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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTTGAGGGACAGATCTCAGGAAAAAACATTGAAATTGGCATAATCGGTGCTGATAAAAAATTCAGgtgcatatctatttacttaaaatatacctagtttgcttgactctggtttctgtcatcagtagtctaattaagttgatttttgggttgtccaatctgaaat...

Basic information

species Glycine max
transcript GLYMA01G25940.1
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G25940.2 (Glycine max), 5'ss of exon 10
lower sequence: AT1G16470.1 (Arabidopsis thaliana), 5'ss of exon 11
GTTTGAGGGACAGATCTCAGGAAAAAACATTGAAATTGGCATAATCGGTGCTGATAAAAAATTCAGgtgcatatctatttacttaaaatatacctagtttgct--tgactctggtttctgtcatcagtagtcta-attaagttgatttttgggttgtccaatctgaaat
 ||||||||| |||||||| | ||||| ||||||||||||| |||||||||||| |||   ||||||| |   | |  ||    | ||   | ||  ||||||  |||   || |||   |     || ||  | | | | ||| ||||| ||  |   |||       
CTTTGAGGGAGAGATCTCAAGCAAAAATATTGAAATTGGCAAAATCGGTGCTGACAAAGTTTTCAGgtaccctttttctttgaaacaaagaatcttttttgctgctgatgatg-tttgaatagaatgttgttgatactcaattggttttttgg--gattaatgcag---
















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|120495257|gb|EH223424.1|EH223424
EST:     TCAGGAAAAAACATTGAAATTGGCATAATCGGTGCTGATAAAAAATTCAG                         GGTATTGACACCGGCCGAAATTGATGACTATTTGGCTGAAGTAGAATAATG
genomic: TCAGGAAAAAACATTGAAATTGGCATAATCGGTGCTGATAAAAAATTCAGgtgcatatct ... aatgttgcagGGTATTGACACCGGCCGAAATTGATGACTATTTGGCTGAAGTAGAATAATG
EST: gi|31560932|gb|CD486770.1|CD486770
EST:     TCAGGAAAAAACATTGAAATTGGCATAATCGGTGCTGATAAAAAATTCAG                         GGTACTTGACACCNGGCCGAAATTGATGACTATTTGGCTGAAGTAGAATAA
genomic: TCAGGAAAAAACATTGAAATTGGCATAATCGGTGCTGATAAAAAATTCAGgtgcatatct ... aatgttgcagGGTA-TTGACACC-GGCCGAAATTGATGACTATTTGGCTGAAGTAGAATAA
EST: gi|213592922|gb|DB966027.1|DB966027
EST:     TCAGGAAAAAACATTGAAATTGGCATAATCGGTGCTGATAAAAAATTCAG                         GGTATTGACACCGGCCGAAATTGATGACTATTTGGCTGAATTAGAATAATG
genomic: TCAGGAAAAAACATTGAAATTGGCATAATCGGTGCTGATAAAAAATTCAGgtgcatatct ... aatgttgcagGGTATTGACACCGGCCGAAATTGATGACTATTTGGCTGAAGTAGAATAATG
EST: gi|192309681|gb|FG999894.1|FG999894
EST:     TCAGGAAAAAACATTGAAATTGGCATAATCGGTGCTGATAAAAAATTCAG                         GGTATTGACACCGGCCGAAATTGATGACTATTTGGCTGAAGTAGAATAATG
genomic: TCAGGAAAAAACATTGAAATTGGCATAATCGGTGCTGATAAAAAATTCAGgtgcatatct ... aatgttgcagGGTATTGACACCGGCCGAAATTGATGACTATTTGGCTGAAGTAGAATAATG
EST: gi|31305572|gb|CD390775.1|CD390775
EST:     TCAGGAAAAAACATTGAAATTGGCATAATCGGTGCTGATAAAAAATTCAG                         GGTATTGACACCGGCCGAAATTGATGACTATTTGGCTGAAGTAGAATAATG
genomic: TCAGGAAAAAACATTGAAATTGGCATAATCGGTGCTGATAAAAAATTCAGgtgcatatct ... aatgttgcagGGTATTGACACCGGCCGAAATTGATGACTATTTGGCTGAAGTAGAATAATG
EST: gi|58014614|gb|CX701356.1|CX701356
EST:     TCAGGAAAAAACATTGAAATTGGCATAATCGGTGCTGATAAAAAATTCAG                         GGTATTGACACCGGCCGAAATTGATGACTATTTGGCTGAAGTAGAATAATG
genomic: TCAGGAAAAAACATTGAAATTGGCATAATCGGTGCTGATAAAAAATTCAGgtgcatatct ... aatgttgcagGGTATTGACACCGGCCGAAATTGATGACTATTTGGCTGAAGTAGAATAATG
EST: gi|192325446|gb|FK018387.1|FK018387
EST:     TCAGGAAAAAACATTGAAATTGGCATAATCGGTGCTGATAAAAAATTCAG                         GGTATTGACACCGGCCGAAATTGATGACTATTTGGCTGAAGTA
genomic: TCAGGAAAAAACATTGAAATTGGCATAATCGGTGCTGATAAAAAATTCAGgtgcatatct ... aatgttgcagGGTATTGACACCGGCCGAAATTGATGACTATTTGGCTGAAGTA
EST: gi|57575724|gb|CX548699.1|CX548699
EST:     TCAGGAAAAAACATTGAAATTGGCATAATCGGTGCTGATAAAAAATTCAG                         GGTATTGACACCGGCCGAAATTGATGACTATTTGGCTGAAGTAGAATAATG
genomic: TCAGGAAAAAACATTGAAATTGGCATAATCGGTGCTGATAAAAAATTCAGgtgcatatct ... aatgttgcagGGTATTGACACCGGCCGAAATTGATGACTATTTGGCTGAAGTAGAATAATG
EST: gi|31472270|gb|CD414298.1|CD414298
EST:     TCAGGAAAAAACATTGAAATTGGCATAATCGGTGCTGATAAAAAATTCAG                         GGTATTGACACCGGCCGAAATTGATGACTATTTGGCTGAAGTAGAATAATG
genomic: TCAGGAAAAAACATTGAAATTGGCATAATCGGTGCTGATAAAAAATTCAGgtgcatatct ... aatgttgcagGGTATTGACACCGGCCGAAATTGATGACTATTTGGCTGAAGTAGAATAATG
EST: gi|8403449|gb|BE059083.1|BE059083
EST:     TCAGGAAAAAACATTGAAATTGGCATAATCGGTGCTGATAAAAAATTCAT                         GGTATTGACACCGGCCGGAATTGATGACTATTTGGCT
genomic: TCAGGAAAAAACATTGAAATTGGCATAATCGGTGCTGATAAAAAATTCAGgtgcatatct ... aatgttgcagGGTATTGACACCGGCCGAAATTGATGACTATTTGGCT
EST: gi|192316847|gb|FK010834.1|FK010834
EST:     TCAGGAAAAAACATTGAAATTGGCATAATCGGTGCTGATAAAAAATTCAG                         GGTATTGACCCCGGCCGAAATTGATGACTATTTGGCTAAAGTAGAATAATG
genomic: TCAGGAAAAAACATTGAAATTGGCATAATCGGTGCTGATAAAAAATTCAGgtgcatatct ... aatgttgcagGGTATTGACACCGGCCGAAATTGATGACTATTTGGCTGAAGTAGAATAATG
EST: gi|151406778|gb|EV276593.1|EV276593
EST:     TCAG-AAAAAACATTGAAATTGGCATAATCGGTGCTGATAAAAAATTCAG                         GGTATTGACACCGGCCGAAATTGATGACTATTTGGCTGAAGTAGAATAATG
genomic: TCAGGAAAAAACATTGAAATTGGCATAATCGGTGCTGATAAAAAATTCAGgtgcatatct ... aatgttgcagGGTATTGACACCGGCCGAAATTGATGACTATTTGGCTGAAGTAGAATAATG
EST: gi|19348090|gb|BM892622.1|BM892622
EST:     TCAGGAAAAAACATTGAAATTGGCATAATCGGTGCTGATAAAAAATTCAG                         GGTATTGACACCGGCCGAAATTGATGACTATTTGGCTGAAGTAGAATAATG
genomic: TCAGGAAAAAACATTGAAATTGGCATAATCGGTGCTGATAAAAAATTCAGgtgcatatct ... aatgttgcagGGTATTGACACCGGCCGAAATTGATGACTATTTGGCTGAAGTAGAATAATG
EST: gi|12690713|gb|BG157049.1|BG157049
EST:     TCAGGAAAAAACATTGAAATTGGCATAATCGGTGCTGATAAAAAATTCAG                         GGTATTGACACCGGCCGAAATCGATGACTATTTGGCTGAAGTAGAATAATG
genomic: TCAGGAAAAAACATTGAAATTGGCATAATCGGTGCTGATAAAAAATTCAGgtgcatatct ... aatgttgcagGGTATTGACACCGGCCGAAATTGATGACTATTTGGCTGAAGTAGAATAATG
EST: gi|193720646|gb|FK662002.1|FK662002
EST:     TCAGGAAAAAACATTGAAATTGGCATAATCGGTGCTGATAAAAAATTCAG                         GGTATTGACACCGGCCGAAATTGATGACTATTTGGCTGAAGTAGAATAATG
genomic: TCAGGAAAAAACATTGAAATTGGCATAATCGGTGCTGATAAAAAATTCAGgtgcatatct ... aatgttgcagGGTATTGACACCGGCCGAAATTGATGACTATTTGGCTGAAGTAGAATAATG
EST: gi|214004933|gb|DB989066.1|DB989066
EST:     CTGATAAAAAATTCAG                         GGTATTGACACCGGCCGAAATTGATGACTATTTGGCTGAAGTAGAATAATG
genomic: CTGATAAAAAATTCAGgtgcatatct ... aatgttgcagGGTATTGACACCGGCCGAAATTGATGACTATTTGGCTGAAGTAGAATAATG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTTGAGGGACAGATCTCAGGAAAAAACATTGAAATTGGCATAATCGGTGCTGATAAAAAATTCAGgtgcatatctatttacttaaaatatacctagtttgcttgactctggtttctgtcatcagtagtctaattaagttgatttttgggttgtccaatctgaaat

- - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT