Browse Element(s) Details

Os.55561.1.S1_at

Description

gb:AK108320.1
DB_XREF= gi:32993529
TID=Os.55561.1
CNT=1
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.55561 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:002-141-H01, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:002-141-H01, full insert sequence.
FL= gb:AK108320.1
REP_ORG=O. sativa

Associated TIGR Gene Locus

TIGR Locus	Matching Probes	Description
LOC_Os07g39960	11/11	Zinc finger, C2H2 type family protein

Gene Context (flanking 25kb)

TIGR Locus	Matching Probeset	Matching Probes	Chr	Strand	Coordinates	Description
LOC_Os07g39920	Os.50873.1.S1_x_at	11/11	7	+	23942843..23948733	formin homology 2 domain-containing protein, putative, expressed
LOC_Os07g39920	Os.50281.1.S1_at	11/11	7	+	23942843..23948733	formin homology 2 domain-containing protein, putative, expressed
LOC_Os07g39930	OsAffx.16646.1.S1_at	11/11	7	+	23951710..23954078	expressed protein
LOC_Os07g39940	OsAffx.28832.1.S1_at	10/11	7	+	23955321..23956573	Helix-loop-helix DNA-binding domain containing protein
LOC_Os07g39950	OsAffx.16647.1.S1_at	9/11	7	+	23964188..23968364	Mitotic checkpoint protein BUB3, putative, expressed
LOC_Os07g39960	Os.55561.1.S1_at	11/11	7	+	23971763..23975024	Zinc finger, C2H2 type family protein
LOC_Os07g39970	Os.50628.1.S1_at	11/11	7	+	23978845..23979556	Zinc finger, C2H2 type family protein, expressed
LOC_Os07g39980	Os.23164.1.S1_a_at	11/11	7	+	23983584..23988259	expressed protein
LOC_Os07g39990	Os.52448.2.S1_at	11/11	7	+	23989712..23990632	expressed protein
LOC_Os07g40000	Os.52902.1.S1_at	11/11	7	+	23994820..23995870	LOB domain protein 37, putative, expressed
LOC_Os07g40010	Os.47086.1.S1_at	1/11	7	+	23997752..23999295	retrotransposon protein, putative, Ty1-copia subclass
LOC_Os07g40010	OsAffx.485.1.S1_at	1/11	7	+	23997752..23999295	retrotransposon protein, putative, Ty1-copia subclass

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Gene Ontology Classification

GO id	Type	Name
GO:0009409	biological_process	response to cold
GO:0009414	biological_process	response to water deprivation
GO:0009611	biological_process	response to wounding
GO:0009651	biological_process	response to salt stress
GO:0009737	biological_process	response to abscisic acid stimulus
GO:0009793	biological_process	embryonic development (sensu Magnoliophyta)
GO:0010200	biological_process	response to chitin
GO:0042538	biological_process	hyperosmotic salinity response
GO:0045449	biological_process	regulation of transcription
GO:0005634	cellular_component	nucleus
GO:0003676	molecular_function	nucleic acid binding
GO:0003677	molecular_function	DNA binding
GO:0003700	molecular_function	transcription factor activity
GO:0008270	molecular_function	zinc ion binding

Probe Info

Probe Name	Hit(s)	Location	Sequence	TIGR Locus
Os.55561.1.S1_at--1124--573	1	Chr07:23971999..23972023 (25 bp)	GACGGCGAAGCCACAGCATGGGTAC	LOC_Os07g39960
Os.55561.1.S1_at--736--911	1	Chr07:23972036..23972060 (25 bp)	TGCGGCAAGGTGTACGGGTCCTACC	LOC_Os07g39960
Os.55561.1.S1_at--379--837	1	Chr07:23972161..23972185 (25 bp)	GGCGAAGGTGCACCGTTGCTCCATC	LOC_Os07g39960
Os.55561.1.S1_at--594--563	1	Chr07:23972308..23972332 (25 bp)	GACAGCGGTGCTGAAGGACTTCGAC	LOC_Os07g39960
Os.55561.1.S1_at--98--475	2	Chr07:23972317..23972341 (25 bp)	GCTGAAGGACTTCGACCTGAACCTG	LOC_Os07g39960
Os.55561.1.S1_at--998--599	1	Chr07:23972375..23972399 (25 bp)	GAGAGCTCACCACCGGAGGCCAAGA	LOC_Os07g39960
Os.55561.1.S1_at--207--279	1	Chr07:23972396..23972420 (25 bp)	AAGAGAGCACGTCTGCTGCTTCTCG	LOC_Os07g39960
Os.55561.1.S1_at--346--623	1	Chr07:23972468..23972492 (25 bp)	GATGGTTTAGGTGCTTAGCCGTTCC	LOC_Os07g39960
Os.55561.1.S1_at--902--667	1	Chr07:23972488..23972512 (25 bp)	GTTCCGGTTTAGGTTTCAGATTGAT	LOC_Os07g39960
Os.55561.1.S1_at--523--645	1	Chr07:23972510..23972534 (25 bp)	GATACCGGGTTGTTAATTTCATTGA	LOC_Os07g39960
Os.55561.1.S1_at--334--17	1	Chr07:23972542..23972566 (25 bp)	ATTTTAGTTCACTTCTGGTTGGGCG	LOC_Os07g39960

Target Sequence

GACGGCGAAGCCACAGCATGGGTACGAGTGCTCGGTGTGCGGCAAGGTGTACGGGTCCTACCAGGCGCTGGGCGGGCACA
AGACGAGCCACCGCAAGCCGCCGTCGCCGGCGGCCGAACCGGCGGCCGGCGAAGAGCCGTCCTCCGGCGGGGTGGCCGGC
GAGGCGAAGGTGCACCGTTGCTCCATCTGCCTCCGCACGTTCCCGTCCGGGCAGGCGCTGGGCGGGCACAAGCGGCTGCA
CTACGAGGGCGGCGCCGTCGGAGACGCCGTCAAGGAGAAGAACTCCCTGAAGACCAAGGCGGCGGTGGCGACAGCGGTGC
TGAAGGACTTCGACCTGAACCTGCCGGCCGCGGCGACGACGGCGGGGGACGAGGCCGAGAGCTCACCACCGGAGGCCAAG
AGAGCACGTCTGCTGCTTCTCGTCTAACCCGCGGCGGTGGCGGCGGCGGCGGCGGCGGCTTGTGGTTTTGATGGTTTAGG
TGCTTAGCCGTTCCGGTTTAGGTTTCAGATTGATACCGGGTTGTTAATTTCATTGATTGATTTATTTTAGTTCACTTCTG
GTTGGGCG

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:

Putative homologies in rice

Putative homologies in arabidopsis