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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttttcttcttgtcgctttgaattttatatgtacaatattaggattggatttgctatgattttctatgaacttattaacaaatcgaattggtcttttgcagCTTTGCCCCATATGTCTGACCAATTCAAAAGACATGGCCTTCGGATGTGGACATCAG

Basic information

species Glycine max
transcript GLYMA19G07140.1
intron # 11
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|58016327|gb|CX703069.1|CX703069
EST:     ACCCTGTTGGCACAGCTCCTCCTGCCCCAAGTTCCTCATATGACAATCAG                         CTTTGCCCCATATGTCTGACCAATTCAAAAGACATGGCCTTCGGATGTGGA
genomic: ACCCTGTTGGCACAGCTCCTCCTGCCCCAAGTTCCTCATATGACAATCAGgtacaacccc ... tcttttgcagCTTTGCCCCATATGTCTGACCAATTCAAAAGACATGGCCTTCGGATGTGGA
EST: gi|19270006|gb|BM886262.1|BM886262
EST:     ACCCTGTTGGCACAGCTCCTCCTGCCCCAAGTTCCTCATATGACAATCAG                         CTTTGCCCCATATGTCTGACCAATTCAAAAGACATGGCCTTCGGATGTGGA
genomic: ACCCTGTTGGCACAGCTCCTCCTGCCCCAAGTTCCTCATATGACAATCAGgtacaacccc ... tcttttgcagCTTTGCCCCATATGTCTGACCAATTCAAAAGACATGGCCTTCGGATGTGGA
EST: gi|208294560|gb|GE089983.1|GE089983
EST:     ACCCTGTTGGCACAGCTCCTCCTGCCCCAAGTTCCTCATATGACAATCAG                         CTTTGCCCCATATGTCTGACCAATTCAAAAGACATGGCCTTCGGATGTGGA
genomic: ACCCTGTTGGCACAGCTCCTCCTGCCCCAAGTTCCTCATATGACAATCAGgtacaacccc ... tcttttgcagCTTTGCCCCATATGTCTGACCAATTCAAAAGACATGGCCTTCGGATGTGGA
EST: gi|58022723|gb|CX709464.1|CX709464
EST:     ACCCTGTTGGCACAGCTCCTCCTGCCCCAAGTTCCTCATATGACAATCAG                         CTTTGCCCCATATGTCTGACCAATTCAAAAGACATGGCCTTCGGATGTGGA
genomic: ACCCTGTTGGCACAGCTCCTCCTGCCCCAAGTTCCTCATATGACAATCAGgtacaacccc ... tcttttgcagCTTTGCCCCATATGTCTGACCAATTCAAAAGACATGGCCTTCGGATGTGGA
EST: gi|10846396|gb|BF069304.1|BF069304
EST:     ACCCTGTTGGCACAGCTCCTCCTGCCCCAAGTTCCTCATATGACAATCAG                         CTGTGCCCCATATGTCTGACCAATTCAAAAGACATGGCCT
genomic: ACCCTGTTGGCACAGCTCCTCCTGCCCCAAGTTCCTCATATGACAATCAGgtacaacccc ... tcttttgcagCTTTGCCCCATATGTCTGACCAATTCAAAAGACATGGCCT
EST: gi|51334738|gb|CO978604.1|CO978604
EST:     ACCCTGTTGGCACAGCTCCTNNNGCCCCAAGTTCCTCATATGACAATCAG                         CTTTGCCCCATATGTCTGACCAATTCAAAAGACATGGCCTTCGGATGTGGA
genomic: ACCCTGTTGGCACAGCTCCTCCTGCCCCAAGTTCCTCATATGACAATCAGgtacaacccc ... tcttttgcagCTTTGCCCCATATGTCTGACCAATTCAAAAGACATGGCCTTCGGATGTGGA
EST: gi|6566921|gb|AW234553.1|AW234553
EST:     ACCCTGTTGGCACAGCTCCTCCTGCCCCAAGTTCCTCATATGACAATCAG                         CTGTGCCCCATATGTCTGACCAATTCAAAAGACATGGCCTTCGGATGTGGA
genomic: ACCCTGTTGGCACAGCTCCTCCTGCCCCAAGTTCCTCATATGACAATCAGgtacaacccc ... tcttttgcagCTTTGCCCCATATGTCTGACCAATTCAAAAGACATGGCCTTCGGATGTGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggatttgctatgattttctatgaacttattaacaaatcgaattggtcttttgcagCTTTGCCCCATATGTCTGACCAATTCAAAAGACATGGCCTTCGGATGTGGACATCAG
                          tattaac  putative branch site (score: 1)
                                             tcttttgc  putative PPT
                      aacttattaacaaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttttcttcttgtcgctttgaattttatatgtacaatattaggattggatttgctatgattttctatgaacttattaacaaatcgaattggtcttttgcagCTTTGCCCCATATGTCTGACCAATTCAAAAGACATGGCCTTCGGATGTGGACATCAG

- - cttcttg
- - - - - - - - - - - - - tatgtac
- - - - - - - - - - - - - - - - - - - - - - - - - tgctatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aacaaatc