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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatctatattttcaacaatgtgaagatgccaaactgtcccattgtttttcaccacatctatcccgtgttcttgttttgaagatgttagacttcacttactgttatgaaattatcaatgggttggcaaagctgttgattctttgattatgctgtcaggactagtaatccttctgcttttttttaatgacagTTTGTCGTTGGGCTGGGCGACAAAGTTTCACCCACCGACATTGAGGAAGGGATGCGTGTTGG

Basic information

species Glycine max
transcript GLYMA03G42370.4
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G42370.2 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os02g54340.2 (Oryza sativa), 3'ss of exon 4
gtaatctatattttcaacaatgtgaagatgccaaactgtcccattgtttttcaccacatctatcccgtgttcttgttttgaagatgttagacttcacttactgttatgaaattatcaatgggttggcaaagctgttgattctttgattatgctgtcaggactagtaatccttctgcttttttttaatgacagTTTGTCGTTGGGCTGGGCGACAAAGTTTCACCCACCGACATTGAGGAAGGGATGCGTGTTGG
                                                                          || ||  |  || |   |     ||| ||  |  | ||  |  |||       |||  ||||||| | ||  | || ||||               || ||  |  ||       |||||||| ||||| || || || |||||||| || || |||||||||||||||||| | || ||
--------------------------------------------------------------------------gtattcca--tgcttatccaattttattgaaaccatatctttcatgaa--aaaaaatgtgttgatccctttctcatactgta--------------ttttgtatcatt-------cagTTTGTGGTTGGCCTAGGGGATAAAGTTTCTCCAACTGACATTGAGGAAGGGATGAGAGTGGG

upper sequence: GLYMA03G42370.2 (Glycine max), 3'ss of exon 4
lower sequence: Vv09s0002g00170.t01 (Vitis vinifera), 3'ss of exon 4
gtaatctatattttcaacaatgtgaagatgccaaactgtcccattgtttttcaccacatctatcccgtgttcttgttttgaagatgttagacttcacttactgttatgaaattatcaatgggttggcaaagctgttgattctttgattatgctgtcaggactagtaatccttctgctttttttta--atgacagTTTGTCGTTGGGCTGGGCGACAAAGTTTCACCCACCGACATTGAGGAAGGGATGCGTGTTGG
                                                                                   || | |      |||  | |   | ||||| ||| | | | |    ||   | |||      |  |  |||  ||        ||| ||||  || | || |  ||  |||||||| ||||||||||| ||||||||||| || || || || || ||||| |||||||||||
---------------------------------------------------------------------------------gcatatgatttgaaactagcagaagtcaaattttcatttgttggatttagtcatagat------acaaaactgcaagc-------atcattctaattatgttgacgattgcagTTTGTTGTTGGGCTGGGTGACAAAGTTTCTCCAACTGATATAGAAGAAGGCATGCGTGTTGG
















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|192301329|gb|FG990219.1|FG990219
EST:     CGAACTCAGAAGATGCCAAATATGTAATCAACGTGAAGCAGATTGCAAAG                         TTTGTCGTTGGGCTGGGCGACAAAGTTTCACCCACCGACATTGAGGAAGGG
genomic: CGAACTCAGAAGATGCCAAATATGTAATCAACGTGAAGCAGATTGCAAAGgtaatctata ... ttaatgacagTTTGTCGTTGGGCTGGGCGACAAAGTTTCACCCACCGACATTGAGGAAGGG
EST: gi|213602675|gb|DB956611.1|DB956611
EST:     CGAACTCAGAAGATGCCAAATATGTAATCAACGTGAAGCAGATTGCAAAG                         TTTGTCGTTGGGCTGGGCGACAAAGTTTCACCCACCGACATTGAGGAAGGG
genomic: CGAACTCAGAAGATGCCAAATATGTAATCAACGTGAAGCAGATTGCAAAGgtaatctata ... ttaatgacagTTTGTCGTTGGGCTGGGCGACAAAGTTTCACCCACCGACATTGAGGAAGGG
EST: gi|213589227|gb|DB957759.1|DB957759
EST:     CGAACTCAGAAGATGCCAAATATGTAATCAACGTGAAGCAGATTGCAAAG                         TTTGTCGTTGGGCTGGGCGACAAAGTTTCACCCACCGACATTGAGGAAGGG
genomic: CGAACTCAGAAGATGCCAAATATGTAATCAACGTGAAGCAGATTGCAAAGgtaatctata ... ttaatgacagTTTGTCGTTGGGCTGGGCGACAAAGTTTCACCCACCGACATTGAGGAAGGG
EST: gi|151405667|gb|EV275481.1|EV275481
EST:     CGAACTCAGAAGATGCCAAATATGTAATCAACGTGAAGCAGATTGCAAAG                         TTTGTCGTTGGGCTGGGCGACAAAGTTTCACCCACCGACATTGAGGAAGGG
genomic: CGAACTCAGAAGATGCCAAATATGTAATCAACGTGAAGCAGATTGCAAAGgtaatctata ... ttaatgacagTTTGTCGTTGGGCTGGGCGACAAAGTTTCACCCACCGACATTGAGGAAGGG
EST: gi|209702899|gb|BW667434.1|BW667434
EST:     CGAACTCAGAAGATGCCAAATATGTAATCAACGTGAAGCAGATTGCAAAG                         TTTGTCGTTGGGCTGGGCGACAAAGTTTCACCCACCGACATTGAGGAAGGG
genomic: CGAACTCAGAAGATGCCAAATATGTAATCAACGTGAAGCAGATTGCAAAGgtaatctata ... ttaatgacagTTTGTCGTTGGGCTGGGCGACAAAGTTTCACCCACCGACATTGAGGAAGGG
EST: gi|193314171|gb|FK280098.1|FK280098
EST:     GAAGATGCCAAATATGTAATCAACGTGAAGCAGATTGCAAAG                         TTTGTCGTTGGGCTGGGCGACAAAGTTTCACCCACCGACATTGAGGAAGGG
genomic: GAAGATGCCAAATATGTAATCAACGTGAAGCAGATTGCAAAGgtaatctata ... ttaatgacagTTTGTCGTTGGGCTGGGCGACAAAGTTTCACCCACCGACATTGAGGAAGGG
EST: gi|208155594|gb|GD951999.1|GD951999
EST:     CGAACTCAGAAGATGCCAAATATGTAATCAACGTGAAGCAGATTGCAAAG                         TTTGTCGTTGGGCTG
genomic: CGAACTCAGAAGATGCCAAATATGTAATCAACGTGAAGCAGATTGCAAAGgtaatctata ... ttaatgacagTTTGTCGTTGGGCTG
EST: gi|208228908|gb|GE024272.1|GE024272
EST:     CGAACTCAGAAGATGCCAAATATGTAATCAACGTGAAGCAGATTGCAAAG                         TTTGTCGTTGGGCTG
genomic: CGAACTCAGAAGATGCCAAATATGTAATCAACGTGAAGCAGATTGCAAAGgtaatctata ... ttaatgacagTTTGTCGTTGGGCTG
EST: gi|208215664|gb|GE008516.1|GE008516
EST:     CGAACTCAGAAGATGCCAAATATGTAATCAACGTGAAGCAGATTGCAAAG                         TTTGTCGTTGGGCTGGGCGACAAAGTTTCACCCACCGACATTGAGGAAGGG
genomic: CGAACTCAGAAGATGCCAAATATGTAATCAACGTGAAGCAGATTGCAAAGgtaatctata ... ttaatgacagTTTGTCGTTGGGCTGGGCGACAAAGTTTCACCCACCGACATTGAGGAAGGG
EST: gi|213600299|gb|DB970277.1|DB970277
EST:     CGAACTCAGAAGATGCCAAATATGTAATCAACGTGAAGCAGATTGCAAAG                         TTTGTCGTTGGGCTGGGCGACAAAGTTTCACCCACCGACATTGAGGAAGGG
genomic: CGAACTCAGAAGATGCCAAATATGTAATCAACGTGAAGCAGATTGCAAAGgtaatctata ... ttaatgacagTTTGTCGTTGGGCTGGGCGACAAAGTTTCACCCACCGACATTGAGGAAGGG
EST: gi|213611619|gb|DB969007.1|DB969007
EST:     CGAACTCAGAAGATGCCAAATATGTAATCAACGTGAAGCAGATTGCAAAG                         TTTGTCGTTGGGCTGGGCGACAAAGTTTCACCCACCGACATTGAGGAAGGG
genomic: CGAACTCAGAAGATGCCAAATATGTAATCAACGTGAAGCAGATTGCAAAGgtaatctata ... ttaatgacagTTTGTCGTTGGGCTGGGCGACAAAGTTTCACCCACCGACATTGAGGAAGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attctttgattatgctgtcaggactagtaatccttctgcttttttttaatgacagTTTGTCGTTGGGCTGGGCGACAAAGTTTCACCCACCGACATTGAGGAAGGGATGCGTGTTGG
                                           ttttaat  putative branch site (score: 3)
                              tccttctgcttttttt  CT-rich tract
                                       ttttttttaatgaca  TA-rich tract