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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAAAAGGATGCCTTGGGTAAGCGAGATGATATTCTGACTGCTGCAGAGAAGTACATCCAAGAGAATGGAACAGAAGCATTTGAGAATATCATCAATAGGgtatttctatttgcatctatagaaaacccagttgttgtggatttttgctttgtttttttgtatatccaacttgttgtactaacgctgccatctctttgcag

Basic information

species Glycine max
transcript GLYMA05G01160.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G01160.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv17s0000g05990.t01 (Vitis vinifera), 5'ss of exon 4
GAAAAAGGATGCCTTGGGTAAGCGAGATGATATTCTGACTGCTGCAGAGAAGTACATCCAAGAGAATGGAACAGAAGCATTTGAGAATATCATCAATAGGgtatttctatttgcatctatagaaaacccagttgttgtggatttttgctttgtttttttgtatatccaacttgt-tgtactaacgctgccatctctttgcag---
||| ||||||| |||  |||| | |||||| ||||| |||||||| ||||| ||||| |||||||||||| |||| ||||||||||||||||| || ||||||   |     |||   | |    |     ||  | |   |||||     ||      |        | ||||   ||   | ||| |        | ||    
GAAGAAGGATGTCTTCAGTAAACCAGATGACATTCTAACTGCTGCGGAGAAATACATTCAAGAGAATGGACCAGATGCATTTGAGAATATCATTAACAGGgtaagcca----gcaatcacacttgattttttttctctttgttttttgggggtgggggggcggtggggaattgtgcttatggatgct-cttgagaactacaacaa
















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|298191954|gb|HO036036.1|HO036036
EST:     AGTACATCCAAGAGAATGGAACAGAAGCATTTGAGAATATCATCAATAGG                         GCTGACAAATCAAGAAGGGGTGACGGTTATTATACAATGTATGATGA
genomic: AGTACATCCAAGAGAATGGAACAGAAGCATTTGAGAATATCATCAATAGGgtatttctat ... ctctttgcagGCTGACAAATCAAGAAGGGGTGACGGTTATTATACAATGTATGATGA
EST: gi|17021138|gb|BM092172.1|BM092172
EST:     AGTACATCCAAGAGAATGGAACAGAAGCATTTGAGAATATCATCAATAGG                         GCTGACAAATCAAGAAGGGGTGACGGTTATTATACAATGTATGATGAGACT
genomic: AGTACATCCAAGAGAATGGAACAGAAGCATTTGAGAATATCATCAATAGGgtatttctat ... ctctttgcagGCTGACAAATCAAGAAGGGGTGACGGTTATTATACAATGTATGATGAGACT
EST: gi|5688137|gb|AI941152.1|AI941152
EST:     AGTACATCCAAGAGAATGGAACAGAAGCATTTGAGAATATCATCAATAGG                         GCTGACAAATC
genomic: AGTACATCCAAGAGAATGGAACAGAAGCATTTGAGAATATCATCAATAGGgtatttctat ... ctctttgcagGCTGACAAATC
EST: gi|298190627|gb|HO032748.1|HO032748
EST:     AGTACATCCAAGGGAATGGAACAGAAGCATTTGAGAATATCATCAATAGG                         GCTGACAAATCAAGAAGGGGTGACGGTTATTATACAATGTATGATGAGACT
genomic: AGTACATCCAAGAGAATGGAACAGAAGCATTTGAGAATATCATCAATAGGgtatttctat ... ctctttgcagGCTGACAAATCAAGAAGGGGTGACGGTTATTATACAATGTATGATGAGACT
EST: gi|298190018|gb|HO032139.1|HO032139
EST:     AGTACATCCAAGAGAATGGAACAGAAGCATTTGAGAATATCATCAATAGG                         GCTGACAAATCAAGAAGGGGTGACGGTTATTATACAATGTATGATGAGACT
genomic: AGTACATCCAAGAGAATGGAACAGAAGCATTTGAGAATATCATCAATAGGgtatttctat ... ctctttgcagGCTGACAAATCAAGAAGGGGTGACGGTTATTATACAATGTATGATGAGACT
EST: gi|151408877|gb|EV278685.1|EV278685
EST:     AGTACATCCAAGAGAATGGAACAGAAGCATTTGAGAATATCATCAATAGG                         GCTGACAAATCAAGAAGGGGTGACGGTTATTATACAATGTATGATGAGACT
genomic: AGTACATCCAAGAGAATGGAACAGAAGCATTTGAGAATATCATCAATAGGgtatttctat ... ctctttgcagGCTGACAAATCAAGAAGGGGTGACGGTTATTATACAATGTATGATGAGACT
EST: gi|298191586|gb|HO039065.1|HO039065
EST:     AGTACATCCAAGAGAATGGAACAGAAGCATTTGAGAATATCATCAGTAGG                         GCTGACAAATCAAGAAGGGGTGACGGTTATTATACAATGTATGATGAGACT
genomic: AGTACATCCAAGAGAATGGAACAGAAGCATTTGAGAATATCATCAATAGGgtatttctat ... ctctttgcagGCTGACAAATCAAGAAGGGGTGACGGTTATTATACAATGTATGATGAGACT
EST: gi|192294352|gb|FG987281.1|FG987281
EST:     AGTACATCCAAGAGAATGGAACAGAAGCATTTGAGAATATCATCAATAGG                         GCTGACAAATCAAGAAGGGGTGACGGTTATTATACAATGTATGATGAGACT
genomic: AGTACATCCAAGAGAATGGAACAGAAGCATTTGAGAATATCATCAATAGGgtatttctat ... ctctttgcagGCTGACAAATCAAGAAGGGGTGACGGTTATTATACAATGTATGATGAGACT
EST: gi|298171165|gb|HO016197.1|HO016197
EST:     AGTACACCCAAGAGAATGGAACAGAAGCATTTGAGAATATCATCAATGGG                         GCTGACAAATCAAGAAGGGGTGA
genomic: AGTACATCCAAGAGAATGGAACAGAAGCATTTGAGAATATCATCAATAGGgtatttctat ... ctctttgcagGCTGACAAATCAAGAAGGGGTGA
EST: gi|19936423|gb|BQ080857.1|BQ080857
EST:     AGTACATCCAAGAGAATGGAACAGAAGCATTTGAGAATATCATCAATAGG                         GCTGACAAATCAAGAAGGGGTGACG
genomic: AGTACATCCAAGAGAATGGAACAGAAGCATTTGAGAATATCATCAATAGGgtatttctat ... ctctttgcagGCTGACAAATCAAGAAGGGGTGACG
EST: gi|11688734|gb|BF596410.1|BF596410
EST:     AGTACATCCAAGAGAATGGAACAGAAGCATTTGAGAATATCATCAATAAG                         GCTGACAAATCAAGAAGGGGTGACGGTTATTATACAATGTATGATGAGACT
genomic: AGTACATCCAAGAGAATGGAACAGAAGCATTTGAGAATATCATCAATAGGgtatttctat ... ctctttgcagGCTGACAAATCAAGAAGGGGTGACGGTTATTATACAATGTATGATGAGACT
EST: gi|298196167|gb|HO044558.1|HO044558
EST:     AGTACATCCAAGAGAATGGAACAGAAGCATTTGAGAATATCATCAATAGG                         GCTGACAAATC
genomic: AGTACATCCAAGAGAATGGAACAGAAGCATTTGAGAATATCATCAATAGGgtatttctat ... ctctttgcagGCTGACAAATC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAAAAAGGATGCCTTGGGTAAGCGAGATGATATTCTGACTGCTGCAGAGAAGTACATCCAAGAGAATGGAACAGAAGCATTTGAGAATATCATCAATAGGgtatttctatttgcatctatagaaaacccagttgttgtggatttttgctttgtttttttgtatatccaacttgttgtactaacgctgccatctctttgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC