Browse Element(s) Details


Os.56299.1.S1_at

Description gb:AK109799.1
DB_XREF= gi:32995008
TID=Os.56299.1
CNT=1
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.56299 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:002-147-F02, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:002-147-F02, full insert sequence.
FL= gb:AK109799.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os11g2479011/11retrotransposon protein, putative, Ty3-gypsy subclass, expressed
LOC_Os02g310004/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os04g402901/11ATPase, AAA family protein
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os11g24760NANA11+13602464..13605469retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os11g24770OsAffx.18996.1.S1_at10/1111+13609305..13611667hypothetical protein
LOC_Os11g24780OsAffx.7192.1.S1_at11/1111+13617725..13621452expressed protein
LOC_Os11g24790Os.56299.1.S1_at11/1111+13630191..13631990retrotransposon protein, putative, Ty3-gypsy subclass, expressed
LOC_Os11g24800Os.29825.2.S1_at11/1111+13634000..13636629expressed protein
LOC_Os11g24810Os.14919.1.S1_at3/1111+13638084..13643523Transposable element protein, putative, MuDR
LOC_Os11g24810OsAffx.29313.1.S1_at1/1111+13638084..13643523Transposable element protein, putative, MuDR
LOC_Os11g24810Os.56216.1.S1_at1/1111+13638084..13643523Transposable element protein, putative, MuDR
LOC_Os11g24820NANA11+13653324..13654256expressed protein
LOC_Os11g24830NANA11+13655377..13659705retrotransposon protein, putative, Ty1-copia subclass

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Gene Ontology Classification
GO idTypeName
GO:0006511biological_processubiquitin-dependent protein catabolism
GO:0005634cellular_componentnucleus
GO:0008540cellular_componentproteasome regulatory particle, base subcomplex (sensu Eukaryota)
GO:0005524molecular_functionATP binding
GO:0016887molecular_functionATPase activity
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.56299.1.S1_at--511--4171Chr11:13631761..13631785 (25 bp)
CCCACCAATAGCCAACCATTTTGCA
LOC_Os11g24790
Os.56299.1.S1_at--205--8833Chr11:15543455..15543479 (25 bp)
TGTTGGCTGAACCAAGTAACTCCAA
NONE
Os.56299.1.S1_at--359--2812Chr11:13631858..13631882 (25 bp)
AAGTAACTCCAACCAGCCCAACATT
LOC_Os11g24790
Os.56299.1.S1_at--819--1651Chr11:13631872..13631896 (25 bp)
AGCCCAACATTTCCTCCTTTGTGTT
LOC_Os11g24790
Os.56299.1.S1_at--104--2091Chr11:13631878..13631902 (25 bp)
ACATTTCCTCCTTTGTGTTGACATG
LOC_Os11g24790
Os.56299.1.S1_at--273--4292Chr11:13631884..13631908 (25 bp)
CCTCCTTTGTGTTGACATGTTGGCT
LOC_Os11g24790
Os.56299.1.S1_at--5--8693Chr11:15543500..15543524 (25 bp)
TGTGTTGACATGTTGGCTGAATGAA
NONE
Os.56299.1.S1_at--827--2331Chr11:13631915..13631939 (25 bp)
AAAGAGAAGTTGATCCTGCTGTTTT
LOC_Os11g24790
Os.56299.1.S1_at--782--5331Chr11:13631920..13631944 (25 bp)
GAAGTTGATCCTGCTGTTTTGAGTA
LOC_Os11g24790
Os.56299.1.S1_at--474--6372Chr11:13631926..13631950 (25 bp)
GATCCTGCTGTTTTGAGTAATTTCG
LOC_Os11g24790
Os.56299.1.S1_at--295--6092Chr11:13631940..13631964 (25 bp)
GAGTAATTTCGAAATTCATTGGGAA
LOC_Os11g24790
Target Sequence 
CCCACCAATAGCCAACCATTTTGCAACTTTGTGAAGTGAATCAGTCCTTCCCAAGAAAGCATTTAAGTGCTCTCACTTTT
GACTTGTTGGCTGAACCAAGTAACTCCAACCAGCCCAACATTTCCTCCTTTGTGTTGACATGTTGGCTGAATGAAAAGAG
AAGTTGATCCTGCTGTTTTGAGTAATTTCGAAATTCATTGGGAA

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.56299.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis