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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTCCTGTAACTGGTCTGAAGACACCATTCCGAGACGGTTTGCTGAAGCATGTTGCTGAAGATGTTCTAAAGTTGGCAAAGgtaaagggtgtcattaattttgttattgctgttattttcgatgttgctaagggcattgggatgcatccacag

Basic information

species Glycine max
transcript GLYMA05G37850.3
intron # 14
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G37850.1 (Glycine max), 5'ss of exon 14
lower sequence: Vv02s0025g03530.t01 (Vitis vinifera), 5'ss of exon 14
GTTCCTGTAACTGGTCTGAAGACACCATTCCGAGACGGTTTGCTGAAGCATGTTGCTGAAGATGTTCTAAAGTTGGCAAAGgtaaa--gggtgtcattaattttgttattgctgttattttcg--atgttgctaagggcattggg---atgcatccacag
|||||    |||||| | ||||||||||| ||||| || |||||||||||||||||||| |||||||||||||| || |||||||   | |     ||  | || |  ||||||    |       ||||  ||||     ||      | |||| ||||
GTTCCAAAGACTGGTTTAAAGACACCATTTCGAGATGGATTGCTGAAGCATGTTGCTGAGGATGTTCTAAAGTTAGCGAAGgtaagttgagcactgtttttcttatggttgctgcagctgcaattgtgttattaagcattatgcatttgttcatcaacag
















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|209718855|gb|BW669042.1|BW669042
EST:     GAGACGGTTTGCTGAAGCATGTTGCTGAAGATGTTCTAAAGTTGGCAAAG                         GATGGCTTGGAGAGAAGAGGCTTCAAGGAATCGGGATTTTTGAATGAGGTT
genomic: GAGACGGTTTGCTGAAGCATGTTGCTGAAGATGTTCTAAAGTTGGCAAAGgtaaagggtg ... gcatccacagGATGGCTTGGAGAGAAGAGGCTTCAAGGAATCGGGATTTTTGAATGAGGTT
EST: gi|18722327|gb|BM523396.1|BM523396
EST:     GAGACGGTTTGCTGAAGCATGTTGCTGAAGATGTTCTAAAGTTGGCAAAG                         GATGGCTTGGAGAGAAGAGGCTTCAAGGAATCGGGATTTTTGAATGAGGTT
genomic: GAGACGGTTTGCTGAAGCATGTTGCTGAAGATGTTCTAAAGTTGGCAAAGgtaaagggtg ... gcatccacagGATGGCTTGGAGAGAAGAGGCTTCAAGGAATCGGGATTTTTGAATGAGGTT
EST: gi|12691343|gb|BG157679.1|BG157679
EST:     GAGACGGTTTGCTGAAGCATGTTGCTGAAGATGTTCTAAAGTTGGCAAAG                         GATGGCTTGGAGAGAAGAGGCTTCAAGGAATCGGGATTTTTGAATGAGGTT
genomic: GAGACGGTTTGCTGAAGCATGTTGCTGAAGATGTTCTAAAGTTGGCAAAGgtaaagggtg ... gcatccacagGATGGCTTGGAGAGAAGAGGCTTCAAGGAATCGGGATTTTTGAATGAGGTT
EST: gi|22929331|gb|BU546470.1|BU546470
EST:     GAGACGGTTTGCTGAAGCATGTTGCTGAAGATGTTCTAAAGTTGGCAAAG                         GATGGCTCGGAGAGAAGAGGCTTCAAGGAATCGGGATTTTTGAATGAGGTT
genomic: GAGACGGTTTGCTGAAGCATGTTGCTGAAGATGTTCTAAAGTTGGCAAAGgtaaagggtg ... gcatccacagGATGGCTTGGAGAGAAGAGGCTTCAAGGAATCGGGATTTTTGAATGAGGTT
EST: gi|13480024|gb|BG509367.1|BG509367
EST:     GAGACGGTTTGCTGAAGCATGTTGCTGAAGATGTTCTAAAGTTGGCAAAG                         GATGGCTTGGAGAGAAGAAGCTTCAAG
genomic: GAGACGGTTTGCTGAAGCATGTTGCTGAAGATGTTCTAAAGTTGGCAAAGgtaaagggtg ... gcatccacagGATGGCTTGGAGAGAAGAGGCTTCAAG
EST: gi|254347453|gb|GR853702.1|GR853702
EST:     GAGACGGTTTGCTGAAGCATGTTGCTGAAGATGTTCTAAAGTTGGCAAAG                         GATGGCTTGGAGAGAAGAGGCTTCAAGGAATCGGGATTTTTGAATGAGGTT
genomic: GAGACGGTTTGCTGAAGCATGTTGCTGAAGATGTTCTAAAGTTGGCAAAGgtaaagggtg ... gcatccacagGATGGCTTGGAGAGAAGAGGCTTCAAGGAATCGGGATTTTTGAATGAGGTT
EST: gi|7692080|gb|AW760195.1|AW760195
EST:     GAGACGGTTTGCTGAAGCATGTTGCTGAAGATGTTCTAAAGTTGGCAAAG                         GATGGCTTGGAGAGAAGAGGCTTCAAGGAATCGGGATTTTTGAATGAGGTT
genomic: GAGACGGTTTGCTGAAGCATGTTGCTGAAGATGTTCTAAAGTTGGCAAAGgtaaagggtg ... gcatccacagGATGGCTTGGAGAGAAGAGGCTTCAAGGAATCGGGATTTTTGAATGAGGTT
EST: gi|9900602|gb|BE609570.1|BE609570
EST:     GAGACGGTTTGCTGAAGCATGTTGCTGAAGATGTTCTAAAGTTGGCAAAG                         GATGGCTTGGAGAGAAGAGGCTTCAAGGAATCGGGATTTTTGAATGAGGTT
genomic: GAGACGGTTTGCTGAAGCATGTTGCTGAAGATGTTCTAAAGTTGGCAAAGgtaaagggtg ... gcatccacagGATGGCTTGGAGAGAAGAGGCTTCAAGGAATCGGGATTTTTGAATGAGGTT
EST: gi|192303374|gb|FG997432.1|FG997432
EST:     GAGACGGTTTGCTGAAGCATGTTGCTGAAGATGTTCTAAAGTTGGCAAAG                         GATGGCTTGGAGAGAAGAGGCTTCAAGGAATCGGGATTTTTGAATGAGGTT
genomic: GAGACGGTTTGCTGAAGCATGTTGCTGAAGATGTTCTAAAGTTGGCAAAGgtaaagggtg ... gcatccacagGATGGCTTGGAGAGAAGAGGCTTCAAGGAATCGGGATTTTTGAATGAGGTT
EST: gi|193378502|gb|FK344675.1|FK344675
EST:     GAGACGGTTTGCTGAAGCATGTTGCTGAAGATGTTCTAAAGTTGGCAAAG                         GATGGCTTGGAGAGAAGAGGCTTCAAGGAATCGGGATTTTTGAATGAGGTT
genomic: GAGACGGTTTGCTGAAGCATGTTGCTGAAGATGTTCTAAAGTTGGCAAAGgtaaagggtg ... gcatccacagGATGGCTTGGAGAGAAGAGGCTTCAAGGAATCGGGATTTTTGAATGAGGTT
EST: gi|22929227|gb|BU546366.1|BU546366
EST:     GAGACGGTTTGCTGAAGCATGTTGCTGAAGATGTTCTAAAGTTGGCAAAG                         GATGGCTTGGAGAGAAGAGGCTTCAAGGAATCGGGATTTTTGAATGAGGTT
genomic: GAGACGGTTTGCTGAAGCATGTTGCTGAAGATGTTCTAAAGTTGGCAAAGgtaaagggtg ... gcatccacagGATGGCTTGGAGAGAAGAGGCTTCAAGGAATCGGGATTTTTGAATGAGGTT
EST: gi|192303006|gb|FG997022.1|FG997022
EST:     GAGACGGTTTGCTGAAGCATGTTGCTGAAGATGTTCTAAAGTTGGCAAAG                         GATGGCTTGGAGAGAAGAGGCTTCAAGGAATCGGGATTTTTGAATGAGGTT
genomic: GAGACGGTTTGCTGAAGCATGTTGCTGAAGATGTTCTAAAGTTGGCAAAGgtaaagggtg ... gcatccacagGATGGCTTGGAGAGAAGAGGCTTCAAGGAATCGGGATTTTTGAATGAGGTT
EST: gi|213588137|gb|DB979215.1|DB979215
EST:     GAGACGGTTTGCTGAAGCATGTTGCTGAAGATGTTCTAAAGTTGGCAAAG                         GATGGCTTGGAGAGAAGAGGCTTCAAGGAATCGGGATTTTTGAATGAGGTT
genomic: GAGACGGTTTGCTGAAGCATGTTGCTGAAGATGTTCTAAAGTTGGCAAAGgtaaagggtg ... gcatccacagGATGGCTTGGAGAGAAGAGGCTTCAAGGAATCGGGATTTTTGAATGAGGTT
EST: gi|120494105|gb|EH222272.1|EH222272
EST:     GAGACGGTTTGCTGAAGCATGTTGCTGAAGATGTTCTAAAGTTGGCAAAG                         GATGGCTTGGAGAGAAGAGGCTTCAAGGAATCGGGATTTTTGAATGAGGTT
genomic: GAGACGGTTTGCTGAAGCATGTTGCTGAAGATGTTCTAAAGTTGGCAAAGgtaaagggtg ... gcatccacagGATGGCTTGGAGAGAAGAGGCTTCAAGGAATCGGGATTTTTGAATGAGGTT
EST: gi|214004560|gb|DB985339.1|DB985339
EST:     GAGACGGTTTGCTGAAGCATGTTGCTGAAGATGTTCTAAAGTTGGCAAAG                         GATGGCTTGGAGAGAAGAGGCTTCAAGGAATCGGGATTTTTGAATGAGGTT
genomic: GAGACGGTTTGCTGAAGCATGTTGCTGAAGATGTTCTAAAGTTGGCAAAGgtaaagggtg ... gcatccacagGATGGCTTGGAGAGAAGAGGCTTCAAGGAATCGGGATTTTTGAATGAGGTT
EST: gi|254347452|gb|GR853701.1|GR853701
EST:     GAGACGGTTTGCTGAAGCATGTTGCTGAAGATGTTCTAAAGTTGGCAAAG                         GATGGCTTGGAGAGAAGAGGCTTCAAGGAATCGGGATTTTTGAATGAGGTT
genomic: GAGACGGTTTGCTGAAGCATGTTGCTGAAGATGTTCTAAAGTTGGCAAAGgtaaagggtg ... gcatccacagGATGGCTTGGAGAGAAGAGGCTTCAAGGAATCGGGATTTTTGAATGAGGTT
EST: gi|192299708|gb|FG990032.1|FG990032
EST:     GAGACGGTTTGCTGAAGCATGTTGCTGAAGATGTTCTAAAGTTGGCAAAG                         GATGGCTTGGAGAGAAGAGGCTTCAAGGAATCGGGATTTTTGAATGAGGTT
genomic: GAGACGGTTTGCTGAAGCATGTTGCTGAAGATGTTCTAAAGTTGGCAAAGgtaaagggtg ... gcatccacagGATGGCTTGGAGAGAAGAGGCTTCAAGGAATCGGGATTTTTGAATGAGGTT
EST: gi|192303005|gb|FG997021.1|FG997021
EST:     GAGACGGTTTGCTGAAGCATGTTGCTGAAGATGTTCTAAAGTTGGCAAAG                         GATGGCTTGGAGAGAAGAGGCTTCAAGGAATCGGGATTTTTGAATGAGGTT
genomic: GAGACGGTTTGCTGAAGCATGTTGCTGAAGATGTTCTAAAGTTGGCAAAGgtaaagggtg ... gcatccacagGATGGCTTGGAGAGAAGAGGCTTCAAGGAATCGGGATTTTTGAATGAGGTT
EST: gi|209707542|gb|BW665001.1|BW665001
EST:     GAGACGGTTTGCTGAAGCATGTTGCTGAAGATGTTCTAAAGTTGGCAAAG                         GATGGCTTGGAGAGAAGAGGCTTCAAGGAATCGGGATTTTTGAATGAGGTT
genomic: GAGACGGTTTGCTGAAGCATGTTGCTGAAGATGTTCTAAAGTTGGCAAAGgtaaagggtg ... gcatccacagGATGGCTTGGAGAGAAGAGGCTTCAAGGAATCGGGATTTTTGAATGAGGTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTCCTGTAACTGGTCTGAAGACACCATTCCGAGACGGTTTGCTGAAGCATGTTGCTGAAGATGTTCTAAAGTTGGCAAAGgtaaagggtgtcattaattttgttattgctgttattttcgatgttgctaagggcattgggatgcatccacag

- - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - -  TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG