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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGTTATGTTAATGAAGAAGGAAGGTTAAGGATTTTACCTTACCATGACTTCAACAAAGCTTCCCATGGCTGCACTTTGTGCCCTCCAAACATGTGCAAGgtaaattcaactaatttttttttttgatctattaacttatcttttgataaagattttttttccttaaataatgtggagccgtgtttgatttgctaaaatc...

Basic information

species Glycine max
transcript GLYMA07G01430.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G01430.1 (Glycine max), 5'ss of exon 3
lower sequence: AT1G17710.1 (Arabidopsis thaliana), 5'ss of exon 3
TGGTTATGTTAATGAAGAAGGAAGGTTAAGGATTTTACCTTACCATGACTTCAACAAAGCTTCCCATGGCTGCACTTTGTGCCCTCCAAACATGTGCAAGgta----aattcaactaatttttttttttgatctattaacttatcttttgataaagattttt--tttccttaaataatgtggagccgtgtttgatttgctaaa-atc------------------------------------------------------------------------
 ||   |||  ||||| ||||||| ||||   | |  |||||||||||||||| |||| |||| ||||| ||| ||   |||||||| |||||||||||||||    | ||  |||||| |  | ||  |||  ||||  | |     | | |    |  ||  | |  | |   | | |||     | |||| | |   | | ||                                                                         
AGGACTTGTAGATGAACAAGGAAGATTAATAGTCTCTCCTTACCATGACTTCACCAAATCTTCTCATGGTTGCTCTCGTTGCCCTCCTAACATGTGCAAGgtactgcagttacactaatctcatatt--gattgattagttcaaaagataagatttgtcattactattttcagggattttgggaaactttttggtgtaaaatatattatctttgattctgttatgagtcaatatggacctatctgtgtgctaaattaatactaaattttgtttatacag
















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|192298518|gb|FG989209.1|FG989209
EST:     TCAACAAAGCTTCCCATGGCTGCACTTTGTGCCCTCCAAACATGTGCAAG                         GGTTTAATCATAGATAGAATCCAAGATTCAATTTCTGAAGAGGGTAAAAAG
genomic: TCAACAAAGCTTCCCATGGCTGCACTTTGTGCCCTCCAAACATGTGCAAGgtaaattcaa ... accaatgcagGGTTTAATCATAGATAGAATCCAAGATTCAATTTCTGAAGAGGGTAAAAAG
EST: gi|209703638|gb|BW678299.1|BW678299
EST:     TCAACAAAGCTTCCCATGGCTGCACTTTGTGCCCTCCAAACATGTGCAAG                         GGTTTAATCATAGATAGAATCCA
genomic: TCAACAAAGCTTCCCATGGCTGCACTTTGTGCCCTCCAAACATGTGCAAGgtaaattcaa ... accaatgcagGGTTTAATCATAGATAGAATCCA
EST: gi|151399273|gb|EV269144.1|EV269144
EST:     TCAACAAAGCTTCCCATGGCTGCACTTTGTGCCCTCCAAACATGTGCAAG                         GGTTTAATCATAGATAGAATCCAAGATTCAATTTCTGAAGAGGGTAAAAAG
genomic: TCAACAAAGCTTCCCATGGCTGCACTTTGTGCCCTCCAAACATGTGCAAGgtaaattcaa ... accaatgcagGGTTTAATCATAGATAGAATCCAAGATTCAATTTCTGAAGAGGGTAAAAAG
EST: gi|209715118|gb|BW677161.1|BW677161
EST:     TCAACAAAGCTTCCCATGGCTGCACTTTGTGCCCTCCAAACATGTGCAAG                         GGTTTAATCATAGATAGAATCCAAGATTCAATTTCTGAAGAGGGTAAAAAG
genomic: TCAACAAAGCTTCCCATGGCTGCACTTTGTGCCCTCCAAACATGTGCAAGgtaaattcaa ... accaatgcagGGTTTAATCATAGATAGAATCCAAGATTCAATTTCTGAAGAGGGTAAAAAG
EST: gi|209715119|gb|BW677162.1|BW677162
EST:     TCAACAAAGCTTCCCATGGCTGCACTTTGTGCCCTCCAAACATGTGCAAG                         GGTTTAATCATAGATAGAATCCAAGATTCAATTTCTGAAGAGGGTAAAAAG
genomic: TCAACAAAGCTTCCCATGGCTGCACTTTGTGCCCTCCAAACATGTGCAAGgtaaattcaa ... accaatgcagGGTTTAATCATAGATAGAATCCAAGATTCAATTTCTGAAGAGGGTAAAAAG
EST: gi|192305151|gb|FG993931.1|FG993931
EST:     TCAACAAAGCTTCCCATGGCTGCACTTTGTGCCCTCCAAACATGTGCAAG                         GGTTTAATCATAGATAGAATCCAAGATTCAATTTCTGAAGAGGGTAAAAAG
genomic: TCAACAAAGCTTCCCATGGCTGCACTTTGTGCCCTCCAAACATGTGCAAGgtaaattcaa ... accaatgcagGGTTTAATCATAGATAGAATCCAAGATTCAATTTCTGAAGAGGGTAAAAAG
EST: gi|151409022|gb|EV278830.1|EV278830
EST:     TCAACAAAGCTTCCCATGGCTGCACTTTGTGCCCTCCAAACATGTGCAAG                         GGTTTAATCATAGATAGAATCCAAGATTCAATTTCTGAAGAGGGTAAAAAG
genomic: TCAACAAAGCTTCCCATGGCTGCACTTTGTGCCCTCCAAACATGTGCAAGgtaaattcaa ... accaatgcagGGTTTAATCATAGATAGAATCCAAGATTCAATTTCTGAAGAGGGTAAAAAG
EST: gi|19938088|gb|BQ081554.1|BQ081554
EST:     TCAACAAAGCTTCCCATGGCTGCACTTTGTGCCCTCCAAACATGTGCAAG                         GGTTTAATCATAGATAGAATCCAAGATTCAATTTCT
genomic: TCAACAAAGCTTCCCATGGCTGCACTTTGTGCCCTCCAAACATGTGCAAGgtaaattcaa ... accaatgcagGGTTTAATCATAGATAGAATCCAAGATTCAATTTCT
EST: gi|209699564|gb|BW683030.1|BW683030
EST:     TCAACAAAGCTTCCCATGGCTGCACTTTGTGCCCTCCAAACATGTGCAAG                         GGTTTAATCATAGATAGAATCCAAGATTCAATTTCTGAAGAGGGTAAAAAG
genomic: TCAACAAAGCTTCCCATGGCTGCACTTTGTGCCCTCCAAACATGTGCAAGgtaaattcaa ... accaatgcagGGTTTAATCATAGATAGAATCCAAGATTCAATTTCTGAAGAGGGTAAAAAG

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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGGTTATGTTAATGAAGAAGGAAGGTTAAGGATTTTACCTTACCATGACTTCAACAAAGCTTCCCATGGCTGCACTTTGTGCCCTCCAAACATGTGCAAGgtaaattcaactaatttttttttttgatctattaacttatcttttgataaagattttttttccttaaataatgtggagccgtgtttgatttgctaaaatc

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gataaaga