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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCTAGACTATCCTTTTAAGGCCCCCCAAGTGAAGTTTGAGACAATGTGCTTTCATCCAAATATTGACCAGTTTGGCAACATTTGTCTGGACATCCTTCAGgtattcatgaacttatgaattagagccaaattttcaatgatctgtgttttggtggctttggatctctaccatttagttttactatggatgcttaagtata...

Basic information

species Glycine max
transcript GLYMA20G31920.2
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G31920.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv13s0019g04090.t01 (Vitis vinifera), 5'ss of exon 3
CCTAGACTATCCTTTTAAGGCCCCCCAAGTGAAGTTTGAGACAATGTGCTTTCATCCAAATATTGACCAGTTTGGCAACATTTGTCTGGACATCCTTCAGgtattcatgaacttatgaa-----ttagagc--caaattttcaatgatctgtgttttggtggctttggatctctaccatttagttttactatggatgcttaagtata
||| ||||| ||||| ||| | |||||||| |||||||| ||||||||||| |||||||||||||| |||||||||||||||||||| ||||||||||||||||   | |||||   |      || ||    |||||||    |||       | |  |||   |  || | |   |   |  | | || || |   | ||     
CCTTGACTACCCTTTCAAGCCACCCCAAGTTAAGTTTGAAACAATGTGCTTCCATCCAAATATTGATCAGTTTGGCAACATTTGTCTTGACATCCTTCAGgtataactcaacttgctagaagtttttgaattgcaaatttctggtgactaacaatctaatggtcctatatttatgata---acctctgctttgaaaattgaat----
















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|254328855|gb|GR833227.1|GR833227
EST:     TTCATCCAAATATTGACCAGTTTGGCAACATTTGTCTGGACATCCTTCAG                         GACAAGTGGTCTTCAGCTTATGATTGCAGAACTATTCTTCTGTCTATTCAA
genomic: TTCATCCAAATATTGACCAGTTTGGCAACATTTGTCTGGACATCCTTCAGgtattcatga ... gtttctacagGACAAGTGGTCTTCAGCTTATGATTGCAGAACTATTCTTCTGTCTATTCAA
EST: gi|23731740|gb|BU764010.1|BU764010
EST:     TTCATCCAAATATTGACCAGTTTGGCAACATTTGTCTGGACATCCTTCAG                         GACAAGTGGTCTTCAGCTTATGATTGCAGAACTATTCTTCTGTCTATTCAA
genomic: TTCATCCAAATATTGACCAGTTTGGCAACATTTGTCTGGACATCCTTCAGgtattcatga ... gtttctacagGACAAGTGGTCTTCAGCTTATGATTGCAGAACTATTCTTCTGTCTATTCAA
EST: gi|31307478|gb|CD392681.1|CD392681
EST:     TTCATCCAAATATTGACCAGTTTGGCAACATTTGTCTGGACATCCTTCA-                         GACAAGTGGTCTTCAGCTTATGATTGCAGAACTATTCTTCTGTCTATTCAA
genomic: TTCATCCAAATATTGACCAGTTTGGCAACATTTGTCTGGACATCCTTCAGgtattcatga ... gtttctacagGACAAGTGGTCTTCAGCTTATGATTGCAGAACTATTCTTCTGTCTATTCAA
EST: gi|8285774|gb|BE023333.1|BE023333
EST:     TTCATCCAAATATTGACCAGTTTGGCAACATTTGTCTGGACATCCTTCAG                         GACAAGTGGTCTTCAGCTTATGATTGCAGAACTATTCTTCTGTCTATTCAA
genomic: TTCATCCAAATATTGACCAGTTTGGCAACATTTGTCTGGACATCCTTCAGgtattcatga ... gtttctacagGACAAGTGGTCTTCAGCTTATGATTGCAGAACTATTCTTCTGTCTATTCAA
EST: gi|254328856|gb|GR833228.1|GR833228
EST:     TTCATCCAAATATTGACCAGTTTGGCAACATTTGTCTGGACATCCTTCAG                         GACAAGTGGTCTTCAGCTTATGATTGCAGAACTATTCTTCTGTCTATTCAA
genomic: TTCATCCAAATATTGACCAGTTTGGCAACATTTGTCTGGACATCCTTCAGgtattcatga ... gtttctacagGACAAGTGGTCTTCAGCTTATGATTGCAGAACTATTCTTCTGTCTATTCAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CCTAGACTATCCTTTTAAGGCCCCCCAAGTGAAGTTTGAGACAATGTGCTTTCATCCAAATATTGACCAGTTTGGCAACATTTGTCTGGACATCCTTCAGgtattcatgaacttatgaattagagccaaattttcaatgatctgtgttttggtggctttggatctctaccatttagttttactatggatgcttaagtata

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttggtgg