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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTGGTATTGATGAAGGTGAGGATCCAAGAAATGCAGCTATCAGGGAGTTACGAGAAGAGACAGGAGTTAATTCAGTAGAAGTGATCGCTGAGgtgcaaattatacatttctttacttgctaacaccctacaaattacatgcttggttgtggttaatttgtaagtgccaaatcagttttcaccattctattaa...

Basic information

species Glycine max
transcript GLYMA10G33990.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G33990.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv08s0056g00030.t01 (Vitis vinifera), 5'ss of exon 3
GGTGGTATTGATGAAGGTGAGGATCCAAGAAATGCAGCTATCAGGGAGTTACGAGAAGAGACAGGAGTTAATTCAGTAGAAGTGATCGCTGAGgtgcaaattatacatttctttacttgctaacaccctacaaattacatgcttggttgtggttaatttgtaagtgccaaatcagttttcaccattctattaa---------
|||||||||||||| ||||| ||||| |||||||| || || ||||| |||   |||||||||||||||  ||||| ||| ||  | || |||||    ||  | || ||  |   |   |  |||  ||   | |    |     || |  ||  | | |   ||  ||||   | ||   || |||||| |         
GGTGGTATTGATGAGGGTGAAGATCCGAGAAATGCTGCCATGAGGGAATTAAAGGAAGAGACAGGAGTTGCTTCAGCAGAGGTTCTTGCAGAGgtttggat-gtgcaatttctagtt---ttgcactataatgaatttgggtagatttttttttggtcttt---tgttaaatt--tctttgtcactctatttaatcttagag
















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|151401156|gb|EV270970.1|EV270970
EST:     GGGAGTTACGAGAAGAGACAGGAGTTAATTCAGTAGAAGTGATCGCTGAG                         GTACCATATTGGTTAACTTATGACTTCCCACCAAAAGTGAGGGAGAAATTA
genomic: GGGAGTTACGAGAAGAGACAGGAGTTAATTCAGTAGAAGTGATCGCTGAGgtgcaaatta ... tctgttgtagGTACCATATTGGTTAACTTATGACTTCCCACCAAAAGTGAGGGAGAAATTA
EST: gi|31466943|gb|CD408971.1|CD408971
EST:     GGGAGTTACGAGAAGAGACAGGAGTTAATTCAGTAGAAGTGATCGCTGAG                         GTACCATATTGGTTAACTTATGACTTCCCACCAAAAGTGAGGGAGAAATTA
genomic: GGGAGTTACGAGAAGAGACAGGAGTTAATTCAGTAGAAGTGATCGCTGAGgtgcaaatta ... tctgttgtagGTACCATATTGGTTAACTTATGACTTCCCACCAAAAGTGAGGGAGAAATTA
EST: gi|5770603|gb|AI973777.1|AI973777
EST:     GGGAGTTACGAGAAGAGACAGGAGTTAATTCAGTAGAAGTGATCGCTGAG                         GTACCATATTGGTTAACTTATGACTTCCCACCAAAAGTGAGGGAGAAATTA
genomic: GGGAGTTACGAGAAGAGACAGGAGTTAATTCAGTAGAAGTGATCGCTGAGgtgcaaatta ... tctgttgtagGTACCATATTGGTTAACTTATGACTTCCCACCAAAAGTGAGGGAGAAATTA
EST: gi|192294285|gb|FG986374.1|FG986374
EST:     GGGAGTTACGAGAAGAGACAGGAGTTAATTCAGTAGAAGTGATCGCTGAG                         GTACCATATTGGTTAACTTATGACTTCCCACCAAAAGTGAGGGAGAAATTA
genomic: GGGAGTTACGAGAAGAGACAGGAGTTAATTCAGTAGAAGTGATCGCTGAGgtgcaaatta ... tctgttgtagGTACCATATTGGTTAACTTATGACTTCCCACCAAAAGTGAGGGAGAAATTA
EST: gi|193548842|gb|FK508341.1|FK508341
EST:     AGTTACGAGAAGAGACAGGAGTTAATTCAGTAGAAGTGATCGCTGAG                         GTACCATATTGGTTAACTTATGACTTCCCACCAAAAGTGAGGGAGAAATTA
genomic: AGTTACGAGAAGAGACAGGAGTTAATTCAGTAGAAGTGATCGCTGAGgtgcaaatta ... tctgttgtagGTACCATATTGGTTAACTTATGACTTCCCACCAAAAGTGAGGGAGAAATTA
EST: gi|8282558|gb|BE020119.1|BE020119
EST:     GGGAGTTACGAGAAGAGACAGGAGTTAATTCAGTAGAAGTGATCGCTGAG                         GTACCATATTGGTTAACTTATGACTTCCCACCAAAAGTGAGGGAGAAATTA
genomic: GGGAGTTACGAGAAGAGACAGGAGTTAATTCAGTAGAAGTGATCGCTGAGgtgcaaatta ... tctgttgtagGTACCATATTGGTTAACTTATGACTTCCCACCAAAAGTGAGGGAGAAATTA
EST: gi|7926045|gb|AW832071.1|AW832071
EST:     GGGAGTTACGAGAAGAGACAGGAGTTAATTCAGTAGAAGTGATCGCTGAG                         GTACCATATTGGTTAACTTATGACTTCCCACCAGAAGTGAGGGAGAAATTA
genomic: GGGAGTTACGAGAAGAGACAGGAGTTAATTCAGTAGAAGTGATCGCTGAGgtgcaaatta ... tctgttgtagGTACCATATTGGTTAACTTATGACTTCCCACCAAAAGTGAGGGAGAAATTA
EST: gi|31466222|gb|CD408250.1|CD408250
EST:     GGGAGTTACGAGAAGAGACAGGAGTTAATTCAGTAGAAGTGATCGCTGAG                         GTACCATATTGGTTAACTTATGACTTCCCACCTAAAGTGAGGGAGAAATTA
genomic: GGGAGTTACGAGAAGAGACAGGAGTTAATTCAGTAGAAGTGATCGCTGAGgtgcaaatta ... tctgttgtagGTACCATATTGGTTAACTTATGACTTCCCACCAAAAGTGAGGGAGAAATTA
EST: gi|193563822|gb|FK517945.1|FK517945
EST:     AGTTACGAGAAGAGACAGGAGTTAATTCAGTAGAAGTGATCGCTGAG                         GTACCATATTGGTTAACTTATGACTTCCCACCAAAAGTGAGGGAGAAATTA
genomic: AGTTACGAGAAGAGACAGGAGTTAATTCAGTAGAAGTGATCGCTGAGgtgcaaatta ... tctgttgtagGTACCATATTGGTTAACTTATGACTTCCCACCAAAAGTGAGGGAGAAATTA
EST: gi|24135720|gb|BU926230.1|BU926230
EST:     GGGAGTTACGAGAAGAGACAGGAGTTAATTCAGTAGAAGTGATCGCTGAG                         GTACCATATTGGTTAACTTATGACTTCCCACCAAAAGTGAGGGAGAAATTA
genomic: GGGAGTTACGAGAAGAGACAGGAGTTAATTCAGTAGAAGTGATCGCTGAGgtgcaaatta ... tctgttgtagGTACCATATTGGTTAACTTATGACTTCCCACCAAAAGTGAGGGAGAAATTA
EST: gi|151411273|gb|EV281084.1|EV281084
EST:     GGGAGTTACGAGAAGAGACAGGAGTTAATTCAGTAGAAGTGATCGCTGAG                         GTACCATATTGGTTAACTTATGACTTCCCACCAAAAGTGAGGGAGAAATTA
genomic: GGGAGTTACGAGAAGAGACAGGAGTTAATTCAGTAGAAGTGATCGCTGAGgtgcaaatta ... tctgttgtagGTACCATATTGGTTAACTTATGACTTCCCACCAAAAGTGAGGGAGAAATTA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGTGGTATTGATGAAGGTGAGGATCCAAGAAATGCAGCTATCAGGGAGTTACGAGAAGAGACAGGAGTTAATTCAGTAGAAGTGATCGCTGAGgtgcaaattatacatttctttacttgctaacaccctacaaattacatgcttggttgtggttaatttgtaagtgccaaatcagttttcaccattctattaa

- - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT