Browse Element(s) Details


Os.3399.1.S1_at

Description gb:AB001887.1
DB_XREF= gi:3618317
TID=Os.3399.1
CNT=6
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.3399 (NCBI UniGene Cluster)
DEF=Oryza sativa (japonica cultivar-group) cDNA for zinc finger protein, complete cds, clone:S12569.
PROD=zinc finger protein
FL= gb:AB001887.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os09g0646411/11CCT motif family protein, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os09g06420NANA9+3021967..3023367hypothetical protein
LOC_Os09g06430OsAffx.21269.1.S1_x_at2/119+3026830..3029359retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os09g06430OsAffx.7616.1.S1_at2/119+3026830..3029359retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os09g06430Os.46610.1.A1_x_at1/119+3026830..3029359retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os09g06430OsAffx.3496.1.S1_x_at1/119+3026830..3029359retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os09g06430OsAffx.26189.1.S1_at1/119+3026830..3029359retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os09g06440OsAffx.29731.3.S1_at11/119+3030241..3031286hypothetical protein
LOC_Os09g06450OsAffx.15648.1.S1_at1/119+3033999..3039037Transposable element protein, putative, Retrotrans_gag
LOC_Os09g06464OsAffx.6185.1.S1_at11/119+3047031..3063462CCT motif family protein, expressed
LOC_Os09g06464Os.3399.1.S1_at11/119+3047031..3063462CCT motif family protein, expressed
LOC_Os09g06464Os.41248.2.A1_at6/119+3047031..3063462CCT motif family protein, expressed
LOC_Os09g06464OsAffx.23696.1.S1_x_at2/119+3047031..3063462CCT motif family protein, expressed
LOC_Os09g06464Os.41248.5.S1_x_at1/119+3047031..3063462CCT motif family protein, expressed
LOC_Os09g06480OsAffx.6186.1.S1_at11/119+3066362..3068573retrotransposon, putative, centromere-specific
LOC_Os09g06480Os.54774.1.S1_at1/119+3066362..3068573retrotransposon, putative, centromere-specific
LOC_Os09g06480Os.54774.1.S1_x_at1/119+3066362..3068573retrotransposon, putative, centromere-specific
LOC_Os09g06499Os.10281.2.S1_at11/119+3072960..3091870Sulfate transporter 4.1, chloroplast precursor, putative, expressed
LOC_Os09g06499OsAffx.17576.1.S1_s_at11/119+3072960..3091870Sulfate transporter 4.1, chloroplast precursor, putative, expressed
LOC_Os09g06499Os.10281.1.S1_at11/119+3072960..3091870Sulfate transporter 4.1, chloroplast precursor, putative, expressed
LOC_Os09g06499OsAffx.17575.1.S1_x_at11/119+3072960..3091870Sulfate transporter 4.1, chloroplast precursor, putative, expressed
LOC_Os09g06499Os.10281.2.S1_x_at10/119+3072960..3091870Sulfate transporter 4.1, chloroplast precursor, putative, expressed
LOC_Os09g06499OsAffx.17575.1.S1_at9/119+3072960..3091870Sulfate transporter 4.1, chloroplast precursor, putative, expressed
LOC_Os09g06499Os.35889.1.S1_at1/119+3072960..3091870Sulfate transporter 4.1, chloroplast precursor, putative, expressed

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Gene Ontology Classification
GO idTypeName
GO:0007623biological_processcircadian rhythm
GO:0009909biological_processregulation of flower development
GO:0045449biological_processregulation of transcription
GO:0005634cellular_componentnucleus
GO:0003700molecular_functiontranscription factor activity
GO:0008270molecular_functionzinc ion binding
GO:0030528molecular_functiontranscription regulator activity
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.3399.1.S1_at--226--7551Chr09:3047639..3047663 (25 bp)
GTGGCGGCGCACAGCATAATGTCGC
LOC_Os09g06464
Os.3399.1.S1_at--360--2151Chr09:3047629..3047653 (25 bp)
ACAGCATAATGTCGCCACCGCAGTT
LOC_Os09g06464
Os.3399.1.S1_at--855--351Chr09:3047624..3047648 (25 bp)
ATAATGTCGCCACCGCAGTTCATGG
LOC_Os09g06464
Os.3399.1.S1_at--448--751Chr09:3047621..3047645 (25 bp)
ATGTCGCCACCGCAGTTCATGGGCG
LOC_Os09g06464
Os.3399.1.S1_at--1118--791Chr09:3047603..3047627 (25 bp)
ATGGGCGCCATTGACAGGGAGGCCA
LOC_Os09g06464
Os.3399.1.S1_at--36--5371Chr09:3047535..3047559 (25 bp)
GAAGACCATCAGGTACGCGTCGCGG
LOC_Os09g06464
Os.3399.1.S1_at--32--1391Chr09:3047533..3047557 (25 bp)
AGACCATCAGGTACGCGTCGCGGAA
LOC_Os09g06464
Os.3399.1.S1_at--635--9331Chr09:3047252..3047276 (25 bp)
TCGCCGAATCGCCTCTAAATTTGTG
LOC_Os09g06464
Os.3399.1.S1_at--1073--4211Chr09:3047249..3047273 (25 bp)
CCGAATCGCCTCTAAATTTGTGGGA
LOC_Os09g06464
Os.3399.1.S1_at--720--3111Chr09:3047235..3047259 (25 bp)
AATTTGTGGGAGGTATGAGGCTTCA
LOC_Os09g06464
Os.3399.1.S1_at--989--6191Chr09:3047219..3047243 (25 bp)
GAGGCTTCAGCTGTAGGTATATATA
LOC_Os09g06464
Target Sequence 
GTGGCGGCGCACAGCATAATGTCGCCACCGCAGTTCATGGGCGCCATTGACAGGGAGGCCAGGGTGCACCGGTACAGGGA
GAAGAGGAAGACGAGGCGGTTCGAGAAGACCATCAGGTACGCGTCGCGGAAGGCGTATNNCGAGACCCGGCCGAGGATCA
AGGGACGCTTCGCCAAGCGCAGCGACNCCGACCTTGAGGTCGACCAGTANTTCTCCACCNCCGCNGACTCCAGNTGCGGN
GTCGTGCCCACGTTCTAGNGAGCAGCTTGGCCGCACGCNTGGAAGNACAATCAAAGAAGCTCAGGAATGAATATATTCTC
CCACNGTATAGTNCATCTTGGTTGNNTAGCTATATATATATATATATATATATATATATATGTATAATTCGCCGAATCGC
CTCTAAATTTGTGGGAGGTATGAGGCTTCAGCTGTAGGTATATATA

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.3399.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis