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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATGGCTTGGAGAGAAGAGGCTTCAAGGAATCGGGATTTTTGAATGAGGTTGCCGAGGTGGTTAGAACAGgtaatggatttataggtcatattctctcattaatgatgcatctcccacaacctttccatgcttccagtgccctacttcgtttcattcccttactcatttc...

Basic information

species Glycine max
transcript GLYMA05G37850.3
intron # 15
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 15
lower sequence: Vv02s0025g03530.t01 (Vitis vinifera), 5'ss of exon 15
GATGGCTTGGAGAGAAGAGGCTTCAAGGAATCGGGATTTTTGAATGAGGTTGCCGAGGTGGTTAGAACAGgtaatggatttataggtcatattctctcattaatgatgcatctcccacaacctttccatgcttccagt-gccctacttcgtttcattcccttactcatttc---
||||||||||| ||||||||||| |||||| | || || |||||||  || || ||||||||||||||||||||   |||| |   |  |  |||||||||  |||| | | |      |  | | |||    | | | |      |         |   |||    | |    
GATGGCTTGGAAAGAAGAGGCTTTAAGGAAACTGGTTTCTTGAATGCAGTGGCTGAGGTGGTTAGAACAGgtaactaattttt--ttttttctctctcatt--tgatccttttaatttgaattcttcattgacctacttggtgaggtctaaggtgctggtttaaaagtcttaac
















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:     CTTCAAGGAATCGGGATTTTTGAATGAGGTTGCCGAGGTGGTTAGAACAG                         GTGTCACTCCAGCTGAGAGGCTTTTGGAATTGTATCATGGAAAGTGGGAGC
genomic: CTTCAAGGAATCGGGATTTTTGAATGAGGTTGCCGAGGTGGTTAGAACAGgtaatggatt ... gtggtggcagGTGTCACTCCAGCTGAGAGGCTTTTGGAATTGTATCATGGAAAGTGGGAGC
EST: gi|18722327|gb|BM523396.1|BM523396
EST:     CTTCAAGGAATCGGGATTTTTGAATGAGGTTGCCGAGGTGGTTAGAACAG                         GTGTCACTCCAGCTGAGAGGCTTTTGGAATTGTATCATGGAAAGTGGGAGC
genomic: CTTCAAGGAATCGGGATTTTTGAATGAGGTTGCCGAGGTGGTTAGAACAGgtaatggatt ... gtggtggcagGTGTCACTCCAGCTGAGAGGCTTTTGGAATTGTATCATGGAAAGTGGGAGC
EST: gi|120496102|gb|EH224269.1|EH224269
EST:     GAGGTGGTTAGAACAG                         GTGTCACTCCAGCTGAGAGGCTTTTGGAATTGTATCATGGAAAGTGGGAGC
genomic: GAGGTGGTTAGAACAGgtaatggatt ... gtggtggcagGTGTCACTCCAGCTGAGAGGCTTTTGGAATTGTATCATGGAAAGTGGGAGC
EST: gi|12691343|gb|BG157679.1|BG157679
EST:     CTTCAAGGAATCGGGATTTTTGAATGAGGTTGCCGAGGTGGTTAGAACAG                         GTGTCACTCCAGCTGAGAGGCTTTTGGAATTGTATCATGGAAAGTGGGAGC
genomic: CTTCAAGGAATCGGGATTTTTGAATGAGGTTGCCGAGGTGGTTAGAACAGgtaatggatt ... gtggtggcagGTGTCACTCCAGCTGAGAGGCTTTTGGAATTGTATCATGGAAAGTGGGAGC
EST: gi|22929331|gb|BU546470.1|BU546470
EST:     CTTCAAGGAATCGGGATTTTTGAATGAGGTTGCCGAGGTGGTTAGAACAG                         GTGTCACTCCAGCTGAGAGGCTTTTGGAATTGTATCATGGAAAGTGGGAGC
genomic: CTTCAAGGAATCGGGATTTTTGAATGAGGTTGCCGAGGTGGTTAGAACAGgtaatggatt ... gtggtggcagGTGTCACTCCAGCTGAGAGGCTTTTGGAATTGTATCATGGAAAGTGGGAGC
EST: gi|254347453|gb|GR853702.1|GR853702
EST:     CTTCAAGGAATCGGGATTTTTGAATGAGGTTGCCGAGGTGGTTAGAACAG                         GTGTCACTCCAGCTGAGAGGCTTTTGGAATTGTATCATGGAAAGTGGGAGC
genomic: CTTCAAGGAATCGGGATTTTTGAATGAGGTTGCCGAGGTGGTTAGAACAGgtaatggatt ... gtggtggcagGTGTCACTCCAGCTGAGAGGCTTTTGGAATTGTATCATGGAAAGTGGGAGC
EST: gi|7692080|gb|AW760195.1|AW760195
EST:     CTTCAAGGAATCGGGATTTTTGAATGAGGTTGCCGAGGTGGTTAGAACAG                         GTGTCACTCCAGCTGAGAGGCTTTTGGAATTGTATCATGGAAAGTGGGAGC
genomic: CTTCAAGGAATCGGGATTTTTGAATGAGGTTGCCGAGGTGGTTAGAACAGgtaatggatt ... gtggtggcagGTGTCACTCCAGCTGAGAGGCTTTTGGAATTGTATCATGGAAAGTGGGAGC
EST: gi|9900602|gb|BE609570.1|BE609570
EST:     CTTCAAGGAATCGGGATTTTTGAATGAGGTTGCCGAGGTGGTTAGAACAG                         GTGTCACTCCAGCTGAGAGGCTTTTGGAATTGTATCAT
genomic: CTTCAAGGAATCGGGATTTTTGAATGAGGTTGCCGAGGTGGTTAGAACAGgtaatggatt ... gtggtggcagGTGTCACTCCAGCTGAGAGGCTTTTGGAATTGTATCAT
EST: gi|192303374|gb|FG997432.1|FG997432
EST:     CTTCAAGGAATCGGGATTTTTGAATGAGGTTGCCGAGGTGGTTAGAACAG                         GTGTCACTCCAGCTGAGAGGCTTTTGGAATTGTATCATGGAAAGTGGGAGC
genomic: CTTCAAGGAATCGGGATTTTTGAATGAGGTTGCCGAGGTGGTTAGAACAGgtaatggatt ... gtggtggcagGTGTCACTCCAGCTGAGAGGCTTTTGGAATTGTATCATGGAAAGTGGGAGC
EST: gi|22929227|gb|BU546366.1|BU546366
EST:     CTTCAAGGAATCGGGATTTTTGAATGAGGTTGCCGAGGTGGTTAGAACAG                         GTGTCACTCCAGCTGAGAGGCTTTTGGAATTGTATCATGGAAAGTGGGAGC
genomic: CTTCAAGGAATCGGGATTTTTGAATGAGGTTGCCGAGGTGGTTAGAACAGgtaatggatt ... gtggtggcagGTGTCACTCCAGCTGAGAGGCTTTTGGAATTGTATCATGGAAAGTGGGAGC
EST: gi|192303006|gb|FG997022.1|FG997022
EST:     CTTCAAGGAATCGGGATTTTTGAATGAGGTTGCCGAGGTGGTTAGAACAG                         GTGTCACTCCAGCTGAGAGGCTTTTGGAATTGTATCATGGAAAGTGGGAGC
genomic: CTTCAAGGAATCGGGATTTTTGAATGAGGTTGCCGAGGTGGTTAGAACAGgtaatggatt ... gtggtggcagGTGTCACTCCAGCTGAGAGGCTTTTGGAATTGTATCATGGAAAGTGGGAGC
EST: gi|213588137|gb|DB979215.1|DB979215
EST:     CTTCAAGGAATCGGGATTTTTGAATGAGGTTGCCGAGGTGGTTAGAACAG                         GTGTCACTCCAGCTGAGAGGCTTTTGGAATTGTATCATGGAAAGTGGGAGC
genomic: CTTCAAGGAATCGGGATTTTTGAATGAGGTTGCCGAGGTGGTTAGAACAGgtaatggatt ... gtggtggcagGTGTCACTCCAGCTGAGAGGCTTTTGGAATTGTATCATGGAAAGTGGGAGC
EST: gi|120494105|gb|EH222272.1|EH222272
EST:     CTTCAAGGAATCGGGATTTTTGAATGAGGTTGCCGAGGTGGTTAGAACAG                         GTGTCACTCCAGCTGAGAGGCTTTTGGAATTGTATCATGGAAAGTGGGAGC
genomic: CTTCAAGGAATCGGGATTTTTGAATGAGGTTGCCGAGGTGGTTAGAACAGgtaatggatt ... gtggtggcagGTGTCACTCCAGCTGAGAGGCTTTTGGAATTGTATCATGGAAAGTGGGAGC
EST: gi|214004560|gb|DB985339.1|DB985339
EST:     CTTCAAGGAATCGGGATTTTTGAATGAGGTTGCCGAGGTGGTTAGAACAG                         GTGTCACTCCAGCTGAGAGGCTTTTGGAATTGTATCATGGAAAGTGGGAGC
genomic: CTTCAAGGAATCGGGATTTTTGAATGAGGTTGCCGAGGTGGTTAGAACAGgtaatggatt ... gtggtggcagGTGTCACTCCAGCTGAGAGGCTTTTGGAATTGTATCATGGAAAGTGGGAGC
EST: gi|254347452|gb|GR853701.1|GR853701
EST:     CTTCAAGGAATCGGGATTTTTGAATGAGGTTGCCGAGGTGGTTAGAACAG                         GTGTCACTCCAGCTGAGAGGCTTTTGGAATTGTATCATGGAAAGTGGGAGC
genomic: CTTCAAGGAATCGGGATTTTTGAATGAGGTTGCCGAGGTGGTTAGAACAGgtaatggatt ... gtggtggcagGTGTCACTCCAGCTGAGAGGCTTTTGGAATTGTATCATGGAAAGTGGGAGC
EST: gi|192299708|gb|FG990032.1|FG990032
EST:     CTTCAAGGAATCGGGATTTTTGAATGAGGTTGCCGAGGTGGTTAGAACAG                         GTGCCACTCCAGCTGAGAGGCTTTTGGAATTGTATCATGGAAAGTGGGAGC
genomic: CTTCAAGGAATCGGGATTTTTGAATGAGGTTGCCGAGGTGGTTAGAACAGgtaatggatt ... gtggtggcagGTGTCACTCCAGCTGAGAGGCTTTTGGAATTGTATCATGGAAAGTGGGAGC
EST: gi|192303005|gb|FG997021.1|FG997021
EST:     CTTCAAGGAATCGGGATTTTTGAATGAGGTTGCCGAGGTGGTTAGAACAG                         GTGTCACTCCAGCTGAGAGGCTTTTGGAATTGTATCATGGAAAGTGGGAGC
genomic: CTTCAAGGAATCGGGATTTTTGAATGAGGTTGCCGAGGTGGTTAGAACAGgtaatggatt ... gtggtggcagGTGTCACTCCAGCTGAGAGGCTTTTGGAATTGTATCATGGAAAGTGGGAGC
EST: gi|209707542|gb|BW665001.1|BW665001
EST:     CTTCAAGGAATCGGGATTTTTGAATGAGGTTGCCGAGGTGGTTAGAACAG                         GTGTCACTCCAGCTGAGAGGCTTTTGGAATTGTATCATGGAAAGTGGGAGC
genomic: CTTCAAGGAATCGGGATTTTTGAATGAGGTTGCCGAGGTGGTTAGAACAGgtaatggatt ... gtggtggcagGTGTCACTCCAGCTGAGAGGCTTTTGGAATTGTATCATGGAAAGTGGGAGC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GATGGCTTGGAGAGAAGAGGCTTCAAGGAATCGGGATTTTTGAATGAGGTTGCCGAGGTGGTTAGAACAGgtaatggatttataggtcatattctctcattaatgatgcatctcccacaacctttccatgcttccagtgccctacttcgtttcattcccttactcatttc

- - - - - - - - - - - - AAGGAA