Browse Element(s) Details


Os.56209.1.S1_at

Description gb:AK109616.1
DB_XREF= gi:32994825
TID=Os.56209.1
CNT=1
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.56209 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:002-137-H01, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:002-137-H01, full insert sequence.
FL= gb:AK109616.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os08g3359011/11Helix-loop-helix DNA-binding domain containing protein, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os08g33550OsAffx.24224.1.S1_at1/118+20816117..20818853transposon protein, putative, Mutator sub-class
LOC_Os08g33560Os.31312.2.S1_x_at5/118+20820315..20823658retrotransposon protein, putative, unclassified
LOC_Os08g33560Os.31312.5.S1_x_at4/118+20820315..20823658retrotransposon protein, putative, unclassified
LOC_Os08g33570OsAffx.22492.1.S1_x_at1/118+20824597..20830433retrotransposon protein, putative, unclassified
LOC_Os08g33570OsAffx.22492.1.S1_at1/118+20824597..20830433retrotransposon protein, putative, unclassified
LOC_Os08g33580OsAffx.17314.1.S1_s_at11/118+20832001..20834520hypothetical protein
LOC_Os08g33580OsAffx.17314.2.S1_at10/118+20832001..20834520hypothetical protein
LOC_Os08g33580OsAffx.17314.1.S1_at8/118+20832001..20834520hypothetical protein
LOC_Os08g33590Os.56209.1.S1_at11/118+20841435..20844412Helix-loop-helix DNA-binding domain containing protein, expressed
LOC_Os08g33600NANA8+20849854..20851458retrotransposon protein, putative, Ty1-copia subclass
LOC_Os08g33610OsAffx.8551.1.S1_at1/118+20851733..20852789retrotransposon protein, putative, Ty1-copia subclass
LOC_Os08g33620OsAffx.17315.1.S1_at11/118+20864435..20864954Arginine decarboxylase, putative
LOC_Os08g33630Os.48111.1.S1_at11/118+20867234..20871104Uncharacterized protein family UPF0016 containing protein, expressed

Select all/Clear all

Gene Ontology Classification
GO idTypeName
GO:0045449biological_processregulation of transcription
GO:0003677molecular_functionDNA binding
GO:0003700molecular_functiontranscription factor activity
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.56209.1.S1_at--557--1291Chr08:20841867..20841891 (25 bp)
AGATCCAGACGAGGCCGGGAACGAC
LOC_Os08g33590
Os.56209.1.S1_at--1104--4771Chr08:20841768..20841792 (25 bp)
GCTGCGCGGCGTCATGAACCGCAAA
LOC_Os08g33590
Os.56209.1.S1_at--623--5071Chr08:20841684..20841708 (25 bp)
GCAGCGGATGATCAGTGCACATGAT
LOC_Os08g33590
Os.56209.1.S1_at--823--5111Chr08:20841668..20841692 (25 bp)
GCACATGATCAGCAAGGTTCCTTCA
LOC_Os08g33590
Os.56209.1.S1_at--905--6691Chr08:20841652..20841676 (25 bp)
GTTCCTTCAATTCTAGTGGCTGGTA
LOC_Os08g33590
Os.56209.1.S1_at--758--2851Chr08:20841620..20841644 (25 bp)
AAGTCGATCATCGATCCATCCATTA
LOC_Os08g33590
Os.56209.1.S1_at--483--9391Chr08:20841610..20841634 (25 bp)
TCGATCCATCCATTAATTCCTGCAG
LOC_Os08g33590
Os.56209.1.S1_at--761--4271Chr08:20841592..20841616 (25 bp)
CCTGCAGCCTCATCAGAAGTAGCAT
LOC_Os08g33590
Os.56209.1.S1_at--724--671Chr08:20841569..20841593 (25 bp)
ATGAAATATCCATGCTCTTGCTTAT
LOC_Os08g33590
Os.56209.1.S1_at--22--4831Chr08:20841556..20841580 (25 bp)
GCTCTTGCTTATGCAACTCAACTTA
LOC_Os08g33590
Os.56209.1.S1_at--902--7951Chr08:20841477..20841501 (25 bp)
GGATCTTCTTTTTGGTGTTATGGTG
LOC_Os08g33590
Target Sequence 
AGATCCAGACGAGGCCGGGAACGACGACGACGGCGAACACGGCTACGGCGTTGCCGCCTCGCACCGGAGGCACGAGCTCG
TCGCGTCGATCCACGAGGCGCTGCGCGGCGTCATGAACCGCAAAGCGGCGAGCAGCGACACCTCCTCTTCCGGCGCCGGC
GGCGGCGGTGGGAGCATCAAGAGGCAGCGGATGATCAGTGCACATGATCAGCAAGGTTCCTTCAATTCTAGTGGCTGGTA
AAAACTCAAGTCGATCATCGATCCATCCATTAATTCCTGCAGCCTCATCAGAAGTAGCATGAAATATCCATGCTCTTGCT
TATGCAACTCAACTTATATTAGTATAGTTATAAAGCTATATATAGCCGACTTAAAAAAAACTTAGAGTTTGGATCTTCTT
TTTGGTGTTATGGTG

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.56209.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis