Browse Element(s) Details


Os.16906.1.S1_at

Description gb:AK072902.1
DB_XREF= gi:32982925
TID=Os.16906.1
CNT=6
FEA=FLmRNA
TIER=FL
STK=0
UG=Os.16906 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:J023147E13, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:J023147E13, full insert sequence.
FL= gb:AK072902.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os04g5011010/11RNA recognition motif family protein, expressed
LOC_Os07g485701/11Dof domain, zinc finger family protein, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os04g50070OsAffx.4135.1.S1_at11/114+29644169..29644750Zinc finger, C2H2 type family protein
LOC_Os04g50080OsAffx.14354.1.S1_at11/114+29647415..29648068hypothetical protein
LOC_Os04g50090OsAffx.26546.1.S1_at10/114+29658804..29662209Helix-loop-helix DNA-binding domain containing protein
LOC_Os04g50090Os.51474.1.S1_at2/114+29658804..29662209Helix-loop-helix DNA-binding domain containing protein
LOC_Os04g50100Os.52382.1.S1_at11/114+29664139..29666053Zinc finger, C3HC4 type family protein, expressed
LOC_Os04g50110Os.16906.1.S1_at10/114+29669014..29672108RNA recognition motif family protein, expressed
LOC_Os04g50120Os.14686.1.S1_at10/114+29675725..29677758expressed protein
LOC_Os04g50130NANA4+29680323..29680751transposon protein, putative, unclassified
LOC_Os04g50140NANA4+29683113..29685630retrotransposon protein, putative, unclassified
LOC_Os04g50150NANA4+29689029..29692350retrotransposon protein, putative, unclassified
LOC_Os04g50160NANA4+29693227..29699382retrotransposon protein, putative, unclassified

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Gene Ontology Classification
GO idTypeName
GO:0045449biological_processregulation of transcription
GO:0009507cellular_componentchloroplast
GO:0003676molecular_functionnucleic acid binding
GO:0003677molecular_functionDNA binding
GO:0003700molecular_functiontranscription factor activity
GO:0003723molecular_functionRNA binding
GO:0005515molecular_functionprotein binding
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.16906.1.S1_at--1090--5311Chr04:29670027..29670051 (25 bp)
GAAGGTGTCACTGATAATGGTACTA
LOC_Os04g50110
Os.16906.1.S1_at--713--10211Chr04:29669958..29669982 (25 bp)
TTTGGACTCGGAGAAAGTTACCAGC
LOC_Os04g50110
Os.16906.1.S1_at--591--5571Chr04:29669946..29669970 (25 bp)
GAAAGTTACCAGCAGCCTCATTAAT
LOC_Os04g50110
Os.16906.1.S1_at--1094--3391Chr04:29669937..29669961 (25 bp)
CAGCAGCCTCATTAATAGTACATAT
LOC_Os04g50110
Os.16906.1.S1_at--183--10331NONE
TTTACATTTCCTGATTTTAAACAGA
NONE
Os.16906.1.S1_at--30--2272Chr07:29078907..29079031 (24 bp)
AAATACTGCAATATATGTCTGTGGT
LOC_Os07g48570
Os.16906.1.S1_at--486--3111Chr04:29669310..29669334 (25 bp)
AATATATGTCTGTGGTTGACGGCTT
LOC_Os04g50110
Os.16906.1.S1_at--1022--31Chr04:29669151..29669175 (25 bp)
ATTGTGATCATCAATCTTCTCCTGC
LOC_Os04g50110
Os.16906.1.S1_at--893--431Chr04:29669138..29669162 (25 bp)
ATCTTCTCCTGCTGAGACAATTGTT
LOC_Os04g50110
Os.16906.1.S1_at--992--5591Chr04:29669123..29669147 (25 bp)
GACAATTGTTGTCTCAGCAACTTTT
LOC_Os04g50110
Os.16906.1.S1_at--78--9511Chr04:29669112..29669136 (25 bp)
TCTCAGCAACTTTTAGGTATTCCCT
LOC_Os04g50110
Target Sequence 
GAAGGTGTCACTGATAATGGTACTAAGGATCATGGTGAAGATAAACAGGAATAGTTTAACAATACNGTGTTTGGACTCGG
AGAAAGTTACCAGCAGCCTCATTAATAGTACATATGTGGANCCTCATTGTACAGCTACAAGTTTTTTACATTTCCTGATT
TTAAACAGAGGAGATATTGTAATCAAATACTGCAATATATGTCTGTGGTTGACGGCTTGACGCNNTGATNAAGGNAGATG
AGGAACANAAAGGGTGCCNACCTCTGACCTAAGGTGAAAAATTGTTGTTGAATGGATTAATATTTTAAATTTTAGTGTTC
ATTTTCAGTAATGTATTTACTCTAATTATCTGTAATTTATTGTGATCATCAATCTTCTCCTGCTGAGACAATTGTTGTCT
CAGCAACTTTTAGGTATTCCCT

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.16906.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis