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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgattatatttggtatacaagtgggtgtttgtgaattatgtctgacgtctttcatttctcacaagtcacaatgtacatgtttccactatctttgtaatccatttatgcagGACTGGAGTCTTGAGCTAGAAGAAGTTTTTTCACTTGAAAGGGAAGGTGAATCTGATAAGTTTGCTCCTTACAGGGATAAACTTGGAAACAGAATGCTCC

Basic information

species Glycine max
transcript GLYMA03G31820.1
intron # 16
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G31820.1 (Glycine max), 3'ss of exon 16
lower sequence: AT2G31320.1 (Arabidopsis thaliana), 3'ss of exon 14
gtatgattatatttggtatacaagtgggtgtttgtgaattatgtctgacgtctttcatttctcacaagtcacaatgtacatgtttccactatctttgtaatccatttatgcagGACTGGAGTCTTGAGCTAGAAGAAGTTTTTTCACTTGAAAGGGAAGGTGAATCTGATAAGTTTGCTCCTTACAGGGATAAACTTGGAAACAGAATGCTCC
                           |||  |   |  | ||| |  |   |||||| | |      ||| ||| | |   ||  || | |||    | |  |||| | ||||| ||||||||||||||||| ||||||||| | |||||||| ||||| || | |||||| | ||||||  |||| || |||||||| || |  |||||||
---------------------------gtgagttcaagctctgtttatcccttttcatgttttgtttatcataattttctaatt--caatttctggtcactggatttgt-cagGAGTGGAGTCTTGAGCTAGAGGAAGTTTTTGCTCTTGAAAGAGAAGGAGAGTTTGATAAATATGCTCCCCACAGAGAAAAACTTGGCAATAAGATGCTCC

upper sequence: GLYMA03G31820.1 (Glycine max), 3'ss of exon 16
lower sequence: Vv07s0005g03040.t01 (Vitis vinifera), 3'ss of exon 15
--------gtatgattatatttggtatacaag------tgggtgtttgtga--attatgtctgacgtctttcatttct-----cacaagtcacaatgtacatgtttccactatctttgtaatccatttatgcagGACTGGAGTCTTGAGCTAGAAGAAGTTTTTTCACTTGAAAGGGAAGGTGAATCTGATAAGTTTGCTCCTTACAGGGATAAACTTGGAAACAGAATGCTCC
         | |  |||||  |   ||||         |  ||| |||  |  | |||   |  | | |||  ||| |      | || | | ||   |  | ||| |   |  ||||| ||   ||    ||||| |||| |||||| |||||||| |||||||| |||||||||||||| |||| ||||||||||||| ||||  | || || |||  |||||| |||||||
gtgggtctatttttttatacctaaaatactgaacatactctgtgcttgcaatgaatattgtttccattttttgtttttatttttaaaaataaaaacagatgtattttc-tgagttttgtgatatctt----cagGATTGGACTCTTGAACTAGAAGAGGTTTTTTCGCTTGAAAGGGAAGGAGAATTTGATAAGTTTGCTTCTTATCGAGAAAAGCTTCAAAACAGGATGCTCC
















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|208332545|gb|GE129468.1|GE129468
EST:     TTTGCTTAA-TGAAAAGTTTCTCCAGAATACTCATGCCCCCACACATACG                         GACTGGAGTCTTGAGCTAGAAGAAGTTTTTTCACTTGAAAGGGAAGGTGAA
genomic: TTTGCTTAATTGAAAAGTTTCTCCAGAATACTCATGCCCCCACACATACGgtatgattat ... atttatgcagGACTGGAGTCTTGAGCTAGAAGAAGTTTTTTCACTTGAAAGGGAAGGTGAA
EST: gi|24136298|gb|BU926808.1|BU926808
EST:     TTTGCTTAATTGAAAAGTTTCTCCAGAATACTCATGCCCCCACACATACG                         GACTGGAGTCTTGAGCTAGAAGAAGTTTTTTCACTTGAAAGGGAAGGTGAA
genomic: TTTGCTTAATTGAAAAGTTTCTCCAGAATACTCATGCCCCCACACATACGgtatgattat ... atttatgcagGACTGGAGTCTTGAGCTAGAAGAAGTTTTTTCACTTGAAAGGGAAGGTGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctcacaagtcacaatgtacatgtttccactatctttgtaatccatttatgcagGACTGGAGTCTTGAGCTAGAAGAAGTTTTTTCACTTGAAAGGGAAGGTGAATCTGATAAGTTTGCTCCTTACAGGGATAAACTTGGAAACAGAATGCTCC
 ttctcac  putative branch site (score: 2)
                                          tccattt  putative PPT
                                   tttgtaat  TA-rich tract