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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagttggatgattgtaaaagatttcttttttatgtttttatcttgtatacatatataacctttttcctctccagGAGGTTAAGGAGTGTGCTATCTCCTGCATGGGCCTCATTGTGTCAACATTTGGCGATCATCTTAATGCAGAATTACCTGCATGCCTTCCTGTGCTTGTTG

Basic information

species Glycine max
transcript GLYMA07G40230.2
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G40230.2 (Glycine max), 3'ss of exon 17
lower sequence: AT2G02560.1 (Arabidopsis thaliana), 3'ss of exon 16
---------------------------------------------------------------------------------------------------------gttagttggatgattgtaaaag---atttct-------tttttatgtttttatcttgtatacatat----ataacctttttcctctccagGAGGTTAAGGAGTGTGCTATCTCCTGCATGGGCCTCATTGTGTCAACATTTGGCGATCATCTTAATGCAGAATTACCTGCATGCCTTCCTGTGCTTGTTG
                                                                                                          ||| ||  |  |||| |||||   ||||||       | ||| |  |||| | || | ||||| |    ||| |  ||  | ||  |||||||| ||||||||||||||| |||||||||| ||  |  | ||||||||||| ||||| || |  ||||| |||||| |||||||||||||||||||||
gtctgtagcataaatccccctttttagtcttgtttatgaaaatccatacttcttcgggcaatagacttaataatcttatttgaactctttctattcgtcattatgtttaattacagaattggaaaagcagatttctgcgtttgtatttgtaattttgtgttatttacatttcgtaatatctcttcccttcaacagGAGGTCAAGGAGTGTGCTATCACCTGCATGGGTCTTGTGATTTCAACATTTGGTGATCAACTGAGGGCAGAGTTACCTTCATGCCTTCCTGTGCTTGTTG

upper sequence: GLYMA07G40230.2 (Glycine max), 3'ss of exon 17
lower sequence: Vv12s0035g01840.t01 (Vitis vinifera), 3'ss of exon 17
gttagttggatgattgtaaaagatttcttttttatgtttttatcttgtatacatatataacctttttcctctccagGAGGTTAAGGAGTGTGCTATCTCCTGCATGGGCCTCATTGTGTCAACATTTGGCGATCATCTTAATGCAGAATTACCTGCATGCCTTCCTGTGCTTGTTG
|||||  | ||   | | || |   | ||| ||| |  ||| |  | ||| | |||  |||  ||||    |||||||||| |||||||||||||| || |||||||||||  | || ||||||||||| ||| | || |  |||||||||||||||||||||||||| |||||||
gttagcagaatttatttgaagg---tttttcttaggcatttttactatat-cttatggaactctttt----tccagGAGGTCAAGGAGTGTGCTATTTCTTGCATGGGCCTTCTCGTTTCAACATTTGGTGATAACCTCAGAGCAGAATTACCTGCATGCCTTCCTGTACTTGTTG
















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|193536631|gb|FK490571.1|FK490571
EST:     CCATATATAACGGCATTATGTCACGCTTAATAAACCAAGATCAGGATCAG                         GAGGTTAAGGAGTGTGCTATCTCCTGCATGGGCCTCATTGTGTCAACATTT
genomic: CCATATATAACGGCATTATGTCACGCTTAATAAACCAAGATCAGGATCAGgttagttgga ... tcctctccagGAGGTTAAGGAGTGTGCTATCTCCTGCATGGGCCTCATTGTGTCAACATTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatttcttttttatgtttttatcttgtatacatatataacctttttcctctccagGAGGTTAAGGAGTGTGCTATCTCCTGCATGGGCCTCATTGTGTCAACATTTGGCGATCATCTTAATGCAGAATTACCTGCATGCCTTCCTGTGCTTGTTG
                                 atataac  putative branch site (score: 3)
                                    taacctttttcctctc  CT-rich tract
      ttttttatgtttttat  TA-rich tract