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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTAGGGTTATTGTACGATGAACTTTCTCTAAAAAGTGTTTTGGATATGACAGCTGATTGGACTCCAGAAGAAAGACAAATGTTAAGGAATAAGgtggaatccttaataacactattttcatttctgttgctattattcaacccagatgcatgaagtcccctcatgtaaaattgctttgggccggaagcatgga...

Basic information

species Glycine max
transcript GLYMA05G37850.1
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G37850.2 (Glycine max), 5'ss of exon 13
lower sequence: Vv02s0025g03530.t01 (Vitis vinifera), 5'ss of exon 13
GTAGGGTTATTGTACGATGAACTTTCTCTAAAAAGTGTTTTGGATATGACAGCTGATTGGACTCCAGAAGAAAGACAAATGTTAAGGAATAAGgtggaatccttaata---acactattttcatttctgttgctattattcaacccagatgcatgaagtcccctcatgtaaaattgctttgggccggaagcatgga
|||||  | || || |||||| |||| ||| ||| || | |||| || | |||||||||||| |  ||||||||||| ||||| |||||||||||    ||   | |    |||||    | |  | ||| | | || |   |   |||       |   || |  |     ||    |   ||  || |||    
GTAGGCATTTTATATGATGAAGTTTCACTACAAAATGCTCTGGACATTATAGCTGATTGGACACTGGAAGAAAGACAGATGTTGAGGAATAAGgtactgtcaacattctacacactcaaatgaactttgt-gatcttgtgagaggaagaaattaacaactccatggtccttgatattctattgcatgaggcagt--
















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:     ATATGACAGCTGATTGGACTCCAGAAGAAAGACAAATGTTAAGGAATAAG                         GTTCCTGTAACTGGTCTGAAGACACCATTCCGAGACGGTTTGCTGAAGCAT
genomic: ATATGACAGCTGATTGGACTCCAGAAGAAAGACAAATGTTAAGGAATAAGgtggaatcct ... tctatggcagGTTCCTGTAACTGGTCTGAAGACACCATTCCGAGACGGTTTGCTGAAGCAT
EST: gi|18722327|gb|BM523396.1|BM523396
EST:     ATATGACAGCTGATTGGACTCCAGAAGAAAGACAAATGTTAAGGAATAAG                         GTTCCTGTAACTGGTCTGAAGACACCATTCCGAGACGGTTTGCTGAAGCAT
genomic: ATATGACAGCTGATTGGACTCCAGAAGAAAGACAAATGTTAAGGAATAAGgtggaatcct ... tctatggcagGTTCCTGTAACTGGTCTGAAGACACCATTCCGAGACGGTTTGCTGAAGCAT
EST: gi|12691343|gb|BG157679.1|BG157679
EST:     ATATGACAGCTGATTGGACTCCAGAAGAAAGACAAATGTTAAGGAATAAG                         GTTCCTGTAACTGGTCTGAAGACACCATTCCGAGACGGTTTGCTGAAGCAT
genomic: ATATGACAGCTGATTGGACTCCAGAAGAAAGACAAATGTTAAGGAATAAGgtggaatcct ... tctatggcagGTTCCTGTAACTGGTCTGAAGACACCATTCCGAGACGGTTTGCTGAAGCAT
EST: gi|22929331|gb|BU546470.1|BU546470
EST:     ATATGACAGCTGATTGGACTCCAGAAGAAAGACAAATGTTAAGGAATAAG                         GTTCCTGTAACTGGTCTGAAGACACCATTCCGAGACGGTTTGCTGAAGCAT
genomic: ATATGACAGCTGATTGGACTCCAGAAGAAAGACAAATGTTAAGGAATAAGgtggaatcct ... tctatggcagGTTCCTGTAACTGGTCTGAAGACACCATTCCGAGACGGTTTGCTGAAGCAT
EST: gi|13480024|gb|BG509367.1|BG509367
EST:     ATATGACAGCTGATTGGACTCCAGAAGAAAGACAAATGTTAAGGAATAAG                         GTTCCTGTAACTGGTCTGAAGACACCATTCCGAGACGGTTTGCTGAAGCAT
genomic: ATATGACAGCTGATTGGACTCCAGAAGAAAGACAAATGTTAAGGAATAAGgtggaatcct ... tctatggcagGTTCCTGTAACTGGTCTGAAGACACCATTCCGAGACGGTTTGCTGAAGCAT
EST: gi|7692080|gb|AW760195.1|AW760195
EST:     ATATGACAGCTGATTGGACTCCAGAAGAAAGACAAATGTTAAGGAATAAG                         GTTCCTGTAACTGGTCTGAAGACACCATTCCGAGACGGTTTGCTGAAGCAT
genomic: ATATGACAGCTGATTGGACTCCAGAAGAAAGACAAATGTTAAGGAATAAGgtggaatcct ... tctatggcagGTTCCTGTAACTGGTCTGAAGACACCATTCCGAGACGGTTTGCTGAAGCAT
EST: gi|9900602|gb|BE609570.1|BE609570
EST:     ATATGACAGCTGATTGGACTCCAGAAGAAAGACAAATGTTAAGGAATAAG                         GTTCCTGTAACTGGTCTGAAGACACCATTCCGAGACGGTTTGCTGAAGCAT
genomic: ATATGACAGCTGATTGGACTCCAGAAGAAAGACAAATGTTAAGGAATAAGgtggaatcct ... tctatggcagGTTCCTGTAACTGGTCTGAAGACACCATTCCGAGACGGTTTGCTGAAGCAT
EST: gi|192303374|gb|FG997432.1|FG997432
EST:     TTGGACTCCAGAAGAAAGACAAATGTTAAGGAATAAG                         GTTCCTGTAACTGGTCTGAAGACACCATTCCGAGACGGTTTGCTGAAGCAT
genomic: TTGGACTCCAGAAGAAAGACAAATGTTAAGGAATAAGgtggaatcct ... tctatggcagGTTCCTGTAACTGGTCTGAAGACACCATTCCGAGACGGTTTGCTGAAGCAT
EST: gi|193378502|gb|FK344675.1|FK344675
EST:     ATATGACAGCTGATTGGACTCCAGAAGAAAGACAAATGTTAAGGAATAAG                         GTTCCTGTAACTGGTCTGAAGACACCATTCCGAGACGGTTTGCTGAAGCAT
genomic: ATATGACAGCTGATTGGACTCCAGAAGAAAGACAAATGTTAAGGAATAAGgtggaatcct ... tctatggcagGTTCCTGTAACTGGTCTGAAGACACCATTCCGAGACGGTTTGCTGAAGCAT
EST: gi|22929227|gb|BU546366.1|BU546366
EST:     ATATGACAGCTGATTGGACTCCAGAAGAAAGACAAATGTTAAGGAATAAG                         GTTCCTGTAACTGGTCTGAAGACACCATTCCGAGACGGTTTGCTGAAGCAT
genomic: ATATGACAGCTGATTGGACTCCAGAAGAAAGACAAATGTTAAGGAATAAGgtggaatcct ... tctatggcagGTTCCTGTAACTGGTCTGAAGACACCATTCCGAGACGGTTTGCTGAAGCAT
EST: gi|192303006|gb|FG997022.1|FG997022
EST:     ATATGACAGCTGATTGGACTCCAGAAGAAAGACAAATGTTAAGGAATAAG                         GTTCCTGTAACTGGTCTGAAGACACCATTCCGAGACGGTTTGCTGAAGCAT
genomic: ATATGACAGCTGATTGGACTCCAGAAGAAAGACAAATGTTAAGGAATAAGgtggaatcct ... tctatggcagGTTCCTGTAACTGGTCTGAAGACACCATTCCGAGACGGTTTGCTGAAGCAT
EST: gi|213588137|gb|DB979215.1|DB979215
EST:     ATATGACAGCTGATTGGACTCCAGAAGAAAGACAAATGTTAAGGAATAAG                         GTTCCTGTAACTGGTCTGAAGACACCATTCCGAGACGGTTTGCTGAAGCAT
genomic: ATATGACAGCTGATTGGACTCCAGAAGAAAGACAAATGTTAAGGAATAAGgtggaatcct ... tctatggcagGTTCCTGTAACTGGTCTGAAGACACCATTCCGAGACGGTTTGCTGAAGCAT
EST: gi|120494105|gb|EH222272.1|EH222272
EST:     ATATGACAGCTGATTGGACTCCAGAAGAAAGACAAATGTTAAGGAATAAG                         GTTCCTGTAACTGGTCTGAAGACACCATTCCGAGACGGTTTGCTGAAGCAT
genomic: ATATGACAGCTGATTGGACTCCAGAAGAAAGACAAATGTTAAGGAATAAGgtggaatcct ... tctatggcagGTTCCTGTAACTGGTCTGAAGACACCATTCCGAGACGGTTTGCTGAAGCAT
EST: gi|19453403|gb|BM954813.1|BM954813
EST:     ATATGACAGCTGATTGGACTCCAGAAGAAAGACAAATGTTAAGGAATAAG                         GTTCCTGTAACTGGTCTGAAGACACCATTCCGAGACGGTTTGCTGAAGCAT
genomic: ATATGACAGCTGATTGGACTCCAGAAGAAAGACAAATGTTAAGGAATAAGgtggaatcct ... tctatggcagGTTCCTGTAACTGGTCTGAAGACACCATTCCGAGACGGTTTGCTGAAGCAT
EST: gi|214004560|gb|DB985339.1|DB985339
EST:     ATATGACAGCTGATTGGACTCCAGAAGAAAGACAAATGTTAAGGAATAAG                         GTTCCTGTAACTGGTCTGAAGACACCATTCCGAGACGGTTTGCTGAAGCAT
genomic: ATATGACAGCTGATTGGACTCCAGAAGAAAGACAAATGTTAAGGAATAAGgtggaatcct ... tctatggcagGTTCCTGTAACTGGTCTGAAGACACCATTCCGAGACGGTTTGCTGAAGCAT
EST: gi|192299708|gb|FG990032.1|FG990032
EST:     ATATGACGGCTGATTGGACTCCAGAAGAAAGACAAATGTTAAGGAATAAG                         GTTCCTGTAACTGGTCTGAAGACACCATTCCGAGACGGTTTGCTGAAGCAT
genomic: ATATGACAGCTGATTGGACTCCAGAAGAAAGACAAATGTTAAGGAATAAGgtggaatcct ... tctatggcagGTTCCTGTAACTGGTCTGAAGACACCATTCCGAGACGGTTTGCTGAAGCAT
EST: gi|192303005|gb|FG997021.1|FG997021
EST:     ATATGACAGCTGATTGGACTCCAGAAGAAAGACAAATGTTAAGGAATAAG                         GTTCCTGTAACTGGTCTGAAGACACCATTCCGAGACGGTTTGCTGAAGCAT
genomic: ATATGACAGCTGATTGGACTCCAGAAGAAAGACAAATGTTAAGGAATAAGgtggaatcct ... tctatggcagGTTCCTGTAACTGGTCTGAAGACACCATTCCGAGACGGTTTGCTGAAGCAT
EST: gi|209707542|gb|BW665001.1|BW665001
EST:     ATATGACAGCTGATTGGACTCCAGAAGAAAGACAAATGTTAAGGAATAAG                         GTTCCTGTAACTGGTCTGAAGACACCATTCCGAGACGGTTTGCTGAAGCAT
genomic: ATATGACAGCTGATTGGACTCCAGAAGAAAGACAAATGTTAAGGAATAAGgtggaatcct ... tctatggcagGTTCCTGTAACTGGTCTGAAGACACCATTCCGAGACGGTTTGCTGAAGCAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTAGGGTTATTGTACGATGAACTTTCTCTAAAAAGTGTTTTGGATATGACAGCTGATTGGACTCCAGAAGAAAGACAAATGTTAAGGAATAAGgtggaatccttaataacactattttcatttctgttgctattattcaacccagatgcatgaagtcccctcatgtaaaattgctttgggccggaagcatgga

- - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA