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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTGAGAACTACTTCATATTCAATGATCGGTACAGAGGGATGAGAATGGACATTGACGGCATGTCTTATGAGgtatgctagttatgtttccctgaggattctgctactacctgtcattttttcttgacatctctctctcacgcacatttcattctgcagcatctttcatctttcatgacttgttttcacttctcagttcatttgtgatgctctgcactgtag

Basic information

species Oryza sativa
transcript LOC_Os04g51400.3
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g51400.3 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G140924_T02 (Zea mays), 5'ss of exon 3
CTTGAGAACTACTTCATATTCAATGATCGGTACAGAGGGATGAGAATGGACATTGACGGCATGTCTTATGAGgtatgctagttatgtttccctgaggattctgctactacctgtcattttttcttgacatctctctctcacgcacatttcattctgcagcatctttcatctttcatgacttgttttcac----ttctcagttcatttgtgatgctctgcactgtag
||  ||||||| || |||||||  |||||| ||||||| ||||| ||||| || ||||||||||| || || |||||   |              |||  |   |    | | || || |  ||| |      |||||  |     ||   |     ||||  ||   | | |||||  |||| |   |    |  |||  | ||||||||  ||||||  || ||
CTCCAGAACTATTTAATATTCAGCGATCGGCACAGAGGAATGAGGATGGATATCGACGGCATGTCCTACGAAgtatgtctgac------------ggacgccattttcccatttccttctcgcttcatcctattctctgtcttgtcttcagtcagtaagcagtttctgtttgtcatgttttgtatctccaaagtagtcatatgatttgtgacactctgctttgaag

upper sequence: LOC_Os04g51400.3 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G053909_T01 (Zea mays), 5'ss of exon 4
CTTGAGAACTACTTCATATTCAATGATCGGTACAGAGGGATGAGAATGGACATTGACGGCATGTCTTATGAGgtatg-ctagttatgtttccct------gagga-------ttctgctactacctgtcattt--------------tttcttgacatctctctctcacgcacatttcattctgca-gcatctttcatctttcatgacttgttttcacttctcagttcatttgtgatgctctgcactgtag
|| |||||||| |||||||||||||||||| | ||||| ||||| ||||| || ||||||||||| || || ||||| || | | | |  ||||      || ||       ||||| |       || | ||              | |||     |||||||||| | | |  | || || ||| |||  | |  | | |||||  ||  |     |  | |  | ||||||||  ||||||  |  ||
CTCGAGAACTATTTCATATTCAATGATCGGCATAGAGGAATGAGGATGGATATCGACGGCATGTCCTACGAAgtatgtctggatctctaccccttactctgacgacgccattttctgatttccttcgttacttcatcctcctctctctctctctctctctctctctctctctctctccagtcagcaagcagttcttgtttgtcatgcttttgtaagtgtagttatataatttgtgacactctgctttaaag
















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|29676639|gb|CB672914.1|CB672914
EST:     ATGATCGGTACAGAGGGATGAGAATGGACATTGACGGCATGTCTTATGAG                         GAATTGCTAGCATTGGGAGATAGAATTGGCACCGTAAGCACTGGCCTTTCA
genomic: ATGATCGGTACAGAGGGATGAGAATGGACATTGACGGCATGTCTTATGAGgtatgctagt ... tgcactgtagGAATTGCTAGCATTGGGAGATAGAATTGGCACCGTAAGCACTGGCCTTTCA
EST: gi|33675698|gb|CF303937.1|CF303937
EST:     ATGATCGGTACAGAGGGATGAGAATGGACATTGACGGCATGTCTTATGAG                         GAATTGCTAGCATTGGGAGATAGAATTGGCACCGTAAGCACTGGCCTTTCA
genomic: ATGATCGGTACAGAGGGATGAGAATGGACATTGACGGCATGTCTTATGAGgtatgctagt ... tgcactgtagGAATTGCTAGCATTGGGAGATAGAATTGGCACCGTAAGCACTGGCCTTTCA
EST: gi|58691609|gb|CK080296.1|CK080296
EST:     ATGATCGGTACAGAGGGATGAGAATGGACATTGACGGCATGTCTTATGAG                         GAATTGCTAGCATTGGGAGATAGAATTGGCACCGTAAGCACTGGCCTTTCA
genomic: ATGATCGGTACAGAGGGATGAGAATGGACATTGACGGCATGTCTTATGAGgtatgctagt ... tgcactgtagGAATTGCTAGCATTGGGAGATAGAATTGGCACCGTAAGCACTGGCCTTTCA
EST: gi|89196993|gb|CI021833.1|CI021833
EST:     ATGATCGGTACAGAGGGATGAGAATGGACATTGACGGCATGTCTTATGAG                         GAATTGCTAGCATTGGGAGATAGAATTGGCACCGTAAGCACTGGCCTTTCA
genomic: ATGATCGGTACAGAGGGATGAGAATGGACATTGACGGCATGTCTTATGAGgtatgctagt ... tgcactgtagGAATTGCTAGCATTGGGAGATAGAATTGGCACCGTAAGCACTGGCCTTTCA
EST: gi|12622915|gb|AU173128.1|AU173128
EST:     CGGCATNTCTTATGAG                         GAATTGCTAGCATTGGGAGATAGAATTGGCCCCGTAAGCACTGGCCTTTCA
genomic: CGGCATGTCTTATGAGgtatgctagt ... tgcactgtagGAATTGCTAGCATTGGGAGATAGAATTGGCACCGTAAGCACTGGCCTTTCA
EST: gi|29666124|gb|CB662399.1|CB662399
EST:     ATGATCGGTACAGAGGGATGAGAATGGACATTGACGGCATGTCTTATGAG                         GAATTGCTAGCATTGGGAGATAGAATTGGCACCGTAAGCACTGGCCTTTCA
genomic: ATGATCGGTACAGAGGGATGAGAATGGACATTGACGGCATGTCTTATGAGgtatgctagt ... tgcactgtagGAATTGCTAGCATTGGGAGATAGAATTGGCACCGTAAGCACTGGCCTTTCA
EST: gi|11173166|gb|AU164645.1|AU164645
EST:     ATGATCGNTACAGAGGGATGAGAATGGNCATTGACGGCATGTCTTATGCG                         GAATTGCTAGCATNGGGAGATAGAATTGGCACCGTAAGCACTGGCCTTTCA
genomic: ATGATCGGTACAGAGGGATGAGAATGGACATTGACGGCATGTCTTATGAGgtatgctagt ... tgcactgtagGAATTGCTAGCATTGGGAGATAGAATTGGCACCGTAAGCACTGGCCTTTCA
EST: gi|29671277|gb|CB667552.1|CB667552
EST:     ATGATCGGTACAGAGGGATGAGAATGGACATTGACGGCATGTCTTATGAG                         GAATTGCTAGCATTGGGAGATAGAATTGGCACCGTAAGCACTGGCCTTTCA
genomic: ATGATCGGTACAGAGGGATGAGAATGGACATTGACGGCATGTCTTATGAGgtatgctagt ... tgcactgtagGAATTGCTAGCATTGGGAGATAGAATTGGCACCGTAAGCACTGGCCTTTCA
EST: gi|29666123|gb|CB662398.1|CB662398
EST:     ATGATCGGTACAGAGGGATGAGAATGGACATTGACGGCATGTCTTATGAG                         GAATTGCTAGCATTGGGAGATAGAATTGGCACCGTAAGCACTGGCCTTTCA
genomic: ATGATCGGTACAGAGGGATGAGAATGGACATTGACGGCATGTCTTATGAGgtatgctagt ... tgcactgtagGAATTGCTAGCATTGGGAGATAGAATTGGCACCGTAAGCACTGGCCTTTCA
EST: gi|29676637|gb|CB672912.1|CB672912
EST:     ATGATCGGTACAGAGGGATGAGAATGGACATTGACGGCATGTCTTATGAG                         GAATTGCTAGCATTGGGAGATAGAATTGGCACCGTAAGCACTGGCCTTTCA
genomic: ATGATCGGTACAGAGGGATGAGAATGGACATTGACGGCATGTCTTATGAGgtatgctagt ... tgcactgtagGAATTGCTAGCATTGGGAGATAGAATTGGCACCGTAAGCACTGGCCTTTCA
EST: gi|29626982|gb|CB631993.1|CB631993
EST:     ATGATCGGTACAGAGGGATGAGAATGGACATTGACGGCATGTCTTATGAG                         GAATTGCTAGCATTGNGAGATAGAATTGGC
genomic: ATGATCGGTACAGAGGGATGAGAATGGACATTGACGGCATGTCTTATGAGgtatgctagt ... tgcactgtagGAATTGCTAGCATTGGGAGATAGAATTGGC
EST: gi|86841641|gb|CI337348.1|CI337348
EST:     ATGATCGGTACAGAGGGATGAGAATGGACATTGACGGCATGTCTTATGAG                         GAATTGCTAGCATTGGGAGATAGAATTGGCACCGTAAGCACTGGCCTTTCA
genomic: ATGATCGGTACAGAGGGATGAGAATGGACATTGACGGCATGTCTTATGAGgtatgctagt ... tgcactgtagGAATTGCTAGCATTGGGAGATAGAATTGGCACCGTAAGCACTGGCCTTTCA
EST: gi|9865894|gb|AU101644.1|AU101644
EST:     ATGATCGGTACAGAGGGATGAGAATGGACATTGACGGCATGTCTTATGAG                         GAATTGCTAGCATTGGGAGATAGAATTGGCACCGTAAGCACTGGCCTTTCA
genomic: ATGATCGGTACAGAGGGATGAGAATGGACATTGACGGCATGTCTTATGAGgtatgctagt ... tgcactgtagGAATTGCTAGCATTGGGAGATAGAATTGGCACCGTAAGCACTGGCCTTTCA