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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgtttcactctctcatttctcattttttttggttaaattctaaaagggtttttgtttttggatacattgggtttattactttgatgggttatcgttaaagctttctgttttactttgatgggttatttgcgtttttatttttcttatgttgatgagtaaggttttgtttttaattaaacagAGGCCTTGCAGTTAGTTATTTCGGAATGTAAACCAAAGACAAAGATTGTTGACCTTTGCGAGAAAGGGGATTCGTATATTAGAGA

Basic information

species Glycine max
transcript GLYMA01G29420.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G29420.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv08s0217g00020.t01 (Vitis vinifera), 3'ss of exon 1
gtgtgtttcactctctcatttctcattttttttggttaaattctaaaagggtttttgtttttggatacattgggtttattactttgatgggttatcgttaaagctttctgttttactttgatgggttatttgcgtttttatttttcttatgttgatgagtaaggttttgtttttaattaaacagAGGCCTTGCAGTTAGTTATTTCGGAATGTAAACCAAAGACAAAGATTGTTGACCTTTGCGAGAAAGGGGATTCGTATATTAGAGA
                                                                          | |   |     |  |  | | |||     || |||||       |  ||||||| |   |  ||||    | |   ||||| ||| ||  |   |    | ||   ||||||| |||||||||||  | |||||||| || |||||| |||||||||||||| | ||||||||||| ||||| |  ||||||||
--------------------------------------------------------------------------tctcgcaaccaaacagagttttgtt-----ttcctgttagggacgg--gggttatgtatttggttatgacccgt---ttgataagtgagaataaatgaaaatttttgcagAGGCTTTGCAGTTAGTCTTGTCGGAATGCAAGCCAAAGGCAAAGATTGTTGACATCTGCGAGAAAGGCGATTCATTCATTAGAGA
















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|209710685|gb|BW676559.1|BW676559
EST:     TTCTCCGGAAGTTGTCACTAAGTACAAGAGCGCCGCTGAGATTGTTAACA                         AGGCCTTGCAGTTAGTTATTTCGGAATGTAAACCAAAGACAAAGATTGTTG
genomic: TTCTCCGGAAGTTGTCACTAAGTACAAGAGCGCCGCTGAGATTGTTAACAgtgtgtttca ... aattaaacagAGGCCTTGCAGTTAGTTATTTCGGAATGTAAACCAAAGACAAAGATTGTTG
EST: gi|192326702|gb|FK017329.1|FK017329
EST:     TTCTCCGGAAGTTGTCACTAAGTACAAGAGCGCCGCTGAGATTGTTAACA                         AGGCCTTGCAGTTAGTTATTTCGGAATGTAAACCAAAGACAAAGATTGTTG
genomic: TTCTCCGGAAGTTGTCACTAAGTACAAGAGCGCCGCTGAGATTGTTAACAgtgtgtttca ... aattaaacagAGGCCTTGCAGTTAGTTATTTCGGAATGTAAACCAAAGACAAAGATTGTTG
EST: gi|298195396|gb|HO039227.1|HO039227
EST:     TTCTCCGGAAGTTGTCACTAAGTACAAGAGCGCCGCTGGGATTGTTAACA                         AGGCCTTGCAGTTAGTTATTTCGGAATGTAAACCAAAGACAAAGATTGTTG
genomic: TTCTCCGGAAGTTGTCACTAAGTACAAGAGCGCCGCTGAGATTGTTAACAgtgtgtttca ... aattaaacagAGGCCTTGCAGTTAGTTATTTCGGAATGTAAACCAAAGACAAAGATTGTTG
EST: gi|13478014|gb|BG507662.1|BG507662
EST:     TTCTCCGGAAGTTGTCACTAAGTACAAGAGCGCCGCTGAGATTGTTAACA                         AGGCCTTGCAGTTAGTTATTTCGGAATGTAAACCAAAGACAAAGATTGTTG
genomic: TTCTCCGGAAGTTGTCACTAAGTACAAGAGCGCCGCTGAGATTGTTAACAgtgtgtttca ... aattaaacagAGGCCTTGCAGTTAGTTATTTCGGAATGTAAACCAAAGACAAAGATTGTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgcgtttttatttttcttatgttgatgagtaaggttttgtttttaattaaacagAGGCCTTGCAGTTAGTTATTTCGGAATGTAAACCAAAGACAAAGATTGTTGACCTTTGCGAGAAAGGGGATTCGTATATTAGAGA
                                         ttttaat  putative branch site (score: 3)
     tttttatttttcttat  TA-rich tract