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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agatggatttaggtggaggttgttgcaaagtttcattactattacaaaagttctatagttaattgttaactcccaacctttattatcacctgcatttcagGTGTGTGGACCCCCGGGTATGATGAAAGCAATATCTGGAGAAAAGGCCAAGGACTGGACACAAGGAGAG

Basic information

species Glycine max
transcript GLYMA17G12530.1
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|11414158|gb|BF426169.1|BF426169
EST:     TGGTG-TTGTGAAAGGCTTACCCAGTCCTAATGATGATACTCTTATACTT                         GTGTGTGGACCC
genomic: TG-TGGTTGTGAAAGGCTTACCCAGTCCTAGTGATGATACTCTAATACTTgtgagttttg ... tgcatttcagGTGTGTGGACCC
EST: gi|208246950|gb|GE043540.1|GE043540
EST:     ATGTGGTTGTGAAAGGCTTACCCAGTCCTAGTGATGATACTCTAATACTT                         GTGTGTGGACCCCCGGGTATGATGA
genomic: ATGTGGTTGTGAAAGGCTTACCCAGTCCTAGTGATGATACTCTAATACTTgtgagttttg ... tgcatttcagGTGTGTGGACCCCCGGGTATGATGA
EST: gi|13790600|gb|BG653191.1|BG653191
EST:     ATGTGGTTGTGAAAGGCTTACCCAGTCCTAGTGATGATACTCTAATACTT                         GTGTGTGGACCCCCGGGTATGATGAAAGCAATATCTGGAGAAAAGGCCAAG
genomic: ATGTGGTTGTGAAAGGCTTACCCAGTCCTAGTGATGATACTCTAATACTTgtgagttttg ... tgcatttcagGTGTGTGGACCCCCGGGTATGATGAAAGCAATATCTGGAGAAAAGGCCAAG
EST: gi|254335318|gb|GR846815.1|GR846815
EST:     ATGTGGTTGTGAAAGGCTTACCCAGTCCTAGTGATGATACTCTAATACTT                         GTGTGTGGACCCCCGGGTATGATGAAAGCAATATCTGGAGAAAAGGCCAAG
genomic: ATGTGGTTGTGAAAGGCTTACCCAGTCCTAGTGATGATACTCTAATACTTgtgagttttg ... tgcatttcagGTGTGTGGACCCCCGGGTATGATGAAAGCAATATCTGGAGAAAAGGCCAAG
EST: gi|209717394|gb|BW659070.1|BW659070
EST:     ATGTGGTTGTGAAAGGCTTACCCAGTCCTAGTGATGATACTCTAATACTT                         GTGTGTGGACCCCCGGGTATGATGAAAGCAATATCTGGAGAAAAGGCCAAG
genomic: ATGTGGTTGTGAAAGGCTTACCCAGTCCTAGTGATGATACTCTAATACTTgtgagttttg ... tgcatttcagGTGTGTGGACCCCCGGGTATGATGAAAGCAATATCTGGAGAAAAGGCCAAG
EST: gi|208141669|gb|GD939525.1|GD939525
EST:     ATGTGGCTGTGAAAGGCTTACCCAGTCCTAGTGATGATACTCTAATACTT                         GTGTGTGGACCCCCGGGTATGATGAAAGCAATATCTGGAGAAAAGGCCAAG
genomic: ATGTGGTTGTGAAAGGCTTACCCAGTCCTAGTGATGATACTCTAATACTTgtgagttttg ... tgcatttcagGTGTGTGGACCCCCGGGTATGATGAAAGCAATATCTGGAGAAAAGGCCAAG
EST: gi|214009286|gb|DB989918.1|DB989918
EST:     ATGTGGTTGTGAAAGGCTTACCCAGTCCTAGTGATGATACTCTAATACTT                         GTGTGTGGACCCCCGGGTATGATGAAAGCAATATCTGGAGAAAAGGCCAAG
genomic: ATGTGGTTGTGAAAGGCTTACCCAGTCCTAGTGATGATACTCTAATACTTgtgagttttg ... tgcatttcagGTGTGTGGACCCCCGGGTATGATGAAAGCAATATCTGGAGAAAAGGCCAAG
EST: gi|6071914|gb|AW101301.1|AW101301
EST:     ATGTG-TTGTGAAAGGCTTACCCAGTCCTAGTGATGATACTCTAATACTT                         G-GTGTGGACCCCCGG-TATGATGAAAGCAATATCTGGAGAAA
genomic: ATGTGGTTGTGAAAGGCTTACCCAGTCCTAGTGATGATACTCTAATACTTgtgagttttg ... tgcatttcagGTGTGTGGACCCCCGGGTATGATGAAAGCAATATCTGGAGAAA
EST: gi|16343984|gb|BI969579.1|BI969579
EST:     ATGTGGTTGTGAAAGGCTTACCCAGTCCTAGTGATGATACTCTAATACTT                         GTGTGTGGACCCCCGGGTATGATGAAAGCAATATCTGGAGAAAAGGCCAAG
genomic: ATGTGGTTGTGAAAGGCTTACCCAGTCCTAGTGATGATACTCTAATACTTgtgagttttg ... tgcatttcagGTGTGTGGACCCCCGGGTATGATGAAAGCAATATCTGGAGAAAAGGCCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaagttctatagttaattgttaactcccaacctttattatcacctgcatttcagGTGTGTGGACCCCCGGGTATGATGAAAGCAATATCTGGAGAAAAGGCCAAGGACTGGACACAAGGAGAG
                  tgttaac  putative branch site (score: 2)
        tatagttaattgttaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
agatggatttaggtggaggttgttgcaaagtttcattactattacaaaagttctatagttaattgttaactcccaacctttattatcacctgcatttcagGTGTGTGGACCCCCGGGTATGATGAAAGCAATATCTGGAGAAAAGGCCAAGGACTGGACACAAGGAGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - -ggtggag
- - - - - - - - - - tgttgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctcccaa