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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGGTGGAGGCTGATGTCAAAGCCAGGACAAAGGGTGAGATGGGAGCAGCTAAGACTCTTTGCAGCCCCTTTGATCAGCCAGAACTCCCAGAAGgtataatccttttgcatatttaggtgatattattttattatgcaacagagctttaaaatctatatgcagcctttgcttcttgctatctactaatgttttccccctttaacgaataacataattaatattggtgttgcttattggttgtggttggtttacag

Basic information

species Glycine max
transcript GLYMA03G38340.1
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G38340.1 (Glycine max), 5'ss of exon 12
lower sequence: Vv07s0005g02620.t01 (Vitis vinifera), 5'ss of exon 12
GAGGTGGAGGCTGATGTCAAAGCCAGGACAAAGGGTGAGATGGGAGCAGCTAAGACTCTTTGCAGCCCCTTTGATCAGCCAGAACTCCCAGAAGgtataatccttttgcatatttaggtgatattattttattatgcaacagagctttaaaatctatatgcagcctttgcttcttgctatctactaatgttttccccctttaacgaataacataattaatattggtgttgcttattggttgtggttggtttacag
|| |||||    ||||| ||||| ||||||||||| ||||  ||||||||||| ||||||||    || |||||||||||||| ||    ||||||   | | |||| | |||   | | ||      | ||  | ||  |  | || | | | |   |     |||  ||||    |       || ||||      |  ||| || |||                                            
GAAGTGGAAAAAGATGTGAAAGCAAGGACAAAGGGCGAGACAGGAGCAGCTAAAACTCTTTGTGCTCCTTTTGATCAGCCAGACCTT---GAAGgt---accattttacttat---gatcat----catcatcgt-cattattggttaagatttttcttattatcttcacttc--agtggaagtcaacgtttaa----tcaaacaaaaaac--------------------------------------------
















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|151404914|gb|EV274728.1|EV274728
EST:     AGCAGCTAAGACTCTTTGCAGCCCCTTTGATCAGCCAGA-CTCCCAGAAG                         GCACCAAGTGCTTTGCATCAG-AAAGCCCGCAACAAAGTGGACATACTGGG
genomic: AGCAGCTAAGACTCTTTGCAGCCCCTTTGATCAGCCAGAACTCCCAGAAGgtataatcct ... tggtttacagGCACCAAGTGCTTTGCATCAGGAAAGCCCGCAACAAAGTGGACATACTGGG
EST: gi|208035639|gb|GD837320.1|GD837320
EST:     AGCAGCTAAGACTCTTTGCAGCCCCTTTGATCAGCTAGAACTCCCAGAAG                         GCACCAAGTGCTTTGCATCAGGAAAGCCCGCAACAAAGTGGACATACTGGG
genomic: AGCAGCTAAGACTCTTTGCAGCCCCTTTGATCAGCCAGAACTCCCAGAAGgtataatcct ... tggtttacagGCACCAAGTGCTTTGCATCAGGAAAGCCCGCAACAAAGTGGACATACTGGG
EST: gi|208263678|gb|GE063854.1|GE063854
EST:     AGCAGCTAAGACTCTTTGCAGCCCCTTTGATCAGCCAGAACTCCCAGAAG                         GCACCAAGTGCTTTGCATCAGGAAAGCCCGNAACAA-GTGGACATACTGGG
genomic: AGCAGCTAAGACTCTTTGCAGCCCCTTTGATCAGCCAGAACTCCCAGAAGgtataatcct ... tggtttacagGCACCAAGTGCTTTGCATCAGGAAAGCCCGCAACAAAGTGGACATACTGGG
EST: gi|213587445|gb|DB979065.1|DB979065
EST:     AGCAGCTAAGACTCTTTGCAGCCCCTTTGATCAGCCAGAACTCCCAGAAG                         GCACCAAGTGCTTTGCATCAGGAAAGCCCGCAACAAAGTGGACATACTGGG
genomic: AGCAGCTAAGACTCTTTGCAGCCCCTTTGATCAGCCAGAACTCCCAGAAGgtataatcct ... tggtttacagGCACCAAGTGCTTTGCATCAGGAAAGCCCGCAACAAAGTGGACATACTGGG
EST: gi|209724629|gb|BW677722.1|BW677722
EST:     AGCAGCTAAGACTCTTTGCAGCCCCTTTGATCAGCCAGAACTCCCAGAAG                         GCACCAAGTGCTTTGCATCAGGAAAGCCCGCAACAAAGTGGACATACTGGG
genomic: AGCAGCTAAGACTCTTTGCAGCCCCTTTGATCAGCCAGAACTCCCAGAAGgtataatcct ... tggtttacagGCACCAAGTGCTTTGCATCAGGAAAGCCCGCAACAAAGTGGACATACTGGG
EST: gi|193651028|gb|FK597593.1|FK597593
EST:     AGCAGCTAAGACTCTTTGCAGCCCCTTTGATCAGCCAGAACTCCCAGAAG                         GCACCAAGTGCTTTGCATCA-GAAAGCCCGCAACAAAGTGGACATACTGGG
genomic: AGCAGCTAAGACTCTTTGCAGCCCCTTTGATCAGCCAGAACTCCCAGAAGgtataatcct ... tggtttacagGCACCAAGTGCTTTGCATCAGGAAAGCCCGCAACAAAGTGGACATACTGGG
EST: gi|214006980|gb|DB988431.1|DB988431
EST:     AGCAGCTAAGACTCTTTGCAGCCCCTTTGATCAGCCAGAACTCCCAGAAG                         GCACCAAGTGCTTTGCATCAGGAAAGCCCGCAACAAAGTGGACATACTGGG
genomic: AGCAGCTAAGACTCTTTGCAGCCCCTTTGATCAGCCAGAACTCCCAGAAGgtataatcct ... tggtttacagGCACCAAGTGCTTTGCATCAGGAAAGCCCGCAACAAAGTGGACATACTGGG
EST: gi|15814951|gb|BI787226.1|BI787226
EST:     AGCAGTTAAGACTCTTTGCAGCCCCTTTGATCAGCCAGAACTCCCAGAAG                         GCACCAAGTGCTTTGCATCAGGAAAGCCCGCAACAAAGTGGACATACTGGG
genomic: AGCAGCTAAGACTCTTTGCAGCCCCTTTGATCAGCCAGAACTCCCAGAAGgtataatcct ... tggtttacagGCACCAAGTGCTTTGCATCAGGAAAGCCCGCAACAAAGTGGACATACTGGG
EST: gi|193469538|gb|FK435926.1|FK435926
EST:     AGCAGCTAAGACT-TTTGCAGCCCCTTTGATCAGCCAGAACTCCCAGAAG                         GCACCAAGTGCTTTGCATCAGGAAAGCCCGCAACAAAGTGGACATACTGGG
genomic: AGCAGCTAAGACTCTTTGCAGCCCCTTTGATCAGCCAGAACTCCCAGAAGgtataatcct ... tggtttacagGCACCAAGTGCTTTGCATCAGGAAAGCCCGCAACAAAGTGGACATACTGGG
EST: gi|193378193|gb|FK344646.1|FK344646
EST:     AGCAGCTAAGACTCTTTGCAGCCCCTTTGATCAGCCAGAACTCCCAGAAG                         GCACCAAGTGCTTTGCATCAGGAA-GCCCGCAACAAAGTGGACATACTGGG
genomic: AGCAGCTAAGACTCTTTGCAGCCCCTTTGATCAGCCAGAACTCCCAGAAGgtataatcct ... tggtttacagGCACCAAGTGCTTTGCATCAGGAAAGCCCGCAACAAAGTGGACATACTGGG
EST: gi|192304984|gb|FG996116.1|FG996116
EST:     AGCAGCTAAGACTCTTTGCAGCCCCTTTGATCAGCCAGAACTCCCAGAAG                         GCACCAAGTGCTTTACATCAGGAAAGCCCGCAACAAAGTGGACATACTGGG
genomic: AGCAGCTAAGACTCTTTGCAGCCCCTTTGATCAGCCAGAACTCCCAGAAGgtataatcct ... tggtttacagGCACCAAGTGCTTTGCATCAGGAAAGCCCGCAACAAAGTGGACATACTGGG

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAGGTGGAGGCTGATGTCAAAGCCAGGACAAAGGGTGAGATGGGAGCAGCTAAGACTCTTTGCAGCCCCTTTGATCAGCCAGAACTCCCAGAAGgtataatccttttgcatatttaggtgatattattttattatgcaacagagctttaaaatctatatgcagcctttgcttcttgctatctactaatgttttccccctttaacgaataacataattaatattggtgttgcttattggttgtggttggtttacag

- - - - - - - - - - - - - - - - - - - - - -  GCAGCT