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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagtcaattatctgtagtatattaaataccccttatgatttttggagccatatttactacacaataatacattcttattgacttcttgtttgcttcatgcattttacgactaaacagATTGAGAGGGAAGGAAAAGATGTGACTATTACAGCCTATTCGAAAATGGTTGGCTTTGCTCTCAAG

Basic information

species Glycine max
transcript GLYMA02G46380.2
intron # 9
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|7041702|gb|AW471543.1|AW471543
EST:     CGGCCGAAGTTCTTGATTCCAGTTTTTGCCTTCCCATAGGAAAAGCAAAG                         ATTGAGAGGGAAGGAAAAGATGTGACTATTACAGCCTATTCGAAAATGGTT
genomic: CGGCCGAAGTTCTTGATTCCAGTTTTTGCCTTCCCATAGGAAAAGCAAAGgtagtcaatt ... gactaaacagATTGAGAGGGAAGGAAAAGATGTGACTATTACAGCCTATTCGAAAATGGTT
EST: gi|7028855|gb|AW458638.1|AW458638
EST:     CGGCCGAAGTTCTTGATTCCAGTTTTTGCCTTCCCATAGGAAAAGCAAAG                         ATTGAGAGGGAAGGAAAAGATGTGACTATTACAGCCTATTCGAAAATGGTT
genomic: CGGCCGAAGTTCTTGATTCCAGTTTTTGCCTTCCCATAGGAAAAGCAAAGgtagtcaatt ... gactaaacagATTGAGAGGGAAGGAAAAGATGTGACTATTACAGCCTATTCGAAAATGGTT
EST: gi|11273897|gb|BF324286.1|BF324286
EST:     CGGCCGAAGTTCTTGATTCCAGTTTTTGCCTTCCCATAGGAAAAGCAAAG                         ATTGAGAGGGAAGGAAAAGATGTGACTATTACAGCCTATTCGAAAATGGTT
genomic: CGGCCGAAGTTCTTGATTCCAGTTTTTGCCTTCCCATAGGAAAAGCAAAGgtagtcaatt ... gactaaacagATTGAGAGGGAAGGAAAAGATGTGACTATTACAGCCTATTCGAAAATGGTT
EST: gi|21887778|gb|BQ740991.1|BQ740991
EST:     CGGCCGAAGTTCTTGATTCCAGTTTTTGCCTTCCCATAGGAAAAGCAAAG                         ATTGAGAGGGAAGGAAAAGATGTGACTATTACAGCCTATTCGAAAATGGTT
genomic: CGGCCGAAGTTCTTGATTCCAGTTTTTGCCTTCCCATAGGAAAAGCAAAGgtagtcaatt ... gactaaacagATTGAGAGGGAAGGAAAAGATGTGACTATTACAGCCTATTCGAAAATGGTT
EST: gi|192295237|gb|FG986956.1|FG986956
EST:     CGGCCGAAGTTCTTGATTCCAGTTTTTGCCTTCCCATAG-AAAAGCAAAG                         ATTGAGAGGGAAGGAAAAGATGTGACTATTACAGCCTATT
genomic: CGGCCGAAGTTCTTGATTCCAGTTTTTGCCTTCCCATAGGAAAAGCAAAGgtagtcaatt ... gactaaacagATTGAGAGGGAAGGAAAAGATGTGACTATTACAGCCTATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aataatacattcttattgacttcttgtttgcttcatgcattttacgactaaacagATTGAGAGGGAAGGAAAAGATGTGACTATTACAGCCTATTCGAAAATGGTTGGCTTTGCTCTCAAG
             tattgac  putative branch site (score: 2)
        attcttatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtagtcaattatctgtagtatattaaataccccttatgatttttggagccatatttactacacaataatacattcttattgacttcttgtttgcttcatgcattttacgactaaacagATTGAGAGGGAAGGAAAAGATGTGACTATTACAGCCTATTCGAAAATGGTTGGCTTTGCTCTCAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG