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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagatggtagcttgtaacttaaactttatggtagattaaaatgttgaattataataaattttgttgtggggaccatggtagGTGATGGATTCTGATGCAGAGGGAACACCCAGTGAGTTCTTTGACTACTTCAAG

Basic information

species Oryza sativa
transcript LOC_Os11g10420.1
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os11g10420.2 (Oryza sativa), 3'ss of exon 11
lower sequence: GRMZM2G176698_T01 (Zea mays), 3'ss of exon 12
gtaagatggtagcttgtaac-----ttaaactttatggtagattaaaatgttgaa-ttataataaattttgtt------gtggggaccatggtagGTGATGGATTCTGATGCAGAGGGAACACCCAGTGAGTTCTTTGACTACTTCAAG
||| || || |||| ||||      ||| |  || |  ||   |||||| | | | || |||  | || | ||      || |  |   || ||||||||||||||||||||||||||||| ||||||||||||||||| ||||| |||
gtatgaaggaagctcgtaatctgttttagatatttttatattataaaatatgggagttttaaatacttatattttttgggttgaaaatttgctagGTGATGGATTCTGATGCAGAGGGAACTCCCAGTGAGTTCTTTGATTACTTTAAG

upper sequence: LOC_Os11g10420.2 (Oryza sativa), 3'ss of exon 11
lower sequence: Vv04s0044g01210.t01 (Vitis vinifera), 3'ss of exon 12
----------gtaagatggtagcttgtaa-cttaaactttatggtagattaaaatg-----ttgaattataataaatt--ttgttgtggggacc-atggtagGTGATGGATTCTGATGCAGAGGGAACACCCAGTGAGTTCTTTGACTACTTCAAG
             | ||   ||||||||   |||| |||  |  || ||| |  |      |  | | ||  | || |  |        | ||   |||||||| |||||||||||||| ||||||   || || |||||||||||||| || || 
gtaatatactaatatattacagcttgtaggtttaagcttctttctatattgagtttgttcctcaattgatcctgaactgatcaagacatgaacttgtggtagGTCATGGATTCTGATGCTGAGGGAGTTCCAAGCGAGTTCTTTGACTATTTTAAA
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|29682738|gb|CB679013.1|CB679013
EST:     GGGTTAATTTTGAAAGTGCACCATTTAAACTGACAAGGGAGCTTCTTGAA                         GTGATGGATTCTGATGCAGAGGGAACACCCAGTGAGTTCTTTGACTACTTC
genomic: GGGTTAATTTTGAAAGTGCACCATTTAAACTGACAAGGGAGCTTCTTGAAgtaagatggt ... accatggtagGTGATGGATTCTGATGCAGAGGGAACACCCAGTGAGTTCTTTGACTACTTC
EST: gi|428172|gb|D24320.1|D24320
EST:     GGGTTAATTTTGAAAGTGCACCATTTAAACTGACAAGGGAGCTTCTTGAA                         GTGATGGATTCTGATGCAGAGGGAACACCCAGTGAGTTCTTTGACTACTTC
genomic: GGGTTAATTTTGAAAGTGCACCATTTAAACTGACAAGGGAGCTTCTTGAAgtaagatggt ... accatggtagGTGATGGATTCTGATGCAGAGGGAACACCCAGTGAGTTCTTTGACTACTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatggtagattaaaatgttgaattataataaattttgttgtggggaccatggtagGTGATGGATTCTGATGCAGAGGGAACACCCAGTGAGTTCTTTGACTACTTCAAG
     tagattaaaatgttga  TA-rich tract