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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGCTTATAGTGACTCCCGTGGCCTTCCAGGAGTGAGGAAGGAAGTTGCTGAGTTCATACTCAGGCGTGATGGTTATCCAACgtatttatactctatacagtctctttctgttttctaatttatcttgtaaaatctttctttaaaagggagtcttaagcttagtttctaatttgttaggcaaatggattaattgcttcttgctccattacag

Basic information

species Glycine max
transcript GLYMA02G04320.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G04320.2 (Glycine max), 5'ss of exon 5
lower sequence: AT1G23310.1 (Arabidopsis thaliana), 5'ss of exon 5
GTGCTTATAGTGACTCCCGTGGCCTTCCAGGAGTGAGGAAGGAAGTTGCTGAGTTCATACTCAGGCGTGATGGTTATCCAACgtatttatactctatacagtctctttctgttttctaatttatcttgtaaaatctttctttaaaagggagtcttaagcttagtttctaatttgttaggcaaatggattaattgcttcttgctccattacag
||||||| ||||| ||  | |||||||||||||| ||||| || |||||||||||||| |   |||||||||| ||||||| ||  || |  ||       |||              |||| | ||||| || |   |     |    || |||    || |||  | |||| ||||                                  
GTGCTTACAGTGATTCAAGAGGCCTTCCAGGAGTTAGGAAAGAGGTTGCTGAGTTCATTCAACGGCGTGATGGGTATCCAAGgtgattgttttc------atctgcacaatgaaatagatttttgttgtagaaacaaaccc---agcttaggctt---tttggttctttattt-ttag----------------------------------
















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|192299495|gb|FG990804.1|FG990804
EST:     TTGCTGAGTTCATACTCAGGCGTGATGGTTATCCAAC                         TGATCCAGAGCTCATATATCTCACTGATGGTGCAAGCAAAGGAGTGATGCA
genomic: TTGCTGAGTTCATACTCAGGCGTGATGGTTATCCAACgtatttatac ... tccattacagTGATCCAGAGCTCATATATCTCACTGATGGTGCAAGCAAAGGAGTGATGCA
EST: gi|120490920|gb|EH219087.1|EH219087
EST:     GTGAGGAAGGAAGTTGCTGAGTTCATACTCAGGCGTGATGGTTATCCAAC                         TGATCCAGAGCTCATATATCTCACTGATGGTGCAAGCAAAGGAGTGATGCA
genomic: GTGAGGAAGGAAGTTGCTGAGTTCATACTCAGGCGTGATGGTTATCCAACgtatttatac ... tccattacagTGATCCAGAGCTCATATATCTCACTGATGGTGCAAGCAAAGGAGTGATGCA
EST: gi|14999822|gb|BI320636.1|BI320636
EST:     GCTGAGTTCATACTCAGGCGTGATGGTTATCCAAC                         TGATCCAGAGCTCATATATCTCACTGATGGTGCAAGCAAAGGAGTGATGCA
genomic: GCTGAGTTCATACTCAGGCGTGATGGTTATCCAACgtatttatac ... tccattacagTGATCCAGAGCTCATATATCTCACTGATGGTGCAAGCAAAGGAGTGATGCA
EST: gi|20497810|gb|BQ272740.1|BQ272740
EST:     GTGAGGAAGGAAGTTGCTGAGTTCATACTCAGGCGTGATGGTTATCCAAC                         TGATCCAGAGCTCATATATCTCACTGATGGTGCAAGCAAAGGAGTGATGCA
genomic: GTGAGGAAGGAAGTTGCTGAGTTCATACTCAGGCGTGATGGTTATCCAACgtatttatac ... tccattacagTGATCCAGAGCTCATATATCTCACTGATGGTGCAAGCAAAGGAGTGATGCA
EST: gi|120531769|gb|EH259902.1|EH259902
EST:     GTGAGGAAGGAAGTTGCTGAGTTCATACTCAGGCGTGATGGTTATCCAAC                         TGATCCAGAGCTCATATATCTCACTGATGGTGCAAGCAAAGGAGTGATGCA
genomic: GTGAGGAAGGAAGTTGCTGAGTTCATACTCAGGCGTGATGGTTATCCAACgtatttatac ... tccattacagTGATCCAGAGCTCATATATCTCACTGATGGTGCAAGCAAAGGAGTGATGCA
EST: gi|120530295|gb|EH258429.1|EH258429
EST:     GTGAGGAAGGAAGTTGCTGAGTTCATACTCAGGCGTGATGGTTATCCAAC                         TGATCCAGAGCTCATATATCTCACTGATGGTGCAAGCAAAGGAGTGATGCA
genomic: GTGAGGAAGGAAGTTGCTGAGTTCATACTCAGGCGTGATGGTTATCCAACgtatttatac ... tccattacagTGATCCAGAGCTCATATATCTCACTGATGGTGCAAGCAAAGGAGTGATGCA
EST: gi|37996526|gb|CF808115.1|CF808115
EST:     GTGAGGAAGGAAGTTGCTGAGTTCATACTCAGGCGTGATGGTTATCCAAC                         TGATCCAGAGCTCATATATCTCACTGATGGTGCAAGCAAAGGAGTGATGCA
genomic: GTGAGGAAGGAAGTTGCTGAGTTCATACTCAGGCGTGATGGTTATCCAACgtatttatac ... tccattacagTGATCCAGAGCTCATATATCTCACTGATGGTGCAAGCAAAGGAGTGATGCA
EST: gi|213590180|gb|DB963799.1|DB963799
EST:     GTGAGGAAGGAAGTTGCTGAGTTCATACTCAGGCGTGATGGTTATCCAAC                         TGATCCAGAGCTCATATATCTCACTGATGGTGCAAGCAAAGGAGTGATGCA
genomic: GTGAGGAAGGAAGTTGCTGAGTTCATACTCAGGCGTGATGGTTATCCAACgtatttatac ... tccattacagTGATCCAGAGCTCATATATCTCACTGATGGTGCAAGCAAAGGAGTGATGCA
EST: gi|193524670|gb|FK480077.1|FK480077
EST:     GTGAGGAAGGAAGTTGCTGAGTTCATACTCAGGCGTGATGGTTATCCAAC                         TGATCCAGAGCTCAT
genomic: GTGAGGAAGGAAGTTGCTGAGTTCATACTCAGGCGTGATGGTTATCCAACgtatttatac ... tccattacagTGATCCAGAGCTCAT
EST: gi|213594062|gb|DB961950.1|DB961950
EST:     GTGAGGAAGGAAGTTGCTGAGTTCATACTCAGGCGTGATGGTTATCCAAC                         TGATCCAGAGCTCATATATCTCACTGATGGTGCAAGCAAAGGAGTGATGCA
genomic: GTGAGGAAGGAAGTTGCTGAGTTCATACTCAGGCGTGATGGTTATCCAACgtatttatac ... tccattacagTGATCCAGAGCTCATATATCTCACTGATGGTGCAAGCAAAGGAGTGATGCA
EST: gi|13562529|gb|BG550749.1|BG550749
EST:     GTGAGGAAGGAAGTTGCTGAGTTCATACTCAGGCGTGATGGTTATCCAAC                         TGATCCAGAGCTCATATATCTCACTGATGGTGCAAGCAAAGGAGTGATGCA
genomic: GTGAGGAAGGAAGTTGCTGAGTTCATACTCAGGCGTGATGGTTATCCAACgtatttatac ... tccattacagTGATCCAGAGCTCATATATCTCACTGATGGTGCAAGCAAAGGAGTGATGCA
EST: gi|120495797|gb|EH223964.1|EH223964
EST:     GTGAGGAAGGAAGTTGCTGAGTTCATACTCAGGCGTGATGGTTATCCAAC                         TGATCCAGAGCTCATATATCTCACTGATGGTGCAAGCAAAGGAGTGATGCA
genomic: GTGAGGAAGGAAGTTGCTGAGTTCATACTCAGGCGTGATGGTTATCCAACgtatttatac ... tccattacagTGATCCAGAGCTCATATATCTCACTGATGGTGCAAGCAAAGGAGTGATGCA
EST: gi|192313436|gb|FK005516.1|FK005516
EST:     GTGAGGAAGGAAGTTGCTGAGTTCATACTCAGGCATGATGGTTATCCAAC                         TGATCCAGAGCTCATATATCTCACTGATGGTGCAAGCAAAGGAGTGATGCA
genomic: GTGAGGAAGGAAGTTGCTGAGTTCATACTCAGGCGTGATGGTTATCCAACgtatttatac ... tccattacagTGATCCAGAGCTCATATATCTCACTGATGGTGCAAGCAAAGGAGTGATGCA
EST: gi|22522287|gb|BU081107.1|BU081107
EST:     CTCAGGCGTGATGGTTATCCAAC                         TGATCCAGAACTCATATATCTCACTGATGGTGCCAGCAAGGGGGTGATGCA
genomic: CTCAGGCGTGATGGTTATCCAACgtatttatac ... tccattacagTGATCCAGAGCTCATATATCTCACTGATGGTGCAAGCAAAGGAGTGATGCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTGCTTATAGTGACTCCCGTGGCCTTCCAGGAGTGAGGAAGGAAGTTGCTGAGTTCATACTCAGGCGTGATGGTTATCCAACgtatttatactctatacagtctctttctgttttctaatttatcttgtaaaatctttctttaaaagggagtcttaagcttagtttctaatttgttaggcaaatggattaattgcttcttgctccattacag

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