Browse Element(s) Details


Os.40001.1.A1_at

Description gb:CF334154
DB_XREF= gi:33816639
DB_XREF=JMT--03-F09.g1
CLONE=JMT--03-F09
TID=Os.40001.1
CNT=46
FEA=EST
TIER=Stack
STK=19
UG=Os.40001 (NCBI UniGene Cluster)
UG_TITLE=Transcribed sequences
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os12g120809/11expressed protein
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os12g12010OsAffx.31705.2.S1_at10/1112+6582236..6585235Leucine Rich Repeat family protein
LOC_Os12g12020NANA12+6588993..6589523retrotransposon protein, putative, Ty1-copia subclass
LOC_Os12g12030Os.54151.1.S1_x_at2/1112+6590751..6592904retrotransposon protein, putative, Ty1-copia subclass
LOC_Os12g12040Os.38764.1.S1_x_at8/1112+6595058..6597584retrotransposon protein, putative, Ty1-copia subclass
LOC_Os12g12040Os.45173.1.S1_x_at2/1112+6595058..6597584retrotransposon protein, putative, Ty1-copia subclass
LOC_Os12g12040Os.10731.1.A1_a_at1/1112+6595058..6597584retrotransposon protein, putative, Ty1-copia subclass
LOC_Os12g12050NANA12+6602070..6605019retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os12g12060NANA12+6607455..6608453retrotransposon protein, putative, Ty1-copia subclass
LOC_Os12g12070OsAffx.19621.1.S1_at11/1112+6609284..6609814hypothetical protein
LOC_Os12g12080Os.40001.1.A1_at9/1112+6609704..6623597expressed protein
LOC_Os12g12080OsAffx.16205.1.S1_at2/1112+6609704..6623597expressed protein
LOC_Os12g12080OsAffx.512.1.S1_x_at1/1112+6609704..6623597expressed protein
LOC_Os12g12090Os.4921.1.S1_at11/1112+6624346..6624930expressed protein
LOC_Os12g12100NANA12+6627865..6628454transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os12g12110OsAffx.31708.1.S1_at9/1112+6639548..6642074hypothetical protein
LOC_Os12g12120OsAffx.31705.2.S1_at4/1112+6646336..6649272Leucine Rich Repeat family protein, expressed
LOC_Os12g12120OsAffx.27330.1.S1_s_at1/1112+6646336..6649272Leucine Rich Repeat family protein, expressed

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.40001.1.A1_at--1149--75Chr12:6609899..6609923 (25 bp)
ATTGCCGGCCGAAGAGAGCTCTTGT
LOC_Os12g12080
Os.40001.1.A1_at--471--9951Chr12:6609964..6609988 (25 bp)
TACCGACTTCCCTGGATGCGCGGTA
LOC_Os12g12080
Os.40001.1.A1_at--458--6311Chr12:6609978..6610002 (25 bp)
GATGCGCGGTACTCGGGAACACTAC
LOC_Os12g12080
Os.40001.1.A1_at--939--7231Chr12:6610014..6610038 (25 bp)
GTCGCCGTCTTCAAACTACCGAAGA
LOC_Os12g12080
Os.40001.1.A1_at--386--6791NONE
TTTGTTACCCGGCTGGAAGGAGGAG
NONE
Os.40001.1.A1_at--445--7271Chr12:6612363..6612387 (25 bp)
GTCCATTTGGATCGAGTTCTTATCA
LOC_Os12g12080
Os.40001.1.A1_at--205--8571Chr12:6612370..6612394 (25 bp)
TGGATCGAGTTCTTATCAAAGCCGG
LOC_Os12g12080
Os.40001.1.A1_at--216--9351Chr12:6612374..6612398 (25 bp)
TCGAGTTCTTATCAAAGCCGGGAGT
LOC_Os12g12080
Os.40001.1.A1_at--318--10791Chr12:6612484..6612508 (25 bp)
TTGATTTATTCTATAGTTTCTGCTA
LOC_Os12g12080
Os.40001.1.A1_at--266--471Chr12:6612556..6612580 (25 bp)
ATCTCCCTTGGAGCCATGTCAAAAT
LOC_Os12g12080
Os.40001.1.A1_at--268--3611NONE
CTTGGAGCCATGTCAAAATATATGC
NONE
Target Sequence 
ATTGCCGGCCGAAGAGAGCTCTTGTTGTCGCCGTTCCGGCATCCTCCCTCTCCCTCTNTGCCAGCTACCGACTTCCCTGG
ATGCGCGGTACTCGGGAACACTACCCGACACCGGCGTCGCCGTCTTCAAACTACCGAAGAGCCGGCGCCCCTCCTCCCTC
TCTCCCTTTTGTTACCCGGCTGGAAGGAGGAGAAAGAAAGGAACGGGAGGAAGAAGAAGAAGGAAAAGAAAAAGAAAAAG
AAAGGCTGACAGAGTCCATTTGGATCGAGTTCTTATCAAAGCCGGGAGTTCAATCACATAAGTTAGTTCCCTTTAAACCT
AGTCTTGAAATCTAGTATTGTTAGATGGTTTAACTCTATATCAAAACATTAGAGTTGATTTATTCTATAGTTTCTGCTAT
ATTAGTTAGCCACAAGTTTGTAAATACCCATGTATTTTATAATAATATCTCCCTTGGAGCCATGTCAAAATATATGC

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.40001.1.A1_at     

Putative homologies in rice

Putative homologies in arabidopsis