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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTAAGACTTTCTATGTGGGGAAAGACCATGTTGGAGATGTTCCATTGTCAAAGAAAATTCTTGCTGCATTTACAACTGgtaaatctcaatgctggaaattgtgggaataatttgtatatgtgtgctattatatgagtttcttttctaatctatggattatttactttttcttaggggcatcttgtgttattcctatctaaatactcatcgcaataactcaatcacgaactcgttcaatttgtcttgtcaacag

Basic information

species Glycine max
transcript GLYMA03G14780.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G14780.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv08s0007g01700.t01 (Vitis vinifera), 5'ss of exon 3
GTTAAGACTTTCTATGTGGGGAAAGACCATGTTGGAGATGTTCCATTGTCAAAGAAAATTCTTGCTGCATTTACAACTGgtaaatctcaatgctggaaattgtgggaataatttgtatatgtgtgctattatatgagtttcttttctaatctatggattatttactttttcttaggggcatcttgtgttattcctatctaaatactcatcgcaataactcaatcacgaactcgttcaatttgtcttgtcaacag
|| ||| | ||||||||||| || || ||||||||||||||||| || || |||||||| ||||||||| | ||||||||| |      ||||||||   ||  | | |  ||| |  || ||    ||   |||||| |  |    |   ||   || |||    ||    | | |  ||   |  ||| | ||    |  ||||  |   | |  |  ||| |   |                         
GTGAAGGCCTTCTATGTGGGTAAGGATCATGTTGGAGATGTTCCTTTATCCAAGAAAATACTTGCTGCACTAACAACTGgtgagcacatatgctggactctgatgtacttgttt-ttcatttga---atataatgagtatggtgagca-catactcatgattcctattaaacttgtg--attgggatttaattctcatgatgtacttgtttaattctcataattaaacag------------------------
















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|17022665|gb|BM093699.1|BM093699
EST:     TGTTGGAGATGTTCCATTGTCAAAGAAAATTCTTGCTGCATTTACAACTG                         GTGCTTTTGCAATTGCAGTGGCAAATCCAACCGATCTTGTCAAAGTTAGAC
genomic: TGTTGGAGATGTTCCATTGTCAAAGAAAATTCTTGCTGCATTTACAACTGgtaaatctca ... ttgtcaacagGTGCTTTTGCAATTGCAGTGGCAAATCCAACCGATCTTGTCAAAGTTAGAC
EST: gi|7685497|gb|AW756145.1|AW756145
EST:     GTTGGAGATGTTCCATTGTCAAAGAAAATTCTTGCTGGCATT-ACAACTG                         GTGCTTTTGCAATTGCAGTGGCGAATCCAACCGATCTTGTCAAAGTTAGAC
genomic: GTTGGAGATGTTCCATTGTCAAAGAAAATTCTTGCTG-CATTTACAACTGgtaaatctca ... ttgtcaacagGTGCTTTTGCAATTGCAGTGGCAAATCCAACCGATCTTGTCAAAGTTAGAC
EST: gi|209724656|gb|BW677736.1|BW677736
EST:     TGTTGGAGATGTTCCATTGTCAAAGAAAATTCTTGCTGCATTTACAACTG                         GTGCTTTTGCAATTGCAGTGGCAAATCCAAACGATCTTGTCAAAGTTAGAC
genomic: TGTTGGAGATGTTCCATTGTCAAAGAAAATTCTTGCTGCATTTACAACTGgtaaatctca ... ttgtcaacagGTGCTTTTGCAATTGCAGTGGCAAATCCAACCGATCTTGTCAAAGTTAGAC
EST: gi|151397018|gb|EV266891.1|EV266891
EST:     TGTTGGAGATGTTCCATTGTCAAAGAAAATTCTTGCTGCATTTACAACTG                         GTGCTTTTGCAATTGCAGTGGCAAATCCAACCGATCTTGTCAAAGTTAGAC
genomic: TGTTGGAGATGTTCCATTGTCAAAGAAAATTCTTGCTGCATTTACAACTGgtaaatctca ... ttgtcaacagGTGCTTTTGCAATTGCAGTGGCAAATCCAACCGATCTTGTCAAAGTTAGAC
EST: gi|193591617|gb|FK545990.1|FK545990
EST:     TGTTGGAGATGTTCCATTGTCAAAGAAAATTCTTGCTGCATTTACAACTG                         GTGCTTTTGCAATTGCAGTGGCAAATCCAACCGATCTTGTCAAAGTTAGAC
genomic: TGTTGGAGATGTTCCATTGTCAAAGAAAATTCTTGCTGCATTTACAACTGgtaaatctca ... ttgtcaacagGTGCTTTTGCAATTGCAGTGGCAAATCCAACCGATCTTGTCAAAGTTAGAC
EST: gi|213595388|gb|DB966526.1|DB966526
EST:     TGTTGGAGATGTTCCATTGTCAAAGAAAATTCTTGCTGCATTTACAACTG                         GTGCTTTTGCAATTGCAGTGGCAAATCCAACCGATCTTGTCAAAGTTAGAC
genomic: TGTTGGAGATGTTCCATTGTCAAAGAAAATTCTTGCTGCATTTACAACTGgtaaatctca ... ttgtcaacagGTGCTTTTGCAATTGCAGTGGCAAATCCAACCGATCTTGTCAAAGTTAGAC
EST: gi|7685710|gb|AW756358.1|AW756358
EST:     TGTGGGAGATGTTCCATTGTCAAAGAAAATTCTTGCTGCATTTACAACTG                         GTGCTTGTGCAATTGGCAG-GGCAAATGCAACCGATCTTGTCATAGGTAGA
genomic: TGTTGGAGATGTTCCATTGTCAAAGAAAATTCTTGCTGCATTTACAACTGgtaaatctca ... ttgtcaacagGTGCTTTTGCAATTG-CAGTGGCAAATCCAACCGATCTTGTCAAAGTTAGA
EST: gi|151396786|gb|EV266659.1|EV266659
EST:     TGTTGGAGATGTTCCATTGTCAAAGAAAATTCTTGCTGCATTTACAACTA                         GTGCTTTTGCAATTGCAGTGGCAAATCCAACCGATCTTGTCAAAGTTAGAC
genomic: TGTTGGAGATGTTCCATTGTCAAAGAAAATTCTTGCTGCATTTACAACTGgtaaatctca ... ttgtcaacagGTGCTTTTGCAATTGCAGTGGCAAATCCAACCGATCTTGTCAAAGTTAGAC
EST: gi|18734274|gb|BM528089.1|BM528089
EST:     TGTTGGAGATGTTCCATTGTCAAAGAAAATTCTTGCTGCATTTACAACTG                         GTGCTTTTGCAATTGCAGTGGCAAATCCAACCGATCTTGTCAAAGTTAGAC
genomic: TGTTGGAGATGTTCCATTGTCAAAGAAAATTCTTGCTGCATTTACAACTGgtaaatctca ... ttgtcaacagGTGCTTTTGCAATTGCAGTGGCAAATCCAACCGATCTTGTCAAAGTTAGAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTAAGACTTTCTATGTGGGGAAAGACCATGTTGGAGATGTTCCATTGTCAAAGAAAATTCTTGCTGCATTTACAACTGgtaaatctcaatgctggaaattgtgggaataatttgtatatgtgtgctattatatgagtttcttttctaatctatggattatttactttttcttaggggcatcttgtgttattcctatctaaatactcatcgcaataactcaatcacgaactcgttcaatttgtcttgtcaacag

- - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - -  GGAGAT
- - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC