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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgtcttcaaaaatttactatgatgggtttttgctattccattttctgatgtcatcccagcaaatttgttcattttcctaatttatgatttcgttggactgttagGGAGGTGATGCTTCTGTCAATTCTGTTCACATTTTCCCCAAGAATACTGATCACATTGTTGTTTGTAACAAAACGTCATCCATATATATCATGACACTTC

Basic information

species Glycine max
transcript GLYMA08G13560.2
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G13560.2 (Glycine max), 3'ss of exon 12
lower sequence: GRMZM2G037683_T01 (Zea mays), 3'ss of exon 11
gtg-tgtcttcaaaaatttactatgatgggtttttgctattccattttctgatgtcatcccagcaaatttgttcattttcctaatttatgatttcgttggactgttagGGAGGTGATGCTTCTGTCAATTCTGTTCACATTTTCCCCAAGAATACTGATCACATTGTTGTTTGTAACAAAACGTCATCCATATATATCATGACACTTC
||  || ||||  | | |    | | | |  ||  | ||||  ||   ||           || ||||   |    ||| | |||  |||   || ||  | |   ||||||| ||||| ||||| |||||||| ||  | || || || |||||||||||||||||||| || || || || ||||| ||||  ||||||||  | |
gtactgacttctcacactctacaagtttgactt--gatattgtataacct---------ttagtaaatccatg---tttaccaatacatg---tccttttatttccagGGAGGAGATGCATCTGTTAATTCTGTCCATTTATTTCCAAAAAATACTGATCACATTGTTGTCTGCAATAAGACTTCATCAATATTCATCATGACTTTAC

upper sequence: GLYMA08G13560.2 (Glycine max), 3'ss of exon 12
lower sequence: AT1G73720.1 (Arabidopsis thaliana), 3'ss of exon 12
gtgtgtcttcaaaaatttactatgatgggtttttgctattccattttctgatgtcatcccagcaaatttgttcattttcctaatttatgatttcgttggactgttagGGAGGTGATGCTTCTGTCAATTCTGTTCACATTTTCCCCAAGAATACTGATCACATTGTTGTTTGTAACAAAACGTCATCCATATATATCATGACACTTC
  || ||||     ||  |   | |||    | |  || | | ||||||||| |  |    ||||| |  ||   || || | | |  || ||  ||| | | | |||||  |||||| || ||||| ||| ||||| | |||||||| || || || ||||||||||| || ||||| || ||||| ||||| || |||||||| |
--gtatcttttcttatacagatttatgtacatcttgtaatactttttctgatcttctgt-ggcaaactc-tttggttaccaagtct--gaatt--ttgaaatat-agGGAACTGATGCATCAGTCAACTCTATTCACTTGTTCCCCAAAAACACAGAACACATTGTTGTGTGCAACAAGACATCATCTATATACATTATGACACTCC
















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|192300449|gb|FG987906.1|FG987906
EST:     TGAAGACTACAGACTGCATACAAACTTTTAAGCCACCTCCTCCTTTAAGG                         GGAGGTGATGCTTCTGTCAATTCTGTTCACATTTTCCCCAAGAATACTGAT
genomic: TGAAGACTACAGACTGCATACAAACTTTTAAGCCACCTCCTCCTTTAAGGgtgtgtcttc ... ggactgttagGGAGGTGATGCTTCTGTCAATTCTGTTCACATTTTCCCCAAGAATACTGAT
EST: gi|208155709|gb|GD958470.1|GD958470
EST:     TGAAGACTACAGACTGCATACAAACTTTTAAGCCACCTCCTCCTTTAAGG                         GGAGGTGATGCTTCTGTCAATTCTGTTCACATTTTCCCCAAGAATACTGAT
genomic: TGAAGACTACAGACTGCATACAAACTTTTAAGCCACCTCCTCCTTTAAGGgtgtgtcttc ... ggactgttagGGAGGTGATGCTTCTGTCAATTCTGTTCACATTTTCCCCAAGAATACTGAT
EST: gi|209710369|gb|BW681268.1|BW681268
EST:     AGACTGCATACAAACTTTTAAGCCACCTCCTCCTTTAAGG                         GGAGGTGATGCTTCTGTCAATTCTGTTCACATTTTCCCCAAGAATACTGAT
genomic: AGACTGCATACAAACTTTTAAGCCACCTCCTCCTTTAAGGgtgtgtcttc ... ggactgttagGGAGGTGATGCTTCTGTCAATTCTGTTCACATTTTCCCCAAGAATACTGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtcatcccagcaaatttgttcattttcctaatttatgatttcgttggactgttagGGAGGTGATGCTTCTGTCAATTCTGTTCACATTTTCCCCAAGAATACTGATCACATTGTTGTTTGTAACAAAACGTCATCCATATATATCATGACACTTC
                         tcctaat  putative branch site (score: 2)
           aaatttgttcatttt  TA-rich tract