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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTACATTGATCAAGTGAAAAACTCACTCACTGAGAGGATTGAAATATCTGCCCAGAATTCTTGGGTGGGAAAAGGTGGTGCTTTCACGGGAGAAATCAGgttagctcacactttcctttcaagtgttaattgatctaaggtttctctttatattttgattttatagtgtttggctagttggacgattgtagataccttc...

Basic information

species Glycine max
transcript GLYMA19G36990.2
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G36990.2 (Glycine max), 5'ss of exon 4
lower sequence: Vv03s0038g01780.t01 (Vitis vinifera), 5'ss of exon 4
TGTACATTGATCAAGTGAAAAACTCACTCACTGAGAGGATTGAAATATCTGCCCAGAATTCTTGGGTGGGAAAAGGTGGTGCTTTCACGGGAGAAATCAGgttagctcacactttcctttcaagtgttaatt--gatctaaggtttctctttatattttgat--tttatagtgtttggctagttggacgattgtagataccttc
| ||| |||| || || || || ||| | || ||  ||||||| |||||||| ||||| |||||||| || ||||||||||||||||| |||||||||||||||| |  | | ||| | | || |   ||    || | ||| | | ||    | || | ||  || | ||  ||| |||  ||      ||     | |    
TTTACCTTGACCAGGTAAAGAATTCATTAACAGATCGGATTGAGATATCTGCTCAGAACTCTTGGGTTGGGAAAGGTGGTGCTTTCACAGGAGAAATCAGgttagtttgctccttcttgttaattaccaaaaaagaacaaagttgtttcacagttttctaatacttaaaagaatttagct--tttccttttttcttgtgcta--
















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|23725706|gb|BU760816.1|BU760816
EST:     GCCCAGAATTCTTGGGTGGGAAAAGGTGGTGCTTTCACGGGAGAAATCAG                         CGCGGAACAACTAAAAGATCTTGGATGCAAGTGGGTTGTTCTTGGACATTC
genomic: GCCCAGAATTCTTGGGTGGGAAAAGGTGGTGCTTTCACGGGAGAAATCAGgttagctcac ... gactctttagCGCGGAACAACTAAAAGATCTTGGATGCAAGTGGGTTGTTCTTGGACATTC
EST: gi|192294177|gb|FG986266.1|FG986266
EST:     GCCCAGAATTCTTGGGTGGGAAAAGGTGGTGCTTTCACGGGAGAAATCAG                         CGCGGAACAACTAAAAGATCTTGGATGCAAGTGGGTTGTTCTTGGACATTC
genomic: GCCCAGAATTCTTGGGTGGGAAAAGGTGGTGCTTTCACGGGAGAAATCAGgttagctcac ... gactctttagCGCGGAACAACTAAAAGATCTTGGATGCAAGTGGGTTGTTCTTGGACATTC
EST: gi|19054173|gb|BM732840.1|BM732840
EST:     GCCCAGAATTCTTGGGTGGGAAAAGGTGGTGCTTTCACGGGAGAAATCAG                         CGCGGAACAACTAAAAGATCTTGGATGCAAGTGGGTTGTTCTTGGACATTC
genomic: GCCCAGAATTCTTGGGTGGGAAAAGGTGGTGCTTTCACGGGAGAAATCAGgttagctcac ... gactctttagCGCGGAACAACTAAAAGATCTTGGATGCAAGTGGGTTGTTCTTGGACATTC
EST: gi|192303891|gb|FG998243.1|FG998243
EST:     GCCCAGAATTCTTGGGTGGGAAAAGGTGGTGCTTTCACGGGAGAAATCAG                         TGCGGAACAACTAAAAGATCTTGGATGCAAGTGGGTTGTTCTTGGACATTC
genomic: GCCCAGAATTCTTGGGTGGGAAAAGGTGGTGCTTTCACGGGAGAAATCAGgttagctcac ... gactctttagCGCGGAACAACTAAAAGATCTTGGATGCAAGTGGGTTGTTCTTGGACATTC
EST: gi|20814775|gb|BQ299253.1|BQ299253
EST:     GCCCAGAATTCTTGGGTGGGAAAAGGTGGTGCTTTCACGGGAGAAATCAG                         CGCGGAACAACTAAAAGATCTTGGATGCAAGTGGGTTGTTCTTGGACATTC
genomic: GCCCAGAATTCTTGGGTGGGAAAAGGTGGTGCTTTCACGGGAGAAATCAGgttagctcac ... gactctttagCGCGGAACAACTAAAAGATCTTGGATGCAAGTGGGTTGTTCTTGGACATTC
EST: gi|7691290|gb|AW759483.1|AW759483
EST:     GCCCAGAATTCTTGGGTGGGAAAAGGTGGTGCTTTCACTGGAGAAATCAG                         CGCGGAACAACTAAAAGATCTTGGATGCAAGTGGGTTGTTCTTGGACATTC
genomic: GCCCAGAATTCTTGGGTGGGAAAAGGTGGTGCTTTCACGGGAGAAATCAGgttagctcac ... gactctttagCGCGGAACAACTAAAAGATCTTGGATGCAAGTGGGTTGTTCTTGGACATTC
EST: gi|10843866|gb|BF067227.1|BF067227
EST:     GCCCAGAATTCTTGGGTGGGAAAAGGTGGTGCTTTCACGGGAGAAATCAG                         CGCGGAACAACTAAAAGATCTTGGATGCAAGTGGGTTGTTCTTGGACATTC
genomic: GCCCAGAATTCTTGGGTGGGAAAAGGTGGTGCTTTCACGGGAGAAATCAGgttagctcac ... gactctttagCGCGGAACAACTAAAAGATCTTGGATGCAAGTGGGTTGTTCTTGGACATTC
EST: gi|8283483|gb|BE021042.1|BE021042
EST:     GCCCAGAATTCTTGGGTGGGAAAAGGTGGTGCTTTCACGGGAGAAATCAG                         CGCGGAACAACTAAAAGATCTTGGATGCAAGTGGGTTGTTCTTGGACATTC
genomic: GCCCAGAATTCTTGGGTGGGAAAAGGTGGTGCTTTCACGGGAGAAATCAGgttagctcac ... gactctttagCGCGGAACAACTAAAAGATCTTGGATGCAAGTGGGTTGTTCTTGGACATTC
EST: gi|12689031|gb|BG155376.1|BG155376
EST:     TGGGTGGGAAAAGGTGGTGCTTTCACGGGAGAAATCAG                         CGCGGAACAACTAAAAGATCTTGGATGCAAGTGGGTTGTTCTTGGACATTC
genomic: TGGGTGGGAAAAGGTGGTGCTTTCACGGGAGAAATCAGgttagctcac ... gactctttagCGCGGAACAACTAAAAGATCTTGGATGCAAGTGGGTTGTTCTTGGACATTC
EST: gi|15204307|gb|BI427075.1|BI427075
EST:     GCCCAGAATTCTTGGGTGGGAAAAGGTGGTGCTTTCACGGGAGAAATCAG                         CGCGGAACAACTAAAAGATCTTGGATGCAAGTGGGTTGTTCTTGGACATTC
genomic: GCCCAGAATTCTTGGGTGGGAAAAGGTGGTGCTTTCACGGGAGAAATCAGgttagctcac ... gactctttagCGCGGAACAACTAAAAGATCTTGGATGCAAGTGGGTTGTTCTTGGACATTC
EST: gi|298173868|gb|HO017204.1|HO017204
EST:     GCCCAGAATTCTTGGGTGGGAAAAGGTGGTGCTTTCACGGGAGAAATCAG                         CGCGGAACAACTAAAAGATCTTGGATGCAAGTGGGTTGTTCTTGGACATTC
genomic: GCCCAGAATTCTTGGGTGGGAAAAGGTGGTGCTTTCACGGGAGAAATCAGgttagctcac ... gactctttagCGCGGAACAACTAAAAGATCTTGGATGCAAGTGGGTTGTTCTTGGACATTC
EST: gi|17519271|gb|BM188313.1|BM188313
EST:     GCCCAGAATTCTTGGGTGGGAAAAGGTGGTGCTTTCACGGGAGAAATCAG                         CGCGGAACAACTAAAAGATCTTGGATGCAAGTGGGTTGTTCTTGGACATTC
genomic: GCCCAGAATTCTTGGGTGGGAAAAGGTGGTGCTTTCACGGGAGAAATCAGgttagctcac ... gactctttagCGCGGAACAACTAAAAGATCTTGGATGCAAGTGGGTTGTTCTTGGACATTC
EST: gi|213590993|gb|DB973762.1|DB973762
EST:     GCCCAGAATTCTTGGGTGGGAAAAGGTGGTGCTTTCACGGGAGAAATCAG                         CGCGGAACAACTAANAGATCTTGGATGCAAGTGGGTTGTTCTTGGACATTC
genomic: GCCCAGAATTCTTGGGTGGGAAAAGGTGGTGCTTTCACGGGAGAAATCAGgttagctcac ... gactctttagCGCGGAACAACTAAAAGATCTTGGATGCAAGTGGGTTGTTCTTGGACATTC
EST: gi|8284792|gb|BE022351.1|BE022351
EST:     GCCCAGAATTCTTGGGTGGGAAAAGGTGGTGCTTTCACGGGAGAAATCAG                         CGCGGAACAACTAAAAGATCTTGGATGCAAGTGGGTTGTTCTTGGACATTC
genomic: GCCCAGAATTCTTGGGTGGGAAAAGGTGGTGCTTTCACGGGAGAAATCAGgttagctcac ... gactctttagCGCGGAACAACTAAAAGATCTTGGATGCAAGTGGGTTGTTCTTGGACATTC
EST: gi|120533074|gb|EH261207.1|EH261207
EST:     GCCCAGAATTCTTGGGTGGGAAAAGGTGGTGCTTTCACGGGAGAAATCAG                         CGCGGAACAACTAAAAGATCTTGGATGCAAGTGGGTTGTTCTTGGACATTC
genomic: GCCCAGAATTCTTGGGTGGGAAAAGGTGGTGCTTTCACGGGAGAAATCAGgttagctcac ... gactctttagCGCGGAACAACTAAAAGATCTTGGATGCAAGTGGGTTGTTCTTGGACATTC
EST: gi|209724432|gb|BW666667.1|BW666667
EST:     GCCCAGAATTCTTGGGTGGGAAAAGGTGGTGCTTTCACGGGAGAAATCAG                         CGCGGAACAACTAAAAGATCTTGGATGCAAGTGGGTTGTTCTTGGACATTC
genomic: GCCCAGAATTCTTGGGTGGGAAAAGGTGGTGCTTTCACGGGAGAAATCAGgttagctcac ... gactctttagCGCGGAACAACTAAAAGATCTTGGATGCAAGTGGGTTGTTCTTGGACATTC
EST: gi|192326679|gb|FK018521.1|FK018521
EST:     GCCCAGAATTCTTGGGTGGGAAAAGGTGGTGCTTTCACGGGAGAAATCAG                         CGCGGAACAACTAAAAGATCTTGGATGCAAGTGGGTTGTTCTTGGACATTC
genomic: GCCCAGAATTCTTGGGTGGGAAAAGGTGGTGCTTTCACGGGAGAAATCAGgttagctcac ... gactctttagCGCGGAACAACTAAAAGATCTTGGATGCAAGTGGGTTGTTCTTGGACATTC
EST: gi|192331703|gb|FK022805.1|FK022805
EST:     GCCCAGAATTCTTGGGTGGGAAAAGGTGGTGCTTTCACGGGAGAAATCAG                         CGCGGAACAACTAAAAGATCTTGGATGCAAGTGGGTTGTTCTTGGACATTC
genomic: GCCCAGAATTCTTGGGTGGGAAAAGGTGGTGCTTTCACGGGAGAAATCAGgttagctcac ... gactctttagCGCGGAACAACTAAAAGATCTTGGATGCAAGTGGGTTGTTCTTGGACATTC
EST: gi|21993826|gb|BQ785354.1|BQ785354
EST:     GCCCAGAATTCTTGGGTGGGAAAAGGTGGTGCTTTCACGGGAGAAATCAG                         CGCGGAACAACTAAAAGATCTTGGATGCAAGTGGGTTGTTCTTGGACATTC
genomic: GCCCAGAATTCTTGGGTGGGAAAAGGTGGTGCTTTCACGGGAGAAATCAGgttagctcac ... gactctttagCGCGGAACAACTAAAAGATCTTGGATGCAAGTGGGTTGTTCTTGGACATTC

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGTACATTGATCAAGTGAAAAACTCACTCACTGAGAGGATTGAAATATCTGCCCAGAATTCTTGGGTGGGAAAAGGTGGTGCTTTCACGGGAGAAATCAGgttagctcacactttcctttcaagtgttaattgatctaaggtttctctttatattttgattttatagtgtttggctagttggacgattgtagataccttc

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA