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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACCTTCACGGAAGCAAGTGGTTGTGGTTGGTGAAAGGACTTCTGGGGACTTTGAAAACATGCTTGCTGCAGCTCATGCATTATATGATCCCAACAGAACAgtaatcatacttactctttataaagttgatatctgcaatttccttatgattgtcatcaataacatttgtgctggtgttgatcgtag

Basic information

species Glycine max
transcript GLYMA19G39560.1
intron # 14
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G39560.1 (Glycine max), 5'ss of exon 14
lower sequence: Vv07s0104g01480.t01 (Vitis vinifera), 5'ss of exon 14
ACCTTCACGGAAGCAAGTGGTTGTGGTTGGTGAAAGGACTTCTGGGGACTTTGAAAACATGCTTGCTGCAGCTCATGCATTATATGATCCCAACAGAACAgtaatcatacttactctttataaagttgatat--ctgcaatttccttatgattgtcatcaataa----------catttgtgctggtgttgatcgtag
 |||||  | |||||||| ||  | |||||| | |   ||||||  || |||||| | ||||||||||| |||||||||  ||||||||| |||||||| || |    |      || | |  ||   |||   |||    ||| ||||  ||      |||            | ||||||||| |  | ||   ||
TCCTTCCAGAAAGCAAGTTGTCCTAGTTGGTCATAAATCTTCTGTAGAGTTTGAAGATATGCTTGCTGCTGCTCATGCACAATATGATCCTAACAGAACTgtgagttcaagactcctatctcgagcccatagaactgtctgttctttatcttttctgctaatccatatgtttctcttttgtgctgctaataatgacag
















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|207761857|gb|GD732478.1|GD732478
EST:     TTGAAAACNTGCTTGCTGCAGCTCATGCATTATATGATCCCAANAGAACA                         GTTATTCATATAGATCCCAACAACAAAGGAGAGATGGGATTTTGG
genomic: TTGAAAACATGCTTGCTGCAGCTCATGCATTATATGATCCCAACAGAACAgtaatcatac ... ttgatcgtagGTTATTCATATAGATCCCAACAACAAAGAAGAGATGGGATTTTGG
EST: gi|6666945|gb|AW278404.1|AW278404
EST:     TTGAAAACATGCTTGCTGCAGCTCATGCATTATATGATCCCAACAGAACA                         GTTATTCATATAGATCCCAACAACAAAGAAGAGATGGGATTTTGGGAAGTA
genomic: TTGAAAACATGCTTGCTGCAGCTCATGCATTATATGATCCCAACAGAACAgtaatcatac ... ttgatcgtagGTTATTCATATAGATCCCAACAACAAAGAAGAGATGGGATTTTGGGAAGTA
EST: gi|22522561|gb|BU081372.1|BU081372
EST:     TTGAAAACATGCTTGCTGCAGCTCATGCATTATATGATCCCAACAGAACA                         GTTATTCATATAGATCCCAACAACAAAGAAGAGATGGGATTTTGGGAAGTA
genomic: TTGAAAACATGCTTGCTGCAGCTCATGCATTATATGATCCCAACAGAACAgtaatcatac ... ttgatcgtagGTTATTCATATAGATCCCAACAACAAAGAAGAGATGGGATTTTGGGAAGTA
EST: gi|6482954|gb|AW202220.1|AW202220
EST:     TGAAA-CATGCTTGCTTGCA-CTCATGCATTATATGATCCCCACAGAACA                         GTTATTCATATAGATCCCAACACCAAAGAGGAGATGGGATTTTGGGAA
genomic: -GAAAACATGCTTGCT-GCAGCTCATGCATTATATGATCCCAACAGAACAgtaatcatac ... ttgatcgtagGTTATTCATATAGATCCCAACAACAAAGAAGAGATGGGATTTTGGGAA
EST: gi|14125998|gb|BG790436.1|BG790436
EST:     TTGAAAACATGCTCGCTGCAGCTCATGCATTATATGATCCCAACAGAACA                         GTTATTCATATAGATCCCAACAACAAAGAAGAGATGGGATTTTGGGAAGTA
genomic: TTGAAAACATGCTTGCTGCAGCTCATGCATTATATGATCCCAACAGAACAgtaatcatac ... ttgatcgtagGTTATTCATATAGATCCCAACAACAAAGAAGAGATGGGATTTTGGGAAGTA
EST: gi|22933940|gb|BU551079.1|BU551079
EST:     TTGAAAACATGCTTGCTGCAGCTCATGCATTATATGATCCCAACAGAACA                         GTTATTCATATAGATCCCAACAACAAAGAAGAGATGGGATTTTGGGAAGTA
genomic: TTGAAAACATGCTTGCTGCAGCTCATGCATTATATGATCCCAACAGAACAgtaatcatac ... ttgatcgtagGTTATTCATATAGATCCCAACAACAAAGAAGAGATGGGATTTTGGGAAGTA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACCTTCACGGAAGCAAGTGGTTGTGGTTGGTGAAAGGACTTCTGGGGACTTTGAAAACATGCTTGCTGCAGCTCATGCATTATATGATCCCAACAGAACAgtaatcatacttactctttataaagttgatatctgcaatttccttatgattgtcatcaataacatttgtgctggtgttgatcgtag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTCA