Browse Element(s) Details


Os.27006.1.S1_at

Description gb:AB095095.1
DB_XREF= gi:32351879
GEN=OsSig2B
TID=Os.27006.1
CNT=10
FEA=FLmRNA
TIER=FL
STK=5
UG=Os.27006 (NCBI UniGene Cluster)
DEF=Oryza sativa (japonica cultivar-group) OsSig2B mRNA for plastid sigma factor 2B, complete cds.
PROD=plastid sigma factor 2B
FL= gb:AB095095.1 gb:AK067693.1 gb:AK099036.1 gb:AK060821.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os03g1643011/11Sigma-70 region 3 family protein, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os03g16390Os.27177.1.S1_at11/113+9018621..9020552expressed protein
LOC_Os03g16390OsAffx.20425.1.S1_x_at2/113+9018621..9020552expressed protein
LOC_Os03g16400Os.5247.1.S1_at11/113+9026627..9030507expressed protein
LOC_Os03g16400Os.799.2.S1_x_at4/113+9026627..9030507expressed protein
LOC_Os03g16410NANA3+9030906..9031373hypothetical protein
LOC_Os03g16420OsAffx.20370.1.S1_at11/113+9041840..9042763retrotransposon protein, putative, Ty1-copia subclass
LOC_Os03g16430Os.27006.1.S1_at11/113+9043907..9047100Sigma-70 region 3 family protein, expressed
LOC_Os03g16440Os.12583.1.S1_at11/113+9047443..9053002chloroplastic outer envelope membrane protein, putative, expressed
LOC_Os03g16450Os.12583.3.S1_x_at11/113+9053364..9055860pentatricopeptide, putative, expressed
LOC_Os03g16450Os.12583.2.S1_at11/113+9053364..9055860pentatricopeptide, putative, expressed
LOC_Os03g16460Os.38256.1.S1_at11/113+9055024..9058460HEAT repeat family protein, expressed
LOC_Os03g16470Os.27598.1.S1_at11/113+9058653..9060595expressed protein
LOC_Os03g16470Os.27598.3.S1_at11/113+9058653..9060595expressed protein
LOC_Os03g16470Os.27598.1.S1_a_at11/113+9058653..9060595expressed protein
LOC_Os03g16470Os.27598.2.S1_at10/113+9058653..9060595expressed protein
LOC_Os03g16480Os.27651.1.S1_at11/113+9063531..9065005Zinc finger, C3HC4 type family protein, expressed
LOC_Os03g16490NANA3+9068830..9071493hypothetical protein

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Gene Ontology Classification
GO idTypeName
GO:0006352biological_processtranscription initiation
GO:0006355biological_processregulation of transcription, DNA-dependent
GO:0019685biological_processphotosynthesis, dark reaction
GO:0045941biological_processpositive regulation of transcription
GO:0009507cellular_componentchloroplast
GO:0003677molecular_functionDNA binding
GO:0003700molecular_functiontranscription factor activity
GO:0003899molecular_functionDNA-directed RNA polymerase activity
GO:0016987molecular_functionsigma factor activity
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.27006.1.S1_at--1137--6291Chr03:9046420..9046444 (25 bp)
GATGAGCCTCCCAAAATACACCGTT
LOC_Os03g16430
Os.27006.1.S1_at--755--6811Chr03:9046442..9046466 (25 bp)
GTTTCCCTCACCAGCAAGGTCGGGT
LOC_Os03g16430
Os.27006.1.S1_at--127--2891Chr03:9046457..9046481 (25 bp)
AAGGTCGGGTGCACTGACATGACAT
LOC_Os03g16430
Os.27006.1.S1_at--397--8951Chr03:9046476..9046602 (25 bp)
TGACATACCAGGAGATCACGCCGGA
LOC_Os03g16430
Os.27006.1.S1_at--26--1631Chr03:9046800..9046824 (25 bp)
AGCTGGTCGCGTTCCGGAAGCTCAG
LOC_Os03g16430
Os.27006.1.S1_at--741--2891Chr03:9046835..9046859 (25 bp)
AAGGTTCAGTCGCTGCAGCATTATC
LOC_Os03g16430
Os.27006.1.S1_at--230--3411Chr03:9046850..9046874 (25 bp)
CAGCATTATCTGCAGCCTGTGGAGA
LOC_Os03g16430
Os.27006.1.S1_at--1033--8051Chr03:9046870..9046894 (25 bp)
GGAGAGCTGGTAGCTAGCCATGCAT
LOC_Os03g16430
Os.27006.1.S1_at--798--631Chr03:9046889..9046913 (25 bp)
ATGCATGCGTGTGCTGCCTAGTTAC
LOC_Os03g16430
Os.27006.1.S1_at--584--1711Chr03:9046922..9046946 (25 bp)
ACCACATTGCCATCTTCTTTTTGGA
LOC_Os03g16430
Os.27006.1.S1_at--1029--3551Chr03:9047043..9047067 (25 bp)
CATACTGGTATAGCTATTGCCGGAA
LOC_Os03g16430
Target Sequence 
GATGAGCCTCCCAAAATACACCGTTTCCCTCACCAGCAAGGTCGGGTGCACTGACATGACATACCAGGAGATCACGCCGG
ACACGAGCACGGAGACGGCGGAGGAGATGCTGCACCGGTGGCTGATGAAGGAAGACGTGGACAGGGCGCTGGACGGGCTG
AGCCCGCGGGAGAGGCAGGTGATCAGGTACAGGTTCGGGATGGACGACGGCCGGCTGCGGACGCTGCACGACATCGGTCG
GCTGATGGGGGTGAGCAGGGAGAGGATCCGGCAGATCGAGCTGGTCGCGTTCCGGAAGCTCAGGGGCAGGAAGAAGGTTC
AGTCGCTGCAGCATTATCTGCAGCCTGTGGAGAGCTGGTAGCTAGCCATGCATGCGTGTGCTGCCTAGTTACCACTTACC
ACCACATTGCCATCTTCTTTTTGGAAGGGTTATTAACCTGTACGAGTAACTGTTAATCCTTACGTATGAGTATGTAACAC
ACGTGTAAAGAAAGGAGATCCAAACATTTGTTTTGTAACAACATACTGGTATAGCTATTGCCGGAA

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.27006.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis