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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTATTCTGTTCAATGCTTTGTTCAGATCCTAAACTTGACTCACACCGATTCAAGGATATTATTGATGAGGTTATAGCTGCTGgtaagaatatcactatctcttgccccaaatttcacccagatttttgatctagatgtaggtttcacggttagataaaacttgtgtttagaattttgaatgt...

Basic information

species Glycine max
transcript GLYMA10G12350.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G12350.2 (Glycine max), 5'ss of exon 5
lower sequence: Vv08s0007g07960.t01 (Vitis vinifera), 5'ss of exon 6
GCTATTCTGTTCAATGCTTTGTTCAGATCCTAAACTTGACTCACACCGATTCAAGGATATTATTGATGAGGTTATAGCTGCTGgtaagaatatcactatctcttgccccaaatttcacccagatttttgatctagatgtaggtttcacggttagataaaacttgtgtttagaattt-tgaatgt-----
||| |||||||||||||||||||| || ||||| || || ||||||||||||||||||||| |||||||||  ||| | || ||||||  |   |||| || |         |||  |||   ||  |||  ||  |    || | |   ||||  |     | |  || |||||  ||||        
GCTTTTCTGTTCAATGCTTTGTTCTGACCCTAAGCTGGATTCACACCGATTCAAGGATATTCTTGATGAGGCAATATCAGCAGgtaagggttctactagctttctttttgtttttttccc---ttcctgagataagtt---gtctgatatttagccattctattttcttggaattagtgaaaaccccta
















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|208312400|gb|GE110336.1|GE110336
EST:     ACTTGACTCACACCGATTCAAGGATATTATTGATGAGGTTATAGCTGCTG                         GAGAACTAAAGGAAACAAAAGCCTACAAGAAATGGACAAAGAAAATATCAG
genomic: ACTTGACTCACACCGATTCAAGGATATTATTGATGAGGTTATAGCTGCTGgtaagaatat ... atttatgtagGAGAACTAAAGGAAACAAAAGCCTACAAGAAATGGACAAAGAAAATATCAG
EST: gi|151412912|gb|EV282724.1|EV282724
EST:     ACTTGACTCACACCGATTCAAGGATATTATTGATGAGGTTATAGCTGCTG                         GAGAACTAAAGGAAACAAAAGCCTACAAGAAATGGACAAAGAAAATATCAG
genomic: ACTTGACTCACACCGATTCAAGGATATTATTGATGAGGTTATAGCTGCTGgtaagaatat ... atttatgtagGAGAACTAAAGGAAACAAAAGCCTACAAGAAATGGACAAAGAAAATATCAG
EST: gi|151396151|gb|EV266028.1|EV266028
EST:     ACTTGACTCACACCGATTCAAGGATATTATTGATGAGGTTATAGCTGCTG                         GAGAACTAAAGGAAACAAAAGCCTACAAGAAATGGACAAAGAAAATATCAG
genomic: ACTTGACTCACACCGATTCAAGGATATTATTGATGAGGTTATAGCTGCTGgtaagaatat ... atttatgtagGAGAACTAAAGGAAACAAAAGCCTACAAGAAATGGACAAAGAAAATATCAG
EST: gi|41145363|gb|CK605574.1|CK605574
EST:     ACTTGACTCACACCGATTCAGGGATATTATTGATGAGGTTATAGCTGCTG                         GAGAACTAAAGGAAACAAAAGCCTACAAGAAATGGACAAAGAAAATATCAG
genomic: ACTTGACTCACACCGATTCAAGGATATTATTGATGAGGTTATAGCTGCTGgtaagaatat ... atttatgtagGAGAACTAAAGGAAACAAAAGCCTACAAGAAATGGACAAAGAAAATATCAG
EST: gi|208237877|gb|GE040365.1|GE040365
EST:     ACTTGACTCACACCGATTCAAGGATATTATTGATGAGGTTATAGCTGCTG                         GAGAACTAAAG
genomic: ACTTGACTCACACCGATTCAAGGATATTATTGATGAGGTTATAGCTGCTGgtaagaatat ... atttatgtagGAGAACTAAAG
EST: gi|192323158|gb|FK017384.1|FK017384
EST:     ACTTGACTCACACCGATTCAAGGATATTATTGATGAGGTTATAGCTGCTG                         GAGAACTAAAG-AAAC
genomic: ACTTGACTCACACCGATTCAAGGATATTATTGATGAGGTTATAGCTGCTGgtaagaatat ... atttatgtagGAGAACTAAAGGAAAC
EST: gi|207758651|gb|GD728697.1|GD728697
EST:     ACTTGACTCACACCGATTCAAGGATATTATTGATGAGGTTATAGCTGCTG                         GAGAACTAAAAGGAAAACAAAA
genomic: ACTTGACTCACACCGATTCAAGGATATTATTGATGAGGTTATAGCTGCTGgtaagaatat ... atttatgtagGAGAACTAAA-GGAAA-CAAAA
EST: gi|151402844|gb|EV272657.1|EV272657
EST:     ACTTGACTCACACCGATTCAAGGATATTATTGATGAGGTTATAGCTGCTG                         GAGAACTAAAGGAAACAAAAGCCTACAAGAAATGGACAAAGAAAATATCAG
genomic: ACTTGACTCACACCGATTCAAGGATATTATTGATGAGGTTATAGCTGCTGgtaagaatat ... atttatgtagGAGAACTAAAGGAAACAAAAGCCTACAAGAAATGGACAAAGAAAATATCAG
EST: gi|151407863|gb|EV277678.1|EV277678
EST:     ACTTGACTCACACCGATTCAAGGATATTATTGATGAGGTTATAGCTGCTG                         GAGAACTAAAGGAAACAAAAGCCTACAAGAAATGGACAAAGAAAATATCAG
genomic: ACTTGACTCACACCGATTCAAGGATATTATTGATGAGGTTATAGCTGCTGgtaagaatat ... atttatgtagGAGAACTAAAGGAAACAAAAGCCTACAAGAAATGGACAAAGAAAATATCAG
EST: gi|208130358|gb|GD928131.1|GD928131
EST:     ACTTGACTCACACCGATTCAAGGATATTATTGATGAGGTTATAGCTGCTG                         GAGAACTAAAGG
genomic: ACTTGACTCACACCGATTCAAGGATATTATTGATGAGGTTATAGCTGCTGgtaagaatat ... atttatgtagGAGAACTAAAGG
EST: gi|16346108|gb|BI971703.1|BI971703
EST:     ACTTGACTCACTCCGATTCAAGGATATTATTGATGAGGTTATAGCTGCTG                         GAGAACTAAAGGAAACAAAAGCCTACAAGAAATGGACAAAGAAAATATCAG
genomic: ACTTGACTCACACCGATTCAAGGATATTATTGATGAGGTTATAGCTGCTGgtaagaatat ... atttatgtagGAGAACTAAAGGAAACAAAAGCCTACAAGAAATGGACAAAGAAAATATCAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCTATTCTGTTCAATGCTTTGTTCAGATCCTAAACTTGACTCACACCGATTCAAGGATATTATTGATGAGGTTATAGCTGCTGgtaagaatatcactatctcttgccccaaatttcacccagatttttgatctagatgtaggtttcacggttagataaaacttgtgtttagaattttgaatgt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT