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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

taagttctctaagcgccacataatgttttggtgattagctattactaacactcatgatattttctttctcgtttctctaatttgaatctatgttcatttctttgtcgggtcatagaTGGATTTGGTGAGAAGGGGAAGCCAGAACAAGGGGATGAAGGTGCAGTTCCACCAAATGCAACATTGCAGATTACTCTTGAATTAGTTTCATGGAAAACT

Basic information

species Glycine max
transcript GLYMA18G32830.1
intron # 5
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|208257379|gb|GE056234.1|GE056234
EST:     AAAACCATGAAGAAGGGAGAGAAAGTGCTTTTGACAGTTAAGCCACAATA                         TGGATTTGGTGAGAAGGGGAAGCCAGAACAAGGTGATGAAGGTGCAGTTCC
genomic: AAAACCATGAAGAAGGGAGAGAAAGTGCTTTTGACAGTTAAGCCACAATGtaagttctct ... gggtcatagaTGGATTTGGTGAGAAGGGGAAGCCAGAACAAGGGGATGAAGGTGCAGTTCC
EST: gi|298183231|gb|HO028216.1|HO028216
EST:     AAAACCATGAAGAAGGGAGAGAAAGTGCTTTTGACAGTTAAGCCACAATA                         TGGATTTGGTGAGAAGGGGAAGCCAGAACAAGGGGATGAAGGTGCAGTTCC
genomic: AAAACCATGAAGAAGGGAGAGAAAGTGCTTTTGACAGTTAAGCCACAATGtaagttctct ... gggtcatagaTGGATTTGGTGAGAAGGGGAAGCCAGAACAAGGGGATGAAGGTGCAGTTCC
EST: gi|192334305|gb|FK024404.1|FK024404
EST:     AAAACCATGAAGAAGGGAGAGAAAGTGCTTTTGACAGTTAAGCCACAATA                         TGGATTTGGTGAGAAGGGGAAGCCAGAACAAGGGGATGAAGGTGCAGTTCC
genomic: AAAACCATGAAGAAGGGAGAGAAAGTGCTTTTGACAGTTAAGCCACAATGtaagttctct ... gggtcatagaTGGATTTGGTGAGAAGGGGAAGCCAGAACAAGGGGATGAAGGTGCAGTTCC
EST: gi|207740415|gb|GD715235.1|GD715235
EST:     AAAACCATGAAGAAGGGAGAGAAAGTGCTTTTGACAGTTAAGCCACAATA                         TGGATTTGGTGAGAAGGGGAAGCCAGAACAAGGGGATGAAGGTGCAGTTCC
genomic: AAAACCATGAAGAAGGGAGAGAAAGTGCTTTTGACAGTTAAGCCACAATGtaagttctct ... gggtcatagaTGGATTTGGTGAGAAGGGGAAGCCAGAACAAGGGGATGAAGGTGCAGTTCC
EST: gi|208097536|gb|GD891311.1|GD891311
EST:     AAAACCATGAAGAAGGGAGAGAAAGTGCTTTTGACAGTTAAGCCACAATA                         TGGATTTGGTGAGAAGGGGAAGCCAGAACAAGGGGATGAAGGTGCAGTTCC
genomic: AAAACCATGAAGAAGGGAGAGAAAGTGCTTTTGACAGTTAAGCCACAATGtaagttctct ... gggtcatagaTGGATTTGGTGAGAAGGGGAAGCCAGAACAAGGGGATGAAGGTGCAGTTCC
EST: gi|208187945|gb|GD980991.1|GD980991
EST:     AAAACCATGAAGAAGGGAGAGAAAGTGCTTTTGACAGTTAAGCCACAATA                         TGGATTTGGTGAGAAGGGGAAGCCAGAACAAGGGGATGAAGGTGCAGTTCC
genomic: AAAACCATGAAGAAGGGAGAGAAAGTGCTTTTGACAGTTAAGCCACAATGtaagttctct ... gggtcatagaTGGATTTGGTGAGAAGGGGAAGCCAGAACAAGGGGATGAAGGTGCAGTTCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctttctcgtttctctaatttgaatctatgttcatttctttgtcgggtcatagaTGGATTTGGTGAGAAGGGGAAGCCAGAACAAGGGGATGAAGGTGCAGTTCCACCAAATGCAACATTGCAGATTACTCTTGAATTAGTTTCATGGAAAACT
             ctctaat  putative branch site (score: 3)
 taatttgaatctat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
taagttctctaagcgccacataatgttttggtgattagctattactaacactcatgatattttctttctcgtttctctaatttgaatctatgttcatttctttgtcgggtcatagaTGGATTTGGTGAGAAGGGGAAGCCAGAACAAGGGGATGAAGGTGCAGTTCCACCAAATGCAACATTGCAGATTACTCTTGAATTAGTTTCATGGAAAACT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA