Browse Element(s) Details


Os.48948.1.S1_x_at

Description gb:NM_196441.1
DB_XREF= gi:37534241
TID=Os.48948.1
CNT=2
FEA=mRNA
TIER=ConsEnd
STK=0
UG=Os.48948 (NCBI UniGene Cluster)
DEF=Oryza sativa (japonica cultivar-group) putative TNP-like transposable element (OSJNBa0049A03.7), mRNA.
PROD=putative TNP-like transposable element
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os10g2691011/11transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os04g2539010/11expressed protein
LOC_Os03g506709/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os04g259607/11hypothetical protein
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os10g26870Os.27037.1.A1_at1/1110+13793700..13798666transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os10g26880Os.14491.2.S1_x_at4/1110+13801251..13804948transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os10g26880Os.47463.1.S1_x_at4/1110+13801251..13804948transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os10g26890OsAffx.30553.1.S1_at10/1110+13810250..13811216hypothetical protein
LOC_Os10g26910Os.48948.1.S1_at11/1110+13819013..13826258transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os10g26910Os.48948.1.S1_x_at11/1110+13819013..13826258transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os10g26910OsAffx.26155.1.S1_x_at5/1110+13819013..13826258transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os10g26920OsAffx.22722.1.S1_x_at1/1110+13827358..13833264retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g26930OsAffx.20354.1.S1_at11/1110+13833831..13836701retrotransposon protein, putative, unclassified
LOC_Os10g26940Os.37718.1.S1_at11/1110+13839897..13841440BURP domain containing protein, expressed

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Gene Ontology Classification
GO idTypeName
GO:0005739cellular_componentmitochondrion
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.48948.1.S1_x_at--846--3071Chr10:13825249..13825273 (25 bp)
AATCACAATTGTACCAGGCAACCAA
LOC_Os10g26910
Os.48948.1.S1_x_at--507--8534Chr10:13825293..13825317 (25 bp)
TGGAGAAACAACAAGCAATCATGCC
LOC_Os10g26910
Os.48948.1.S1_x_at--1100--3054Chr10:13825309..13825333 (25 bp)
AATCATGCCACAAGTAAACGCTCTA
LOC_Os10g26910
Os.48948.1.S1_x_at--184--7033Chr10:13825322..13825346 (25 bp)
GTAAACGCTCTAAAGTTCCAACTGT
LOC_Os10g26910
Os.48948.1.S1_x_at--937--2553Chr10:13825341..13825365 (25 bp)
AACTGTAATCACTCAAATTGCTGCT
LOC_Os10g26910
Os.48948.1.S1_x_at--317--2153Chr10:13825490..13825514 (25 bp)
ACAGAAGCATATGGCCAGGTACAAT
LOC_Os10g26910
Os.48948.1.S1_x_at--459--9234Chr10:13825729..13825753 (25 bp)
TCCATATAACCGTGTTGCAAGAGCT
LOC_Os10g26910
Os.48948.1.S1_x_at--941--10753Chr10:13825856..13825880 (25 bp)
TTGTTCCGGCCGCACAGAAATTTGA
LOC_Os10g26910
Os.48948.1.S1_x_at--828--5994Chr10:13825890..13825914 (25 bp)
GAGACGCTATTGGTCATTGCATTGC
LOC_Os10g26910
Os.48948.1.S1_x_at--703--9594Chr10:13825903..13825927 (25 bp)
TCATTGCATTGCATGGCCATCCCAA
LOC_Os10g26910
Os.48948.1.S1_x_at--121--1254Chr10:13826010..13826033 (24 bp)
AGTTGAAGAAGTGTCACCTCAGTGC
LOC_Os10g26910
Target Sequence 
AATCACAATTGTACCAGGCAACCAAAAATGACAAAAAAACCTTGTGGAGAAACAACAAGCAATCATGCCACAAGTAAACG
CTCTAAAGTTCCAACTGTAATCACTCAAATTGCTGCTGAGGGGGTACAGAAGCATATGGCCAGGTACAATNACNACAAGC
CTACTGAAATTGAAGGGNCCAATGTGGGAACAACTAAACATGCTAATGTCAAAAGGGCANCATTAGCTTGTGNAAATGTG
GTTGGAAGGGATGTCTTTCTTAAGAGAATTGTCCNTCCATATAACCGTGTTGCAAGAGCTANTATTCAAAGTCAAGACCC
NTTAGAAATGGTCGGAGGAACAATGCTNGGAAGGGAGTGCTACAAAGTAGTGATAGACAGTCTTATATGTGGAGATGNTG
AATTGTTCCGGCCGCACAGAAATTTGAACTATATTAGAGACGCTATTGGTCATTGCATTGCATGGCCATCCCAACTAGTT
GAAGAAGTGTCACCTCAGTGC

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.48948.1.S1_x_at     

Putative homologies in rice

Putative homologies in arabidopsis