Browse Element(s) Details


Os.6211.1.S1_at

Description gb:AK065531.1
DB_XREF= gi:32975549
TID=Os.6211.1
CNT=23
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.6211 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) mRNA for pre-mRNA splicing factor, partial cds, clone: pNS-C4A21
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:J013034H02, full insert sequence.
FL= gb:AK065531.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os12g3842011/11expressed protein
LOC_Os12g3843011/11RNA recognition motif family protein, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os12g38400Os.52643.1.S1_at11/1112+23521438..23527003Myb-like DNA-binding domain containing protein, expressed
LOC_Os12g38400Os.12994.1.S1_at11/1112+23521438..23527003Myb-like DNA-binding domain containing protein, expressed
LOC_Os12g38390OsAffx.20010.1.S1_at10/1112+23526583..23527355hypothetical protein
LOC_Os12g38410OsAffx.32083.3.S1_x_at11/1112+23542601..23546356hypothetical protein
LOC_Os12g38410OsAffx.32083.1.S1_x_at9/1112+23542601..23546356hypothetical protein
LOC_Os12g38410OsAffx.32083.1.S1_at6/1112+23542601..23546356hypothetical protein
LOC_Os12g38410OsAffx.32083.2.S1_x_at2/1112+23542601..23546356hypothetical protein
LOC_Os12g38410OsAffx.32083.4.S1_x_at1/1112+23542601..23546356hypothetical protein
LOC_Os12g38420Os.6211.1.S1_at11/1112+23550623..23551541expressed protein
LOC_Os12g38430Os.6211.1.S1_at11/1112+23556107..23559945RNA recognition motif family protein, expressed
LOC_Os12g38440Os.37689.1.S1_at11/1112+23562565..23566673XH domain containing protein, expressed
LOC_Os12g38450OsAffx.7831.1.S1_at11/1112+23569296..23570876Exostosin family protein, expressed
LOC_Os12g38460OsAffx.20011.1.S1_at10/1112+23572909..23577850RNA recognition motif family protein

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Gene Ontology Classification
GO idTypeName
GO:0000398biological_processnuclear mRNA splicing, via spliceosome
GO:0016607cellular_componentnuclear speck
GO:0035061cellular_componentinterchromatin granule
GO:0003723molecular_functionRNA binding
GO:0005515molecular_functionprotein binding
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.6211.1.S1_at--375--5812Chr12:23556901..23556925 (25 bp)
GACCCTCGCGATGCTGATAACGGTT
LOC_Os12g38430
Os.6211.1.S1_at--424--9172Chr12:23556470..23556494 (25 bp)
TGCCCGCAGCGACTGACAGAACTTT
LOC_Os12g38430
Os.6211.1.S1_at--776--9192Chr12:23556404..23556428 (25 bp)
TCCAATTCTAGTCAGTCTCCATCTT
LOC_Os12g38430
Os.6211.1.S1_at--350--4552Chr12:23556341..23556365 (25 bp)
GCCCTAAGCGGCGTGTTGTATTATT
LOC_Os12g38430
Os.6211.1.S1_at--383--692Chr12:23556300..23556324 (25 bp)
ATGAGTTTGGTATGGCACATCGCCT
LOC_Os12g38430
Os.6211.1.S1_at--938--3312Chr12:23556285..23556309 (25 bp)
CACATCGCCTGTTTGTGTGCTCATA
LOC_Os12g38430
Os.6211.1.S1_at--871--7992Chr12:23556255..23556279 (25 bp)
GGAGTCCAGGATGTTGTAGTCTTTT
LOC_Os12g38430
Os.6211.1.S1_at--527--6932Chr12:23556240..23556264 (25 bp)
GTAGTCTTTTGAGAGCTGCTTTGTT
LOC_Os12g38430
Os.6211.1.S1_at--680--7732Chr12:23556214..23556238 (25 bp)
GGTGGTCATTTGCTTTTTGCTGAAC
LOC_Os12g38430
Os.6211.1.S1_at--1052--8812Chr12:23556163..23556187 (25 bp)
TGTTGTGTACTACCACTAGTGAGCC
LOC_Os12g38430
Os.6211.1.S1_at--509--8972Chr12:23556137..23556161 (25 bp)
TGAACTGGGTAACCGCCTATTTCCA
LOC_Os12g38430
Target Sequence 
GACCCTCGCGATGCTGATAACGGTTATGAGAAGAGGTCGCCCCCACCTGACAGCGATGGATCCCCTCCACACCGGAGGTC
TCCTAGGCACTCCTCAGGGTCGCCTCCAGGATCCCGCTCTAGGTCCGCCGATGTTTCCCCTGCCCGCAGCGACTGACAGA
ACTTTGAACCAACGAAATGGGATAGCTGCATGATCTCCACAGCACCTCCAATTCTAGTCAGTCTCCATCTTCCTTCCTGG
TCCAANCCAAGCTGTTTCAATTAAACCGAAGCCCTAAGCGGCGTGTTGTATTATTGCTAAGTGTGCTTGNCATGAGTTTG
GTATGGCACATCGCCTGTTTGTGTGCTCATATGTTGGGAGTCCAGGATGTTGTAGTCTTTTGAGAGCTGCTTTGTTTGGT
GGTCATTTGCTTTTTGCTGAACATTAACTTGAAACAATGTGACATTGGTGTTGTGTACTACCACTAGTGAGCCNTTGAAC
TGGGTAACCGCCTATTTCCA

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.6211.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis