Browse Element(s) Details


Os.46995.1.S1_x_at

Description gb:NM_184623.1
DB_XREF= gi:34896335
GEN=OJ1004_D04.3
TID=Os.46995.1
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
UG=Os.46995 (NCBI UniGene Cluster)
DEF=Oryza sativa (japonica cultivar-group) putative gypsy-type polyprotein (OJ1004_D04.3), mRNA.
PROD=putative gypsy-type polyprotein
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os03g3290011/11retrotransposon protein, putative, unclassified
LOC_Os05g445204/11retrotransposon protein, putative, unclassified
LOC_Os11g198204/11retrotransposon protein, putative, unclassified
LOC_Os04g289003/11retrotransposon protein, putative, unclassified
LOC_Os09g045403/11retrotransposon protein, putative, unclassified
LOC_Os02g458003/11retrotransposon protein, putative, unclassified
LOC_Os01g393603/11retrotransposon protein, putative, unclassified
LOC_Os02g587002/11retrotransposon protein, putative, unclassified
LOC_Os07g445202/11retrotransposon protein, putative, unclassified
LOC_Os12g202002/11retrotransposon protein, putative, unclassified
LOC_Os05g248402/11retrotransposon protein, putative, unclassified
LOC_Os07g176602/11retrotransposon protein, putative, unclassified
LOC_Os12g142702/11retrotransposon protein, putative, unclassified
LOC_Os04g237802/11retrotransposon protein, putative, unclassified, expressed
LOC_Os06g127201/11retrotransposon protein, putative, unclassified
LOC_Os12g432801/11retrotransposon protein, putative, unclassified
LOC_Os01g293701/11retrotransposon protein, putative, unclassified
LOC_Os03g296601/11retrotransposon protein, putative, unclassified
LOC_Os11g108301/11retrotransposon protein, putative, unclassified
LOC_Os09g277801/11retrotransposon protein, putative, unclassified
LOC_Os01g350801/11retrotransposon protein, putative, unclassified
LOC_Os02g200701/11retrotransposon protein, putative, unclassified
LOC_Os11g077201/11retrotransposon protein, putative, unclassified, expressed
LOC_Os11g227101/11retrotransposon protein, putative, unclassified
LOC_Os01g196601/11retrotransposon protein, putative, unclassified
LOC_Os09g116001/11retrotransposon protein, putative, unclassified
LOC_Os06g361401/11retrotransposon protein, putative, unclassified
LOC_Os11g218401/11retrotransposon protein, putative, unclassified
LOC_Os10g330001/11retrotransposon protein, putative, unclassified
LOC_Os02g276301/11retrotransposon protein, putative, unclassified
LOC_Os09g079501/11retrotransposon protein, putative, unclassified
LOC_Os06g151101/11retrotransposon protein, putative, unclassified, expressed
LOC_Os12g230101/11retrotransposon protein, putative, unclassified
LOC_Os03g032201/11retrotransposon protein, putative, unclassified
LOC_Os05g249501/11retrotransposon protein, putative, unclassified
LOC_Os11g223101/11retrotransposon protein, putative, unclassified
LOC_Os10g430201/11retrotransposon protein, putative, unclassified
LOC_Os03g573801/11retrotransposon protein, putative, unclassified
LOC_Os05g189101/11retrotransposon protein, putative, unclassified
LOC_Os06g255001/11retrotransposon protein, putative, unclassified
LOC_Os01g360201/11retrotransposon protein, putative, unclassified
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os03g32850OsAffx.29292.1.S1_at1/113+18745786..18749886hypothetical protein
LOC_Os03g32860NANA3+18756276..18758755retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g32870NANA3+18758966..18760216hypothetical protein
LOC_Os03g32880OsAffx.5954.3.S1_x_at11/113+18761864..18763209hypothetical protein
LOC_Os03g32890NANA3+18765982..18767814hypothetical protein
LOC_Os03g32900Os.46995.1.S1_x_at11/113+18770410..18772062retrotransposon protein, putative, unclassified
LOC_Os03g32900Os.46995.1.S1_at11/113+18770410..18772062retrotransposon protein, putative, unclassified
LOC_Os03g32910Os.33878.1.S1_at7/113+18776464..18778461retrotransposon protein, putative, unclassified
LOC_Os03g32910Os.27102.1.S1_x_at2/113+18776464..18778461retrotransposon protein, putative, unclassified
LOC_Os03g32920NANA3+18780023..18781849retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g32930NANA3+18782005..18785707retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g32940OsAffx.940.1.S1_x_at1/113+18787957..18791666transposon protein, putative, unclassified
LOC_Os03g32940OsAffx.30486.1.S1_at1/113+18787957..18791666transposon protein, putative, unclassified
LOC_Os03g32940OsAffx.22896.1.S1_x_at1/113+18787957..18791666transposon protein, putative, unclassified
LOC_Os03g32960NANA3+18795487..18801908retrotransposon protein, putative, Ty3-gypsy subclass

Select all/Clear all

Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.46995.1.S1_x_at--621--81933Chr11:11397892..11397992 (25 bp)
GGAAGTCTTCTAGGAAACCATCTGA
LOC_Os11g19820
Os.46995.1.S1_x_at--533--5692Chr11:11398012..11398031 (20 bp)
GACTCTAACCCGACTAACGTGGACG
LOC_Os11g19820
Os.46995.1.S1_x_at--910--9071Chr03:18771786..18771810 (25 bp)
TAACCCGACTAACGTGGACGCAAGT
LOC_Os03g32900
Os.46995.1.S1_x_at--367--5711Chr03:18771792..18771816 (25 bp)
GACTAACGTGGACGCAAGTTCTTCC
LOC_Os03g32900
Os.46995.1.S1_x_at--772--8917Chr05:14320229..14320248 (20 bp)
TGACCGGAAACCAGTCGGACACAGG
LOC_Os05g24840
Os.46995.1.S1_x_at--508--3411Chr03:18771941..18771965 (25 bp)
CAGAAGTCAAAACCCATGCAGACAA
LOC_Os03g32900
Os.46995.1.S1_x_at--643--1151Chr03:18771945..18771969 (25 bp)
AGTCAAAACCCATGCAGACAACCCT
LOC_Os03g32900
Os.46995.1.S1_x_at--181--651Chr03:18771956..18771980 (25 bp)
ATGCAGACAACCCTCGTGGACAAGA
LOC_Os03g32900
Os.46995.1.S1_x_at--752--5032Chr03:18771958..18771982 (25 bp)
GCAGACAACCCTCGTGGACAAGACG
LOC_Os03g32900
Os.46995.1.S1_x_at--987--81311Chr12:11778092..11778116 (25 bp)
GGACAAGACGCCAGCAATGACCGGA
LOC_Os12g20200
Os.46995.1.S1_x_at--775--22113Chr12:11778094..11778118 (25 bp)
ACAAGACGCCAGCAATGACCGGAGA
LOC_Os12g20200
Target Sequence 
GGAAGTCTTCTAGGAAACCATCTGATATAGATCCGTCCGGGAAAGACTCTAACCCGACTAACGTGGACGCAAGTTCTTCC
AAAGAAACCGGACCAACTGCTGAGGATCATCCAAGTGACAATCAGCCGGCAACCGATAATGTAGAACCCGGTGATCAACC
CCTGACCGGAAACCAGTCGGACACAGGGGCAAGCGAAGAGATTCCAGAAGTCAAAACCCATGCAGACAACCCTCGTGGAC
AAGACGCCAGCAATGACCGGAGA

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.46995.1.S1_x_at     

Putative homologies in rice

Putative homologies in arabidopsis