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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGCAAGGATAAGTGTGTGATCTATCTATAAACGCAAGATGTCAGCTGGGCCTGGACTTGAATCTCTTGTAGATCgtaagtcatctgtaaatatttatgttttgctttgatgtttggaattctctacatagttaaatctttatgttttgctttgatgtttggaattctatacata...

Basic information

species Glycine max
transcript GLYMA15G40590.2
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G40590.2 (Glycine max), 5'ss of exon 2
lower sequence: Vv16s0039g00240.t01 (Vitis vinifera), 5'ss of exon 2
--------------------GTGCAAGGATAAGTGTGTGATCTATC---TATAAAC--GCAAGATGTCAGCTGGGCCTGGACTTGAATCTCTTGTAGATCgtaagtcatctgtaaatatttatgttttgctttgatgtttggaattctctacatagttaaatctttatgttttgctttgatgtttggaattctatacata---------------------------------------------------------------------------------------
                     | || || |  |  | | || ||||   ||  |||  |||| |||||| |||||||||||||||| |||||||||||||||| ||   || | |||| ||   || |  ||   | ||  | | ||||| |   |  |||  |   |||| |  |     || |    |||||| |||                                                                                        
AATTTGCTAGCAACCAGTTCTTCCAGGGGTTTGGCTATTATTTATCAGTTACCAACTTGCAACATGTCAACTGGGCCTGGACTTGAGTCTCTTGTAGATCgtatgtatactcttaataatt-cattcttattgcttattatgtaatctctgctgggaaaaaggt---tgttctattccatggtgtatttttctatccatttttgttttggactttcaggacttttatgattggttcttgcttcgctttatttgtaatcactttcattcttcttttttcttggtgcag
















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|254316055|gb|GR825864.1|GR825864
EST:     CTATAAACGCAAGATGTCAGCTGGGCCTGGACTTGAATCTCTTGTAGATC                         AGACAATTTCAGTCATTACAAATGATGGACGAAATATAGTG
genomic: CTATAAACGCAAGATGTCAGCTGGGCCTGGACTTGAATCTCTTGTAGATCgtaagtcatc ... ttgttgacagAGACAATTTCAGTCATTACAAATGATGGACGAAATATAGTG
EST: gi|308098199|gb|HO761370.1|HO761370
EST:     CTATAAACGCAAGATGTCAGCTGGGCCTGGACTTGAATCTCTTGTAGATC                         AGACAATTTCAGTCATTACAAATGATGGACGAAATATAGTG
genomic: CTATAAACGCAAGATGTCAGCTGGGCCTGGACTTGAATCTCTTGTAGATCgtaagtcatc ... ttgttgacagAGACAATTTCAGTCATTACAAATGATGGACGAAATATAGTG
EST: gi|151399825|gb|EV269696.1|EV269696
EST:     CTATAAACGCAAGATGTCAGCTGGGCCTGGACTTGAATCTCTTGTAGATC                         AGACAATTTCAGTCATTACAAATGATGGACGAAATATAGTG
genomic: CTATAAACGCAAGATGTCAGCTGGGCCTGGACTTGAATCTCTTGTAGATCgtaagtcatc ... ttgttgacagAGACAATTTCAGTCATTACAAATGATGGACGAAATATAGTG
EST: gi|298199205|gb|HO042568.1|HO042568
EST:     CTATAAACGCAAGATGTCAGCTGGGCCTGGACTTGAATCTCTTGTAGATC                         AGACAATTTCAGTCATTACAGATGATGGACGAAATATAGTG
genomic: CTATAAACGCAAGATGTCAGCTGGGCCTGGACTTGAATCTCTTGTAGATCgtaagtcatc ... ttgttgacagAGACAATTTCAGTCATTACAAATGATGGACGAAATATAGTG
EST: gi|192300037|gb|FG992190.1|FG992190
EST:     CTATAAACGCAAGATGTCAGCTGGGCCTGGACTTGAATCTCTTGTAGATC                         AGACAATTTCAGTCATTACAAATGATGGACGAAATATAGTG
genomic: CTATAAACGCAAGATGTCAGCTGGGCCTGGACTTGAATCTCTTGTAGATCgtaagtcatc ... ttgttgacagAGACAATTTCAGTCATTACAAATGATGGACGAAATATAGTG
EST: gi|151395293|gb|EV265164.1|EV265164
EST:     CTATAAACGCAAGATGTCAGCTGGGCCTGGACTTGAATCTCTTGTAGATC                         AGACAATTTCAGTCATTACAAATGATGGACGAAATATAGTG
genomic: CTATAAACGCAAGATGTCAGCTGGGCCTGGACTTGAATCTCTTGTAGATCgtaagtcatc ... ttgttgacagAGACAATTTCAGTCATTACAAATGATGGACGAAATATAGTG
EST: gi|308098933|gb|HO760774.1|HO760774
EST:     CTATAAACGCAAGATGTCAGCTGGGCCTGGACTTGAATCTCTTGTAGATC                         AGACAATTTCAGTCATTACAAATGATGGACGAAATATAGTG
genomic: CTATAAACGCAAGATGTCAGCTGGGCCTGGACTTGAATCTCTTGTAGATCgtaagtcatc ... ttgttgacagAGACAATTTCAGTCATTACAAATGATGGACGAAATATAGTG
EST: gi|192310889|gb|FG998893.1|FG998893
EST:     CTATAAACGCAAGATGTCAGCTGGGCCTGGACTTGAATCTCTTGTAGATC                         AGACAATTTCAGTCATTACAAATGATGGACGAAATATAGTG
genomic: CTATAAACGCAAGATGTCAGCTGGGCCTGGACTTGAATCTCTTGTAGATCgtaagtcatc ... ttgttgacagAGACAATTTCAGTCATTACAAATGATGGACGAAATATAGTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTGCAAGGATAAGTGTGTGATCTATCTATAAACGCAAGATGTCAGCTGGGCCTGGACTTGAATCTCTTGTAGATCgtaagtcatctgtaaatatttatgttttgctttgatgtttggaattctctacatagttaaatctttatgttttgctttgatgtttggaattctatacata

- - - - - - - - - - - - - - - -  GCAAGA
- - - - - - - - - - - - - - - - -  AAGATG
- - - - - - - - - - - - - - - - - - - -  TCAGCT
- - - - - - - - - - - - - - - - - - - - - CAGCTG