Browse Element(s) Details


Os.47004.1.S1_at

Description gb:NM_195811.1
DB_XREF= gi:37532981
TID=Os.47004.1
CNT=2
FEA=mRNA
TIER=ConsEnd
STK=0
UG=Os.47004 (NCBI UniGene Cluster)
DEF=Oryza sativa (japonica cultivar-group) putative retroelement (OJ1325D05.4), mRNA.
PROD=putative retroelement
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os10g1896011/11retrotransposon protein, putative, unclassified
LOC_Os11g322003/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g416243/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os06g193503/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os08g214342/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os12g200402/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g417902/11retrotransposon protein, putative, unclassified
LOC_Os08g236202/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os05g223501/11retrotransposon protein, putative, unclassified
LOC_Os02g227001/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os04g021801/11retrotransposon protein, putative, unclassified
LOC_Os01g216901/11retrotransposon protein, putative, unclassified
LOC_Os04g168501/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os09g074301/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os04g079441/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os04g140601/11retrotransposon protein, putative, unclassified
LOC_Os06g350001/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os01g233301/11retrotransposon protein, putative, unclassified
LOC_Os04g175741/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os04g207201/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os07g208301/11retrotransposon protein, putative, Ty3-gypsy subclass
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os10g18890Os.46466.1.S1_at11/1110+9293329..9297181HNH endonuclease family protein, expressed
LOC_Os10g18899NANA10+9298318..9298518NA
LOC_Os10g18910OsAffx.10645.1.S1_at3/1110+9300481..9300798hypothetical protein
LOC_Os10g18920OsAffx.30451.1.S1_s_at8/1110+9301534..9302038hypothetical protein
LOC_Os10g18920OsAffx.30451.3.S1_x_at2/1110+9301534..9302038hypothetical protein
LOC_Os10g18930OsAffx.25917.1.S1_at1/1110+9306154..9307068hypothetical protein
LOC_Os10g18930OsAffx.22629.1.S1_at1/1110+9306154..9307068hypothetical protein
LOC_Os10g18940OsAffx.8356.1.S1_x_at1/1110+9312393..9316371Transposable element protein, putative, Retrotrans_gag
LOC_Os10g18940OsAffx.14826.1.S1_at1/1110+9312393..9316371Transposable element protein, putative, Retrotrans_gag
LOC_Os10g18950Os.56292.1.S1_at1/1110+9317591..9318748retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g18950Os.56292.1.S1_x_at1/1110+9317591..9318748retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g18960Os.47004.1.S1_at11/1110+9321469..9323842retrotransposon protein, putative, unclassified
LOC_Os10g18960Os.10731.1.A1_a_at11/1110+9321469..9323842retrotransposon protein, putative, unclassified
LOC_Os10g18960Os.48015.1.A1_x_at2/1110+9321469..9323842retrotransposon protein, putative, unclassified
LOC_Os10g18970OsAffx.31869.1.S1_at10/1110+9326581..9327696retrotransposon protein, putative, unclassified
LOC_Os10g18970OsAffx.31869.5.S1_x_at5/1110+9326581..9327696retrotransposon protein, putative, unclassified
LOC_Os10g18970OsAffx.31869.3.S1_s_at1/1110+9326581..9327696retrotransposon protein, putative, unclassified
LOC_Os10g18970OsAffx.31869.2.S1_at1/1110+9326581..9327696retrotransposon protein, putative, unclassified
LOC_Os10g18970OsAffx.31869.4.S1_x_at1/1110+9326581..9327696retrotransposon protein, putative, unclassified
LOC_Os10g18980NANA10+9331768..9333386hypothetical protein
LOC_Os10g18990OsAffx.20507.1.S1_at11/1110+9335789..9339059Leucine Rich Repeat family protein
LOC_Os10g19000Os.47463.1.S1_x_at6/1110+9343683..9345900transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os10g19000Os.14491.2.S1_x_at6/1110+9343683..9345900transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os10g19010NANA10+9347314..9351611transposon protein, putative, CACTA, En/Spm sub-class

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.47004.1.S1_at--1080--2312Chr11:18517841..18518043 (25 bp)
AAAGGGCTGCTCGTGGTTGTTTTTG
LOC_Os11g32200
Os.47004.1.S1_at--1149--8313Chr07:12048187..12048206 (20 bp)
GGCTGCTCGTGGTTGTTTTTGCTAT
LOC_Os07g20830
Os.47004.1.S1_at--510--10131Chr10:9322412..9322436 (25 bp)
TATCGACAAGTTTAGGAGGAGCCAA
LOC_Os10g18960
Os.47004.1.S1_at--250--8099Chr12:11652345..11652772 (25 bp)
GGAGCCAAGAAGGACTTAAGATCAT
LOC_Os12g20040
Os.47004.1.S1_at--116--41316Chr12:11652819..11652843 (25 bp)
CGCACCCAGGCCAAGATTTGGCAAA
LOC_Os12g20040
Os.47004.1.S1_at--645--2814Chr09:3712171..3712196 (25 bp)
AAGATTTGGCAAAGTGGCTTCTTCT
LOC_Os09g07430
Os.47004.1.S1_at--184--2871Chr10:9321899..9321923 (25 bp)
AAGTGGCTTCTTCTGGACCAACGAT
LOC_Os10g18960
Os.47004.1.S1_at--880--8071Chr10:9321885..9321909 (25 bp)
GGACCAACGATGTACAAAGACTTAA
LOC_Os10g18960
Os.47004.1.S1_at--218--771Chr10:9321663..9321687 (25 bp)
ATGTCGTGCAGCGCTGCGGATGCAA
LOC_Os10g18960
Os.47004.1.S1_at--18--36511Chr08:14161377..14161401 (25 bp)
CTTCCGAGACCTCCTACGAGAAATG
LOC_Os08g23620
Os.47004.1.S1_at--57--5838Chr08:14161384..14161408 (25 bp)
GACCTCCTACGAGAAATGGGAGCCA
LOC_Os08g23620
Target Sequence 
AAAGGGCTGCTCGTGGTTGTTTTTGCTATCGACAAGTTTAGGAGGAGCCAAGAAGGACTTAAGATCATAGAACGATGCCA
TGCCTCACCCTATGGTGGCCATTACGGTGCATTCCGCACCCAGGCCAAGATTTGGCAAAGTGGCTTCTTCTGGACCAACG
ATGTACAAAGACTTAAAAGAATTCGTCAGAAGATGCACAAGCTGCCAAAGGCAAGGAGGAATCACTGCTCGCCATGCAAT
GCCCCTCACATACAATTTGGTATAGACTTCATGGGACCTTTCCCTAAGTCTCGCAACTGCGAGTACATTCTGGTGGCAGT
CGACTATGTCTCCAAGTGGGTAGAGGCTATGTCGTGCAGCGCTGCGGATGCAAGGCATGCCAAGAAGATGTTCACAGAAA
TCATCTTCCCAAGATTTGGTACCCCCAGAATGGTCATAAGTGACGGAGGTTCTCATTTCATTGATAAAACCTTCCGAGAC
CTCCTACGAGAAATGGGAGCCA

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.47004.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis