Browse Element(s) Details


Os.5708.1.S1_at

Description gb:AK100191.1
DB_XREF= gi:32985400
TID=Os.5708.1
CNT=3
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.5708 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:J023035P11, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:J023035P11, full insert sequence.
FL= gb:AK100191.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os06g0520911/11Pectate lyase precursor, putative, expressed
LOC_Os06g052729/11Pectate lyase precursor, putative
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os06g05169NANA6+2310288..2310656NA
LOC_Os06g05180Os.46583.1.S1_s_at11/116+2319822..2328652Coatomer beta subunit, putative, expressed
LOC_Os06g05180Os.46583.2.S1_at8/116+2319822..2328652Coatomer beta subunit, putative, expressed
LOC_Os06g05190Os.5200.1.S1_at11/116+2328884..2333422DNA repair protein XRCC1, putative, expressed
LOC_Os06g05200OsAffx.27461.1.S1_at11/116+2334681..2335298Zinc finger, C3HC4 type family protein
LOC_Os06g05200OsAffx.30568.1.S1_at1/116+2334681..2335298Zinc finger, C3HC4 type family protein
LOC_Os06g05209Os.5708.1.S1_at11/116+2335433..2337189Pectate lyase precursor, putative, expressed
LOC_Os06g05209OsAffx.18481.1.S1_x_at1/116+2335433..2337189Pectate lyase precursor, putative, expressed
LOC_Os06g05220OsAffx.4728.1.S1_at11/116+2339925..2341658hypothetical protein
LOC_Os06g05230OsAffx.8876.1.S1_at1/116+2342538..2348554retrotransposon protein, putative, unclassified
LOC_Os06g05240Os.47859.1.S1_at10/116+2357441..2364099Zinc carboxypeptidase family protein, expressed

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Gene Ontology Classification
GO idTypeName
GO:0009664biological_processcell wall organization and biogenesis (sensu Magnoliophyta)
GO:0016829molecular_functionlyase activity
GO:0030570molecular_functionpectate lyase activity
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.5708.1.S1_at--198--1832Chr06:2377749..2377773 (25 bp)
ACGCCCAGGACGAGGTGATGCAGAT
LOC_Os06g05272
Os.5708.1.S1_at--59--4552Chr06:2377751..2377775 (25 bp)
GCCCAGGACGAGGTGATGCAGATCA
LOC_Os06g05272
Os.5708.1.S1_at--517--10832Chr06:2377806..2377830 (25 bp)
TTGTGCCGCGCTGCAGGTTCGGATT
LOC_Os06g05272
Os.5708.1.S1_at--710--4152Chr06:2377812..2377834 (23 bp)
CGCGCTGCAGGTTCGGATTCTTCCA
LOC_Os06g05272
Os.5708.1.S1_at--969--5012Chr06:2377918..2377940 (23 bp)
GCAGGTTCGGATTCTTCCACGTCGT
LOC_Os06g05272
Os.5708.1.S1_at--428--8172Chr06:2378012..2378036 (25 bp)
GGAACAGGTTCATCGCGCCCGACGA
LOC_Os06g05272
Os.5708.1.S1_at--112--4232Chr06:2378030..2378054 (25 bp)
CCGACGACTTGAACGCCAAGGAGGT
LOC_Os06g05272
Os.5708.1.S1_at--1155--2432Chr06:2378059..2378083 (25 bp)
AAGAGGGAGTACACGCCGTACGACG
LOC_Os06g05272
Os.5708.1.S1_at--265--7032Chr06:2378067..2378091 (25 bp)
GTACACGCCGTACGACGAGTACAAG
LOC_Os06g05272
Os.5708.1.S1_at--835--8091Chr06:2335529..2335553 (25 bp)
GGACGAGAGAAAGCTAATTAACCAT
LOC_Os06g05209
Os.5708.1.S1_at--522--10491Chr06:2335512..2335536 (25 bp)
TTAACCATGCCTTAATTTGTATATA
LOC_Os06g05209
Target Sequence 
ACGCCCAGGACGAGGTGATGCAGATCACCGTGGCGTTCAACCACTTCGGCAAGGGCCTTGTGCCGCGCTGCAGGTTCGGA
TTCTTCCACGTCGTCAACAACGACTACACGCACTGGCTCATGTACGCCATCGGTGGCAACATGAACCCGACGATCATCAG
CCAGGGGAACAGGTTCATCGCGCCCGACGACTTGAACGCCAAGGAGGTGACCAAGAGGGAGTACACGCCGTACGACGAGT
ACAAGGAGTGGGTGTGGAAGTCGCAGGGCGACGTGNATGATGAACGGCGCCTTCNTTAACGAGTCCGGCGGCCAGAACGA
GCGCAGCTACNGACCAGCTCGACTTCATCCCTGCCAAGCACGGCAAGTACGTCGGCCAGCTCACCAAGTTCGCCGGCACN
GCTCAACTNGCCACGTCGGCATGCCATGCTAATTAACTNAGACATATCAGCAACGATATNGGAAGAGGACGAGAGAAAGC
TAATTAACCATGCCTTAATTTGTATATA

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.5708.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis