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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgcattttctgatcgtacatggaatttgttctcaaagattttgcatgttagcttgagaattatacctatatgtgtccgtatttaatcttttggattgcagATTCCATTTTCATCCATCAATGGCTCCAGTAGCAGCAGCATCTTCAGATTCAATCAAGCCAAGAG

Basic information

species Glycine max
transcript GLYMA02G47860.1
intron # 1
splice site 3'
intron type U2

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|193682308|gb|FK623000.1|FK623000
EST:     ATTCTTCACTTGTCCTTGGTTTTGGAACGACGACAGCCGAGCTATCTCTC                         ATTCCATTTTCATCCATCAATGGCTCCAGTAGCAGCAG
genomic: ATTCTTCACTTGTCCTTGGTTTTGGAACGACGACAGCCGAGCTATCTCTCgtaagcttct ... tggattgcagATTCCATTTTCATCCATCAATGGCTCCAGTAGCAGCAG
EST: gi|208133711|gb|GD928340.1|GD928340
EST:     ATTCTTCGCTTGTCCTTGGTTTTGGAACGACGACAGCCGAGCTATCTCTC                         ATTCCATTTTCATCCATCAATGGCTCCAGTAGCAGCAGCATCTTCAGATTC
genomic: ATTCTTCACTTGTCCTTGGTTTTGGAACGACGACAGCCGAGCTATCTCTCgtaagcttct ... tggattgcagATTCCATTTTCATCCATCAATGGCTCCAGTAGCAGCAGCATCTTCAGATTC
EST: gi|193315220|gb|FK282616.1|FK282616
EST:     ATTCTTCACTTGTCCTTGGTTTTGGAACGACGACAGCCGAGCTATCTCTC                         ATTCCATTTTTCATCCATCAATGGCTCCAGTAGCAGCAGCATCTTCAGATT
genomic: ATTCTTCACTTGTCCTTGGTTTTGGAACGACGACAGCCGAGCTATCTCTCgtaagcttct ... tggattgcagATTCCATTTT-CATCCATCAATGGCTCCAGTAGCAGCAGCATCTTCAGATT
EST: gi|298197389|gb|HO044868.1|HO044868
EST:     ATTCTTCACTTGTCCTTGGTTTTGGAACGACGACAGCCGAGCTATCTCTC                         ATTCCATTTTCATCCATCAATGGCTCCAGTAGCAGCAGCATCTTCAGATTC
genomic: ATTCTTCACTTGTCCTTGGTTTTGGAACGACGACAGCCGAGCTATCTCTCgtaagcttct ... tggattgcagATTCCATTTTCATCCATCAATGGCTCCAGTAGCAGCAGCATCTTCAGATTC
EST: gi|193306951|gb|FK268803.1|FK268803
EST:     ATTCTTCACTTGTCCTTGGTTTTGGAACGACGACAGCCGAGCTATCTCTC                         ATTCCATTTTCATCCATCAATGGCTCCAGTAGCAGCAGCATCTTCAGATTC
genomic: ATTCTTCACTTGTCCTTGGTTTTGGAACGACGACAGCCGAGCTATCTCTCgtaagcttct ... tggattgcagATTCCATTTTCATCCATCAATGGCTCCAGTAGCAGCAGCATCTTCAGATTC
EST: gi|193376725|gb|FK340920.1|FK340920
EST:     ATTCTTCACTTGTCCTTGGTTTTGGAACGACGACAGCCGAGCTATCTCTC                         ATTCCATTTTCATCCATCAATGGCTCCAGTAGCAGCAGCATCTTCAGATTC
genomic: ATTCTTCACTTGTCCTTGGTTTTGGAACGACGACAGCCGAGCTATCTCTCgtaagcttct ... tggattgcagATTCCATTTTCATCCATCAATGGCTCCAGTAGCAGCAGCATCTTCAGATTC
EST: gi|207793311|gb|GD765595.1|GD765595
EST:     ATTCTTCACTTGTCCTTGGTTTTGGAACGACGACAGCCGAGCTATCTCTC                         ATTCCATTTTCATCCATCAATGGCTCCAGTAGCAGCAGCATCTTCAGATTC
genomic: ATTCTTCACTTGTCCTTGGTTTTGGAACGACGACAGCCGAGCTATCTCTCgtaagcttct ... tggattgcagATTCCATTTTCATCCATCAATGGCTCCAGTAGCAGCAGCATCTTCAGATTC
EST: gi|193307600|gb|FK270628.1|FK270628
EST:     ATTCTTCACTTGTCCTTGGTTTTGGAACGACGACAGCCGAGCTATCTCTC                         ATTCCATTTTCATCCATCAATGGCTCCAGTAGCAGCAGCATCTTCAGATTC
genomic: ATTCTTCACTTGTCCTTGGTTTTGGAACGACGACAGCCGAGCTATCTCTCgtaagcttct ... tggattgcagATTCCATTTTCATCCATCAATGGCTCCAGTAGCAGCAGCATCTTCAGATTC
EST: gi|193369201|gb|FK337093.1|FK337093
EST:     ATTCTTCACTTGTCCTTGGTTTTGGAACGACGACAGCCGAGCTATCTCTC                         ATTCCATTTTCATCCATCAATGGCTCCAGTAGCAGCAGCATCTTCAGATTC
genomic: ATTCTTCACTTGTCCTTGGTTTTGGAACGACGACAGCCGAGCTATCTCTCgtaagcttct ... tggattgcagATTCCATTTTCATCCATCAATGGCTCCAGTAGCAGCAGCATCTTCAGATTC
EST: gi|208032921|gb|GD829978.1|GD829978
EST:     ATTCTTCACTTGTCCTTGGTTTTGGAACGACGACAGCCGAGCTATCTCTC                         ATTCCATTTTCATCCATCAATGGCTCCAGTAGCAGCAGCATCTTCAGATTC
genomic: ATTCTTCACTTGTCCTTGGTTTTGGAACGACGACAGCCGAGCTATCTCTCgtaagcttct ... tggattgcagATTCCATTTTCATCCATCAATGGCTCCAGTAGCAGCAGCATCTTCAGATTC
EST: gi|298168588|gb|HO009518.1|HO009518
EST:     ATTCTTCACTTGTCCTTGGTTTTGGAACGACGACAGCCGAGCTATCTCTC                         ATTCCATTTTCATCCATCAATGGCTCCAGTAGCAGCAGCATCTTCAGATTC
genomic: ATTCTTCACTTGTCCTTGGTTTTGGAACGACGACAGCCGAGCTATCTCTCgtaagcttct ... tggattgcagATTCCATTTTCATCCATCAATGGCTCCAGTAGCAGCAGCATCTTCAGATTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttagcttgagaattatacctatatgtgtccgtatttaatcttttggattgcagATTCCATTTTCATCCATCAATGGCTCCAGTAGCAGCAGCATCTTCAGATTCAATCAAGCCAAGAG
                                  atttaat  putative branch site (score: 4)
                                        tctttt  CT-rich tract
                                 tatttaatctttt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgcattttctgatcgtacatggaatttgttctcaaagattttgcatgttagcttgagaattatacctatatgtgtccgtatttaatcttttggattgcagATTCCATTTTCATCCATCAATGGCTCCAGTAGCAGCAGCATCTTCAGATTCAATCAAGCCAAGAG

tgcattt
- - - - - - - - -catggaa
- - - - - - - - - - - - - - - - - - - - - gcatgtt
- - - - - - - - - - - - - - - - - - - - - - - - - gcttgag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtgtcc