Browse Element(s) Details


Os.3539.1.S1_at

Description gb:AK065311.1
DB_XREF= gi:32975329
TID=Os.3539.1
CNT=13
FEA=FLmRNA
TIER=FL
STK=0
UG=Os.3539 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) ESTs AU082579(S2069),D40238(S2069) correspond to a region of the predicted gene.~Similar to Arabidopsis thaliana vesicle-associated membrane protein 7C; synaptobrevin 7C. (AF025332) (Gene), mRNA
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:J013002O15, full insert sequence.
FL= gb:AK065311.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os06g0778010/11Synaptobrevin family protein, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os06g07740OsAffx.4756.1.S1_s_at11/116+3746262..3748210myb-like DNA-binding domain, SHAQKYF class family protein
LOC_Os06g07750OsAffx.22572.1.S1_x_at11/116+3751005..3751433hypothetical protein
LOC_Os06g07750OsAffx.22572.1.S1_at11/116+3751005..3751433hypothetical protein
LOC_Os06g07760Os.44735.1.S1_at9/116+3758841..3761129expressed protein
LOC_Os06g07770OsAffx.22571.2.S1_x_at11/116+3761999..3771827expressed protein
LOC_Os06g07780OsAffx.15303.1.S1_at11/116+3772673..3775481Synaptobrevin family protein, expressed
LOC_Os06g07780OsAffx.15303.1.S1_s_at11/116+3772673..3775481Synaptobrevin family protein, expressed
LOC_Os06g07780Os.3539.1.S1_at10/116+3772673..3775481Synaptobrevin family protein, expressed
LOC_Os06g07790Os.33661.2.S1_at5/116+3778654..3784952retrotransposon protein, putative, unclassified, expressed
LOC_Os06g07790Os.51788.2.S1_at2/116+3778654..3784952retrotransposon protein, putative, unclassified, expressed
LOC_Os06g07790OsAffx.2816.1.S1_at2/116+3778654..3784952retrotransposon protein, putative, unclassified, expressed
LOC_Os06g07800OsAffx.27496.2.S1_x_at11/116+3787063..3788805hypothetical protein
LOC_Os06g07800OsAffx.27496.2.S1_at11/116+3787063..3788805hypothetical protein
LOC_Os06g07810OsAffx.27496.1.S1_at11/116+3791148..3793775hAT family dimerisation domain containing protein
LOC_Os06g07810OsAffx.27496.1.S1_x_at11/116+3791148..3793775hAT family dimerisation domain containing protein
LOC_Os06g07820Os.16410.1.S1_s_at11/116+3794469..3797624BSD domain containing protein, expressed
LOC_Os06g07830Os.10137.1.S1_a_at11/116+3800241..3806767Clathrin assembly protein, putative, expressed

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Gene Ontology Classification
GO idTypeName
GO:0006944biological_processmembrane fusion
GO:0046909biological_processintermembrane transport
GO:0005768cellular_componentendosome
GO:0005774cellular_componentvacuolar membrane
GO:0005794cellular_componentGolgi apparatus
GO:0005886cellular_componentplasma membrane
GO:0016020cellular_componentmembrane
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.3539.1.S1_at--531--1871NONE
ACGATTGCGTTGATATTCCTCCTCA
NONE
Os.3539.1.S1_at--144--8691Chr06:3772969..3772993 (25 bp)
TGTGCTCGTCTTTATGTGCCATGGC
LOC_Os06g07780
Os.3539.1.S1_at--184--4911Chr06:3772946..3772970 (25 bp)
GCTTCACCTTGCCTACTTGTATTAG
LOC_Os06g07780
Os.3539.1.S1_at--1030--10771Chr06:3772930..3772954 (25 bp)
TTGTATTAGGTGAGATGCCATCCAT
LOC_Os06g07780
Os.3539.1.S1_at--804--9191Chr06:3772915..3772939 (25 bp)
TGCCATCCATGTCTTTGTGTGGTGT
LOC_Os06g07780
Os.3539.1.S1_at--1055--8691Chr06:3772893..3772917 (25 bp)
TGTGCTGGTGAGTGCTGCTGAACTA
LOC_Os06g07780
Os.3539.1.S1_at--1079--9111Chr06:3772878..3772902 (25 bp)
TGCTGAACTATTGCAACACCATTGC
LOC_Os06g07780
Os.3539.1.S1_at--806--411Chr06:3772807..3772831 (25 bp)
ATCATGCTGTGTTGATTGTGCAAAC
LOC_Os06g07780
Os.3539.1.S1_at--457--2271Chr06:3772752..3772776 (25 bp)
AAATCCGCCTATTTGGAGCTGTACG
LOC_Os06g07780
Os.3539.1.S1_at--285--5891Chr06:3772737..3772761 (25 bp)
GAGCTGTACGACCATGGGAATTCTA
LOC_Os06g07780
Os.3539.1.S1_at--398--7611Chr06:3772722..3772746 (25 bp)
GGGAATTCTACTATTACTCTATCAA
LOC_Os06g07780
Target Sequence 
ACGATTGCGTTGATATTCCTCCTCACGGTAATAATATACGTTGTGCTCGTCTTTATGTGCCATGGCTTCACCTTGCCTAC
TTGTATTAGGTGAGATGCCATCCATGTCTTTGTGTGGTGTGCTGGTGAGTGCTGCTGAACTATTGCAACACCATTGCAAT
AGGTCAGGGTGGTTTTTGTGTAGAGATTACTATTTATTGTGTAATCATGCTGTGTTGATTGTGCAAACTCAATGAAAGAT
GTAATCTTTGCCCCCCATAAATCCGCCTATTTGGAGCTGTACGACCATGGGAATTCTACTATTACTCTATCAA

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.3539.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis