffx.18080.1.S1_at11/1110+546822..548871hypothetical protein
LOC_Os10g01880NANA10+551558..553967hypothetical protein
LOC_Os10g01890OsAffx.435.1.S1_at11/1110+554759..558166retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g01890OsAffx.19377.1.S1_at1/1110+554759..558166retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g01900OsAffx.20810.1.S1_at11/1110+558728..559919retrotransposon protein, putative, LINE subclass
LOC_Os10g01910OsAffx.20809.1.S1_at11/1110+560328..565291retrotransposon protein, putative, Ty1-copia subclass, expressed
LOC_Os10g01920Os.46590.1.S1_at11/1110+567171..568806Transferase family protein, expressed
LOC_Os10g01930OsAffx.20808.1.S1_x_at11/1110+575479..576822Transferase family protein, expressed
LOC_Os10g01930OsAffx.20808.1.S1_at11/1110+575479..576822Transferase family protein, expressed
LOC_Os10g01930OsAffx.20808.2.S1_s_at1/1110+575479..576822Transferase family protein, expressed
LOC_Os10g01940NANA10+578743..581549hypothetical protein
LOC_Os10g01950OsAffx.22699.1.S1_x_at2/1110+582287..586057retrotransposon protein, putative, unclassified
LOC_Os10g01960NANA10+586385..589183retrotransposon protein, putative, unclassified

Select all/Clear all

Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.20809.1.S1_at--313--8871Chr10:561866..561890 (25 bp)
TGATGATATCATTGTGGCAAGCTCC
LOC_Os10g01910
OsAffx.20809.1.S1_at--536--8231Chr10:561851..561875 (25 bp)
GGCAAGCTCCACACAGAAGGCAACA
LOC_Os10g01910
OsAffx.20809.1.S1_at--574--10091Chr10:561350..561374 (25 bp)
TAGGAGGTCTACTGGAGGCTTTGTT
LOC_Os10g01910
OsAffx.20809.1.S1_at--1074--911Chr10:561335..561359 (25 bp)
AGGCTTTGTTGTTTACTTGGGATCA
LOC_Os10g01910
OsAffx.20809.1.S1_at--714--2271Chr10:561311..561335 (25 bp)
AAATCTGGTATCCTGGAGTGCTACA
LOC_Os10g01910
OsAffx.20809.1.S1_at--402--3292Chr02:2286287..2286306 (20 bp)
CAAAGCAAGCTACAGTCTCCAGGTC
NONE
OsAffx.20809.1.S1_at--990--7851Chr10:561184..561208 (25 bp)
GGTATTGATTCACCTCCATGTGCAA
LOC_Os10g01910
OsAffx.20809.1.S1_at--41--2071Chr10:561129..561153 (25 bp)
ACTTGTTAGTAAATCCTGTGTTTCA
LOC_Os10g01910
OsAffx.20809.1.S1_at--1048--8672Chr09:16400132..16400156 (25 bp)
TGTGTTTCATGCTCGTACTAAGCAT
LOC_Os09g26970
OsAffx.20809.1.S1_at--1068--8471Chr10:560999..561023 (25 bp)
TGGCTTTACTAAATCTCTTCCTGTG
LOC_Os10g01910
OsAffx.20809.1.S1_at--797--451Chr10:560987..561011 (25 bp)
ATCTCTTCCTGTGCAACAGTTTCAG
LOC_Os10g01910
Target Sequence 
TGATGATATCATTGTGGCAAGCTCCACACAGAAGGCAACAGATGCTTTGTTAAGTGATTTGAAGAAGGATTTTGCCCTTA
AGGATTTGGGAGATTTGCATTACTTTCTTGGCATTGAAAAGGTTAGTGATGATGAAGATTGGGCTGGATCTGTTGATGAT
AGGAGGTCTACTGGAGGCTTTGTTGTTTACTTGGGATCAAATCTGGTATCCTGGAGTGCTACAAAGCAAGCTACAGTCTC
CAGGTCCAGTACAGAAGCAGAATATAAAGCTGTTGCTAATGCAACGGCAGAGACTTTGTTGAAGGAAATTGGTATTGATT
CACCTCCATGTGCAAGATTATGGTGTGATAATATGGGAGCTACATACTTGTTAGTAAATCCTGTGTTTCATGCTCGTACT
AAGCATATAGAGGTAGATTATCATTTTGTCAGAGAAAGAGTTGCAAGTAAGCAATTAGAGATCAGGTTTATCTCCTTAGG
GGATCAAGAGGTAGATGGCTTTACTAAATCTCTTCCTGTGCAACAGTTTCAG

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.20809.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis