Browse Element(s) Details


OsAffx.10048.1.S1_x_at

Description gb:NM_190684.1
DB_XREF= gi:34908451
GEN=P0683F02.17
TID=OsAffx.10048.1
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Oryza sativa (japonica cultivar-group) putative gagpol polyprotein (P0683F02.17), mRNA.
PROD=putative gagpol polyprotein
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os03g0654011/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os01g6396011/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os03g442401/11retrotransposon protein, putative, Ty1-copia subclass, expressed
LOC_Os10g305101/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os06g135401/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os03g200801/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os04g437201/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os08g431101/11retrotransposon protein, putative, Ty1-copia subclass, expressed
LOC_Os08g174201/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os02g238701/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os07g053401/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os05g122901/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os05g498501/11retrotransposon protein, putative, Ty1-copia subclass, expressed
LOC_Os06g395401/11retrotransposon protein, putative, Ty1-copia subclass
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os03g06510OsAffx.12755.1.S1_at11/113+3237548..3249707Viral A-type inclusion protein repeat containing protein, expressed
LOC_Os03g06510Os.8719.1.A1_s_at11/113+3237548..3249707Viral A-type inclusion protein repeat containing protein, expressed
LOC_Os03g06520Os.10754.1.S1_at10/113+3250261..3255989Sulfate transporter 3.1, putative, expressed
LOC_Os03g06530OsAffx.24994.2.S1_s_at11/113+3267653..3268189hypothetical protein
LOC_Os03g06540OsAffx.10048.1.S1_x_at11/113+3269190..3273536retrotransposon protein, putative, Ty1-copia subclass
LOC_Os03g06550NANA3+3276212..3279503retrotransposon protein, putative, unclassified
LOC_Os03g06560NANA3+3280130..3286286retrotransposon protein, putative, unclassified
LOC_Os03g06570Os.27797.1.A1_at11/113+3289562..3291678IQ calmodulin-binding motif family protein, expressed
LOC_Os03g06570OsAffx.6794.1.S1_x_at2/113+3289562..3291678IQ calmodulin-binding motif family protein, expressed
LOC_Os03g06570OsAffx.25518.1.S1_x_at1/113+3289562..3291678IQ calmodulin-binding motif family protein, expressed
LOC_Os03g06580Os.11808.2.S1_at11/113+3293893..3296539expressed protein
LOC_Os03g06580Os.11808.2.S1_x_at11/113+3293893..3296539expressed protein
LOC_Os03g06580Os.11808.1.S1_at11/113+3293893..3296539expressed protein
LOC_Os03g06600OsAffx.24995.1.S1_at11/113+3297008..3297951expressed protein

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.10048.1.S1_x_at--894--10352Chr03:3272958..3272982 (25 bp)
TTTTTACATGCTCCAACTACACACC
LOC_Os03g06540
OsAffx.10048.1.S1_x_at--1051--2012Chr03:3272973..3272997 (25 bp)
ACTACACACCATTGGGCAGCTGTTA
LOC_Os03g06540
OsAffx.10048.1.S1_x_at--216--32Chr03:3273091..3273115 (25 bp)
ATTGGGCTGGTTCCCTAGATGACAG
LOC_Os03g06540
OsAffx.10048.1.S1_x_at--270--6036Chr10:15538526..15538548 (23 bp)
GAGATCTACAGGAGGTTTTGCAGTA
LOC_Os10g30510
OsAffx.10048.1.S1_x_at--277--3073Chr05:7038929..7038948 (20 bp)
AATCTTGTGTCATGGAGTGCACGGA
LOC_Os05g12290
OsAffx.10048.1.S1_x_at--559--7492Chr03:3273251..3273275 (25 bp)
GTGGGTACAGACTTTATTGGCAGAA
LOC_Os03g06540
OsAffx.10048.1.S1_x_at--973--5172Chr03:3273278..3273302 (25 bp)
GCAAGTTGAGAGTCCATCTATGGCA
LOC_Os03g06540
OsAffx.10048.1.S1_x_at--946--2837Chr08:27126747..27127125 (25 bp)
AAGTATCTTTCTGCTAATCCTGTGT
LOC_Os08g43110
OsAffx.10048.1.S1_x_at--767--9276Chr06:7473111..7473134 (24 bp)
TCCTGTGTTTCATGCCAGAACTAAA
LOC_Os06g13540
OsAffx.10048.1.S1_x_at--195--5612Chr03:3273426..3273450 (25 bp)
GAAATTGATTTTGTGCCTACAGGAG
LOC_Os03g06540
OsAffx.10048.1.S1_x_at--1128--2292Chr03:3273473..3273497 (25 bp)
AAAGGCTTTGTCAGTTCGACAGTTG
LOC_Os03g06540
Target Sequence 
TTTTTACATGCTCCAACTACACACCATTGGGCAGCTGTTAAGAGAATTTTAAGATATTTGAAGCAATGTACTAGACTTGG
ACTTAAGTTAAGCAAGTCTAGATCTATGTTAGTAAGTGCTTGTTCAGATGCAGATTGGGCTGGTTCCCTAGATGACAGGA
GATCTACAGGAGGTTTTGCAGTATTCTTAGGAGATAATCTTGTGTCATGGAGTGCACGGAAACAAGCTACTGTTTCTAGA
TCTAGTACAGAGTCAGAATATAAAGCTTTGGCTAATGCTACAGCAGAGATTATGTGGGTACAGACTTTATTGGCAGAATT
GCAAGTTGAGAGTCCATCTATGGCAAAGTTGTGGTGTGATAATTTAGGAGCTAAGTATCTTTCTGCTAATCCTGTGTTTC
ATGCCAGAACTAAACACATAGAGGTTGATTATCATTTTGTTCGAGAAAGAGTTTCAAGGAAATTGTTAGAAATTGATTTT
GTGCCTACAGGAGATCAAGTTGCAGATGGTTTTACAAAGGCTTTGTCAGTTCGACAGTTG

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.10048.1.S1_x_at     

Putative homologies in rice

Putative homologies in arabidopsis