Browse Element(s) Details


OsAffx.20628.2.S1_x_at

Description gb:NM_188155.1
DB_XREF= gi:34903393
GEN=OSJNBa0077F02.5
TID=OsAffx.20628.2
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Oryza sativa (japonica cultivar-group) retrotransposon protein-like (OSJNBa0077F02.5), mRNA.
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os07g2308011/11retrotransposon protein, putative, unclassified
LOC_Os11g356904/11retrotransposon protein, putative, unclassified
LOC_Os04g434803/11retrotransposon protein, putative, unclassified
LOC_Os03g357102/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os08g229002/11retrotransposon protein, putative, unclassified
LOC_Os11g287902/11retrotransposon protein, putative, unclassified
LOC_Os10g119301/11retrotransposon protein, putative, unclassified
LOC_Os11g230901/11retrotransposon protein, putative, unclassified
LOC_Os02g254401/11retrotransposon protein, putative, unclassified
LOC_Os12g283401/11retrotransposon protein, putative, unclassified
LOC_Os04g296601/11retrotransposon protein, putative, unclassified
LOC_Os12g168201/11retrotransposon protein, putative, unclassified
LOC_Os06g256301/11retrotransposon protein, putative, unclassified
LOC_Os04g148701/11retrotransposon protein, putative, unclassified
LOC_Os04g213801/11retrotransposon protein, putative, unclassified
LOC_Os12g247701/11retrotransposon protein, putative, unclassified
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os07g23030Os.49802.1.S1_at11/117+12987937..12993843expressed protein
LOC_Os07g23030Os.49802.1.S2_at11/117+12987937..12993843expressed protein
LOC_Os07g23030Os.38764.1.S1_x_at1/117+12987937..12993843expressed protein
LOC_Os07g23030Os.54151.1.S1_x_at1/117+12987937..12993843expressed protein
LOC_Os07g23030OsAffx.28492.1.S1_at1/117+12987937..12993843expressed protein
LOC_Os07g23040NANA7+13000941..13002311retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os07g23050NANA7+13003018..13006776retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os07g23060OsAffx.28549.1.S1_s_at11/117+13008128..13009393hypothetical protein
LOC_Os07g23070OsAffx.22722.1.S1_x_at1/117+13010649..13016112retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os07g23080OsAffx.20628.2.S1_at11/117+13017287..13018624retrotransposon protein, putative, unclassified
LOC_Os07g23080OsAffx.20628.2.S1_x_at11/117+13017287..13018624retrotransposon protein, putative, unclassified
LOC_Os07g23090OsAffx.22171.1.S1_at11/117+13018919..13020408retrotransposon protein, putative, unclassified
LOC_Os07g23100OsAffx.16372.1.S1_at11/117+13022957..13023649hypothetical protein
LOC_Os07g23110Os.31900.1.S1_at10/117+13024746..13035421Poly synthetase 1, putative, expressed
LOC_Os07g23110Os.31900.2.S1_x_at10/117+13024746..13035421Poly synthetase 1, putative, expressed
LOC_Os07g23110Os.31900.2.S1_at10/117+13024746..13035421Poly synthetase 1, putative, expressed
LOC_Os07g23120Os.32488.1.S1_at11/117+13035830..13036946expressed protein
LOC_Os07g23130OsAffx.16373.1.S1_at11/117+13039086..13040891hypothetical protein

Select all/Clear all

Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.20628.2.S1_x_at--824--1872Chr11:20425666..20425690 (25 bp)
ACGAGGCGAAGACCGCGACTCTTGA
LOC_Os11g35690
OsAffx.20628.2.S1_x_at--794--5711Chr07:13017919..13017943 (25 bp)
GACTCTTGAGAATTTAGTTCCTCAT
LOC_Os07g23080
OsAffx.20628.2.S1_x_at--299--10091Chr07:13017893..13017917 (25 bp)
TTGGAACCCTTGAGACCACCAGAAA
LOC_Os07g23080
OsAffx.20628.2.S1_x_at--239--4351Chr07:13017868..13017892 (25 bp)
CCAGCTGCACAAGGCTAAGGAGCTT
LOC_Os07g23080
OsAffx.20628.2.S1_x_at--420--4152Chr11:20425793..20426271 (25 bp)
CGCCGAGCTTCAAGAATCCAACTTT
LOC_Os11g35690
OsAffx.20628.2.S1_x_at--149--5454Chr11:20425818..20425839 (22 bp)
GAACTGAGCGGTTCGTCAAAAGTGC
LOC_Os11g35690
OsAffx.20628.2.S1_x_at--550--8951Chr07:13017670..13017694 (25 bp)
TGAACTAGAAAAGCGGATCCAAACT
LOC_Os07g23080
OsAffx.20628.2.S1_x_at--370--8431Chr07:13017631..13017655 (25 bp)
GGCCAAATTGGCGAAACAGAGGGAT
LOC_Os07g23080
OsAffx.20628.2.S1_x_at--829--6135Chr11:20425781..20426011 (25 bp)
GAGGGATTCGGCTCTGAAAGATGTT
LOC_Os11g35690
OsAffx.20628.2.S1_x_at--1057--1154Chr12:14203796..14203820 (25 bp)
AGTCTCAGGCTCAATTCGATGTCTT
LOC_Os12g24770
OsAffx.20628.2.S1_x_at--1052--8112Chr12:9644252..9644276 (25 bp)
ATGGTCCGAGTACATTTGATGCTTC
LOC_Os12g16820
Target Sequence 
ACGAGGCGAAGACCGCGACTCTTGAGAATTTAGTTCCTCATCTTGGAACCCTTGAGACCACCAGAAACCAGCTGCACAAG
GCTAAGGAGCTTGCCAGGAAAACTGAGCATGATCTGAGGGATCGGATCGCCGAGCTTCAAGAATCCAACTTTGAACTGAG
CGGTTCGTCAAAAGTGCAAGCCGCCAAGATATCTGAACTAGAAAAGCGGATCCAAACTCTGGAGAATGACAAGGCCAAAT
TGGCGAAACAGAGGGATTCGGCTCTGAAAGATGTTGAAGATCGCAAAATCAAGTCTCAGGCTCAATTCGATGTCTTGGTC
AATAAAATCAAAAGGCTTGAAGGGGCTAGGGATGAAGTCGCCAACGCTGCTACCCCACTCGTCCAAGCCATGTTCTTCAA
TAACAATGGTCCGAGTACATTTGATGCTTC

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 OsAffx.20628.2.S1_x_at     

Putative homologies in rice

Putative homologies in arabidopsis