Browse Element(s) Details


Os.56070.1.S1_x_at

Description gb:AK109206.1
DB_XREF= gi:32994415
TID=Os.56070.1
CNT=1
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.56070 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:002-156-C09, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:002-156-C09, full insert sequence.
FL= gb:AK109206.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os08g126801/11zinc finger domain, LSD1 subclass family protein, expressed
LOC_Os02g019301/11expressed protein
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os08g12620Os.48015.1.A1_x_at1/118+7458351..7458743retrotransposon protein, putative, unclassified
LOC_Os08g12630OsAffx.5794.1.S1_at10/118+7464383..7465418hypothetical protein
LOC_Os08g12640NANA8+7469281..7472083hypothetical protein
LOC_Os08g12650OsAffx.22699.1.S1_x_at1/118+7473156..7475802retrotransposon protein, putative, unclassified
LOC_Os08g12650OsAffx.20615.1.S1_at1/118+7473156..7475802retrotransposon protein, putative, unclassified
LOC_Os08g12650OsAffx.8201.1.S1_x_at1/118+7473156..7475802retrotransposon protein, putative, unclassified
LOC_Os08g12660OsAffx.16960.1.S1_at10/118+7479598..7480571hypothetical protein
LOC_Os08g12660OsAffx.29667.1.S1_at1/118+7479598..7480571hypothetical protein
LOC_Os08g12670OsAffx.16961.1.S1_at11/118+7481445..7481831hypothetical protein
LOC_Os08g12680OsAffx.5795.1.S1_at11/118+7482311..7504175zinc finger domain, LSD1 subclass family protein, expressed
LOC_Os08g12680Os.56070.1.S1_x_at1/118+7482311..7504175zinc finger domain, LSD1 subclass family protein, expressed
LOC_Os08g12690NANA8+7515308..7516878retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os08g12700NANA8+7519083..7525264retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os08g12710NANA8+7526782..7528913retrotransposon protein, putative, Ty3-gypsy subclass

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Gene Ontology Classification
GO idTypeName
GO:0006355biological_processregulation of transcription, DNA-dependent
GO:0003677molecular_functionDNA binding
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.56070.1.S1_x_at--1005--2831Chr11:19463952..19463976 (25 bp)
AAGTACATCCTCCAGCTCGAGCACG
NONE
Os.56070.1.S1_x_at--473--9352Chr11:19463968..19463992 (25 bp)
TCGAGCACGACTACCCCTGGGACGA
NONE
Os.56070.1.S1_x_at--639--433Chr11:19464018..19464042 (25 bp)
ATCTTCCAGCAGATGATCCTCTTCA
NONE
Os.56070.1.S1_x_at--280--1532Chr11:19464025..19464049 (25 bp)
AGCAGATGATCCTCTTCACGGCCGC
NONE
Os.56070.1.S1_x_at--147--9692Chr11:19464040..19464064 (25 bp)
TCACGGCCGCCATGGAATTCGAGGA
NONE
Os.56070.1.S1_x_at--338--991Chr11:19464140..19464164 (25 bp)
AGGAGTGCAGGTCTGTTGGGTTGCC
NONE
Os.56070.1.S1_x_at--22--3372Chr11:19464316..19464340 (25 bp)
CACCGCTGCCATCGAACAGGAAGAA
NONE
Os.56070.1.S1_x_at--223--7614Chr11:19464373..19464397 (25 bp)
GGGCAATTTTGTCCAATCTTTTTTG
NONE
Os.56070.1.S1_x_at--432--3651Chr11:19464390..19464414 (25 bp)
CTTTTTTGTAAATGCATCCAAATGG
NONE
Os.56070.1.S1_x_at--934--1091Chr11:19464420..19464444 (25 bp)
AGTGGCATGTATCAAATATGTGTAA
NONE
Os.56070.1.S1_x_at--99--5011Chr11:19464455..19464479 (25 bp)
GCATGGTTCCAAATACTTGAATACT
NONE
Target Sequence 
AAGTACATCCTCCAGCTCGAGCACGACTACCCCTGGGACGACGACCCCAAGTCCATCAGCCGCCTCATCTTCCAGCAGAT
GATCCTCTTCACGGCCGCCATGGAATTCGAGGAATTCAGGGGAGACGTGGACTTCTGAGGGAGGTTTCGTGGGGTTTTTA
GGCCAGTGAGGGACCGGCTGGCGGCGAGAGGAGTGCAGGTCTGTTGGGTTGCCGTCGGCGGCTGCGGCGAGGGGGTTCGG
AGGCCGGGCCGCTCGCTTCGCCACTGCTGCCGCCGCCGCCGCCTCCTGCTGCCGCCGCCGCCGCCGCCCACCGCTCGCTG
CTGCTACTGCAGCTCGCCGCCCGCCGCTTGCCGCCGGGCCACTCCACCGCTGCCATCGAACAGGAAGAAGAATGGAGAAG
AAGGGGAGGAAGGAAGAAGAAGGGCAATTTTGTCCAATCTTTTTTGTAAATGCATCCAAATGGTAAATAGTGGCATGTAT
CAAATATGTGTAAAATCATAATGGCATGGTTCCAAATACTTGAATACT

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.56070.1.S1_x_at     

Putative homologies in rice

Putative homologies in arabidopsis