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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...taattttaaagttgcaagcttttttcttcttaaaaaaaattaaaattgcaagctttcaaagagtaagaatttcacaatgaattttgctgtgctgttccagGGAAATCCTCCTTTTTATTCAGAATTGTAAGGAAGGATGTGCGTAGGGTGCAGCAAAGGCTGAGATGGCTCATTCTTTTTTTTCCTCTCCTTATATTTCA

Basic information

species Glycine max
transcript GLYMA04G32540.1
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|209724398|gb|BW666660.1|BW666660
EST:     TTGTGTATGATAGTGATGAGGACTGAACTTCCTTAAGCCAGATTTTCATG                         GGAAATCCTCCTTTTTATTCAGAATTGTAAGGAAGGATGTGCGTAGGGTGC
genomic: TTGTGTATGATAGTGATGAGGACTGAACTTCCTTAAGCCAGATTTTCATGgtgagtagtc ... gctgttccagGGAAATCCTCCTTTTTATTCAGAATTGTAAGGAAGGATGTGCGTAGGGTGC
EST: gi|5820399|gb|AI988605.1|AI988605
EST:     TTGTGTATGATAGTGATGAGGACTGAACTTCCTTAAGCCAGATTTTCATG                         GGAAATCCTCCTTTTTATTCAGAATTGTAAGGAAGGATGTGCGTAGGGTGC
genomic: TTGTGTATGATAGTGATGAGGACTGAACTTCCTTAAGCCAGATTTTCATGgtgagtagtc ... gctgttccagGGAAATCCTCCTTTTTATTCAGAATTGTAAGGAAGGATGTGCGTAGGGTGC
EST: gi|120495484|gb|EH223651.1|EH223651
EST:     TTGTGTATGATAGTGATGAGGACTGAACTTCCTTAAGCCAGATTTTCATG                         GGAAATCCTCCTTTTTATTCAGAATTGTAAGGAAGGATGTGCGTAGGGTGC
genomic: TTGTGTATGATAGTGATGAGGACTGAACTTCCTTAAGCCAGATTTTCATGgtgagtagtc ... gctgttccagGGAAATCCTCCTTTTTATTCAGAATTGTAAGGAAGGATGTGCGTAGGGTGC
EST: gi|31475866|gb|CD417894.1|CD417894
EST:     TTGTGTATGATAGTGATGAGGACTGAACTTCCTTAAGCCAGATTTTCATG                         GGAAATCCTCCTTTTTATTCAGAATTGTAAGGAAGGATGTGCGTAGGGTGC
genomic: TTGTGTATGATAGTGATGAGGACTGAACTTCCTTAAGCCAGATTTTCATGgtgagtagtc ... gctgttccagGGAAATCCTCCTTTTTATTCAGAATTGTAAGGAAGGATGTGCGTAGGGTGC
EST: gi|26058928|gb|CA801842.1|CA801842
EST:     TTGTGTATGATAGTGATGAGGACTGAACTTCCTTAAGCCAGATTTTCATG                         GGAAATCCTCCTTTTTATTCAGAATTGTAAGGAAGGATGTGCGTAGGGTGC
genomic: TTGTGTATGATAGTGATGAGGACTGAACTTCCTTAAGCCAGATTTTCATGgtgagtagtc ... gctgttccagGGAAATCCTCCTTTTTATTCAGAATTGTAAGGAAGGATGTGCGTAGGGTGC
EST: gi|7690967|gb|AW759102.1|AW759102
EST:     TTGTGTATGATAGTGATGAGGACTGAACTTCCTTAAGCCAGATTTTCATG                         GGAAATCCTCCTTTTTATTCAGAATTGTAAGGAAGGATGTGCGTAGGGTGC
genomic: TTGTGTATGATAGTGATGAGGACTGAACTTCCTTAAGCCAGATTTTCATGgtgagtagtc ... gctgttccagGGAAATCCTCCTTTTTATTCAGAATTGTAAGGAAGGATGTGCGTAGGGTGC
EST: gi|7692650|gb|AW760751.1|AW760751
EST:     TTGTGTATGATAGTGATGAGGACTGAACTTCCTTAAGCCAGATTTTCATG                         GGAAATCCTCCTTTTTATTCAGAATTGTAAGGAAGGATGTGCGTAGGGTGC
genomic: TTGTGTATGATAGTGATGAGGACTGAACTTCCTTAAGCCAGATTTTCATGgtgagtagtc ... gctgttccagGGAAATCCTCCTTTTTATTCAGAATTGTAAGGAAGGATGTGCGTAGGGTGC
EST: gi|6667143|gb|AW278602.1|AW278602
EST:     TTGTGTATGATAGTGATGAGGACTGAACTTCCTTAAGCCAGATTTTCATG                         GGAAATCCTCCTTTTTATTCAGAATTGTAAGGAAGGATGTGCGTAGGGTGC
genomic: TTGTGTATGATAGTGATGAGGACTGAACTTCCTTAAGCCAGATTTTCATGgtgagtagtc ... gctgttccagGGAAATCCTCCTTTTTATTCAGAATTGTAAGGAAGGATGTGCGTAGGGTGC
EST: gi|37996419|gb|CF808008.1|CF808008
EST:     TTGTGTATGATAGTGATGAGGACTGAACTTCCTTAAGCCAGATTTTCATG                         GGAAATCCTCCTTTTTATTCAGAATTGTAAGGAAGGATGTGCGTAGGGTGC
genomic: TTGTGTATGATAGTGATGAGGACTGAACTTCCTTAAGCCAGATTTTCATGgtgagtagtc ... gctgttccagGGAAATCCTCCTTTTTATTCAGAATTGTAAGGAAGGATGTGCGTAGGGTGC
EST: gi|23728996|gb|BU762574.1|BU762574
EST:     TTGTGTATGATAGTGATGAGGACTGAACTTCCTTAAGCCAGATTTTCATG                         GGAAATCCTCCTTTTTATTCAGAATTGTAAGGAAGGATGTGCGTAGGGTGC
genomic: TTGTGTATGATAGTGATGAGGACTGAACTTCCTTAAGCCAGATTTTCATGgtgagtagtc ... gctgttccagGGAAATCCTCCTTTTTATTCAGAATTGTAAGGAAGGATGTGCGTAGGGTGC
EST: gi|16346622|gb|BI972217.1|BI972217
EST:     TTGTGTATGATAGTGATGAGGACTGAACTTCCTTAAGCCAGATTTTCATG                         GGAAATCCTCCTTTTTATTCAGAATTGTAAGGAAGGATGTGCGTAGGGTGC
genomic: TTGTGTATGATAGTGATGAGGACTGAACTTCCTTAAGCCAGATTTTCATGgtgagtagtc ... gctgttccagGGAAATCCTCCTTTTTATTCAGAATTGTAAGGAAGGATGTGCGTAGGGTGC
EST: gi|15199583|gb|BI423905.1|BI423905
EST:     TTGTGTATGATAGTGATGAGGACTGAACTTCCTTAAGCCAGATTTTCATG                         GGAAATCCTCCTTTTTATTCAGAATTGTAAGGAAGGATGTGCGTAGGGTGC
genomic: TTGTGTATGATAGTGATGAGGACTGAACTTCCTTAAGCCAGATTTTCATGgtgagtagtc ... gctgttccagGGAAATCCTCCTTTTTATTCAGAATTGTAAGGAAGGATGTGCGTAGGGTGC
EST: gi|120496371|gb|EH224538.1|EH224538
EST:     TTGTGTATGATAGTGATGAGGACTGAACTTCCTTAAGCCAGATTTTCATG                         GGAAATCCTCCTTTTTATTCAGAATTGTAAGGAAGGATGTGCGTAGGGTGC
genomic: TTGTGTATGATAGTGATGAGGACTGAACTTCCTTAAGCCAGATTTTCATGgtgagtagtc ... gctgttccagGGAAATCCTCCTTTTTATTCAGAATTGTAAGGAAGGATGTGCGTAGGGTGC
EST: gi|31469791|gb|CD411819.1|CD411819
EST:     TTGTGTATGATAGTGATGAGGACTGAACTTCCTTAAGCCAGATTTTCATG                         GGAAATCCTCCTTTTTATTCAGAATTGTAAGGAAGGATGTGCGTAGGGTGC
genomic: TTGTGTATGATAGTGATGAGGACTGAACTTCCTTAAGCCAGATTTTCATGgtgagtagtc ... gctgttccagGGAAATCCTCCTTTTTATTCAGAATTGTAAGGAAGGATGTGCGTAGGGTGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgcaagctttcaaagagtaagaatttcacaatgaattttgctgtgctgttccagGGAAATCCTCCTTTTTATTCAGAATTGTAAGGAAGGATGTGCGTAGGGTGCAGCAAAGGCTGAGATGGCTCATTCTTTTTTTTCCTCTCCTTATATTTCA
                                              ctgttcc  CT-rich tract
                              aatgaatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
taattttaaagttgcaagcttttttcttcttaaaaaaaattaaaattgcaagctttcaaagagtaagaatttcacaatgaattttgctgtgctgttccagGGAAATCCTCCTTTTTATTCAGAATTGTAAGGAAGGATGTGCGTAGGGTGCAGCAAAGGCTGAGATGGCTCATTCTTTTTTTTCCTCTCCTTATATTTCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATG
- - - - - - tgcaagc
- - - - - - - - - - - - - - - -aaaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cacaatg