Browse Element(s) Details


Os.55399.1.S1_at

Description gb:AK108009.1
DB_XREF= gi:32993218
TID=Os.55399.1
CNT=1
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.55399 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:002-135-H02, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:002-135-H02, full insert sequence.
FL= gb:AK108009.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os03g5362011/11Seed maturation protein, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os03g53570NANA3+30669535..30670311retrotransposon protein, putative, unclassified
LOC_Os03g53580OsAffx.25704.1.S1_at10/113+30673727..30675773expressed protein
LOC_Os03g53590Os.11603.1.S1_at11/113+30677366..30683868expressed protein
LOC_Os03g53600Os.6095.1.S1_at11/113+30686876..30690666HTH DNA-binding protein, putative, expressed
LOC_Os03g53610NANA3+30691265..30692175Seed maturation protein
LOC_Os03g53620Os.55399.1.S1_at11/113+30693515..30694380Seed maturation protein, expressed
LOC_Os03g53630Os.10544.1.S2_at11/113+30698003..30706129acetyltransferase, GNAT family protein, expressed
LOC_Os03g53630Os.10544.1.S1_at10/113+30698003..30706129acetyltransferase, GNAT family protein, expressed
LOC_Os03g53640Os.20176.1.S1_at11/113+30706199..30707865expressed protein
LOC_Os03g53650Os.7102.1.S1_at11/113+30710412..30714085Cysteine synthase, putative, expressed
LOC_Os03g53660Os.46743.3.S1_a_at11/113+30714994..30724355myosin family protein, putative, expressed

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Gene Ontology Classification
GO idTypeName
GO:0006873biological_processcell ion homeostasis
GO:0007275biological_processdevelopment
GO:0009793biological_processembryonic development (sensu Magnoliophyta)
GO:0009845biological_processseed germination
GO:0010226biological_processresponse to lithium ion
GO:0005634cellular_componentnucleus
GO:0005730cellular_componentnucleolus
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.55399.1.S1_at--12--5811Chr03:30694182..30694206 (25 bp)
GACGCGTACGACAGCAAGGTCAAGA
LOC_Os03g53620
Os.55399.1.S1_at--842--8011Chr03:30693982..30694006 (25 bp)
GGAGGACACGGCGATCACCATCGGC
LOC_Os03g53620
Os.55399.1.S1_at--752--3371Chr03:30693668..30693692 (25 bp)
CAGCCACGGGCAGCCGACGAATGTA
LOC_Os03g53620
Os.55399.1.S1_at--393--5791Chr03:30693653..30693677 (25 bp)
GACGAATGTACACCCGCTCTGGCCG
LOC_Os03g53620
Os.55399.1.S1_at--46--8471Chr03:30693634..30693658 (25 bp)
TGGCCGAGCAGTTCGACCAAATCTA
LOC_Os03g53620
Os.55399.1.S1_at--59--3891Chr03:30693621..30693645 (25 bp)
CGACCAAATCTAGCGAATTTAGCAT
LOC_Os03g53620
Os.55399.1.S1_at--603--4571Chr03:30693609..30693633 (25 bp)
GCGAATTTAGCATGCGTTTGATTAT
LOC_Os03g53620
Os.55399.1.S1_at--1038--6851Chr03:30693594..30693618 (25 bp)
GTTTGATTATGTATTAGCGCGCGGT
LOC_Os03g53620
Os.55399.1.S1_at--547--10191Chr03:30693583..30693607 (25 bp)
TATTAGCGCGCGGTTTGCCGAACGC
LOC_Os03g53620
Os.55399.1.S1_at--883--4671Chr03:30693574..30693598 (25 bp)
GCGGTTTGCCGAACGCTAAGCGAAT
LOC_Os03g53620
Os.55399.1.S1_at--87--5231Chr03:30693553..30693577 (25 bp)
GAATTTAGCGAGTGCTTGAATCCAA
LOC_Os03g53620
Target Sequence 
GACGCGTACGACAGCAAGGTCAAGATCGGCGAGGCGCTGGAGGCGGCGGCGAGGGCGGTCGGGGACCAGCCCGTGCGCGG
GTCCGACGCGGCGGCGATAAGCTCCGCGGAGGCGAGCGCGGGCGCGGGCGTCGTCCCCGGCGGCGTCGCCGAGCAGGCGC
AGGCGGCGGCGGACGCCAACGCCGGTGCCGCGCCGCCCGCGGAGGACACGGCGATCACCATCGGCGACGTCCTCGCGTGG
AACGCGACGGCGATGCTGCCGACGGAGAAGGCGGTGACGGCGGAGGACGCGGCGGCGGCGGCGGGAGCGGAGGTGGAGAA
GGACCCCGGCGAGGGGACCAGGCCCTACGGTGTGAGCGCGGCGCTCGCCGCGGCGGCGAAGCACAACCGGGAGGACGCCG
AGTGCCAGTCGAAGAGGAGCGCGCAGCCACGGGCAGCCGACGAATGTACACCCGCTCTGGCCGAGCAGTTCGACCAAATC
TAGCGAATTTAGCATGCGTTTGATTATGTATTAGCGCGCGGTTTGCCGAACGCTAAGCGAATTTAGCGAGTGCTTGAATC
CAA

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.55399.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis