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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAGAAGAAGAATCAGAGCTCAGCGATAAGCAGAAAGTGGAAATCGCGAAATGGTTCCTCCTCAATTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAGgttcttcttccttttccgcatttcctttttcgctatctattgttctacatttcaattaattcccgaaacgtttgtgcag

Basic information

species Glycine max
transcript GLYMA19G42150.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G42150.1 (Glycine max), 5'ss of exon 1
lower sequence: Vv14s0060g02220.t01 (Vitis vinifera), 5'ss of exon 1
GAAGAAGAAGAATCAGAGCTCAGCGATAAGCAGAAAGTGGAAATCGCGAAATGGTTCCTCCTCAATTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAGgt--tcttcttccttttcc------gcatttccttt---ttcgctatctattgttctacatttcaattaattcccgaaacgtttgtgcag-------------------------------
|||   | ||||  |||| | |||||  |||||||   ||| ||||| || |||||||||||||| |||||  |||||||||| |||||||| |||||||||  ||||  ||  ||||       |||| | ||      ||  |  || ||| |   | ||   ||||  |       ||||||   ||                               
GAATGCGGAGAAGTAGAGATGAGCGACGAGCAGAAGAAGGAGATCGCTAAGTGGTTCCTCCTCAACTCTCCCGCCGGAGAAATTCAATACGTCGCCAAAGgtgttctttctctgtttctacgaatgcatcttctggaaactcatttgctcttgattctccttcggattaggtttttctgcgtttgataagtggatcgggttttttgtgtgattgtttgcag
















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|298170466|gb|HO019090.1|HO019090
EST:     ATGGTTCCTCCTCAATTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAG                         ATGTGAAATCCATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
genomic: ATGGTTCCTCCTCAATTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAGgttcttcttc ... gtttgtgcagATGTGAAATCCATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
EST: gi|19934424|gb|BQ079454.1|BQ079454
EST:     ATGGTTCCTCCTCAATTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAG                         ATGTGAAATCCATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
genomic: ATGGTTCCTCCTCAATTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAGgttcttcttc ... gtttgtgcagATGTGAAATCCATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
EST: gi|9205376|gb|BE331600.1|BE331600
EST:     ATGGTTCCTCCTCAATTCTCCTCCCGGAGAAATCCAATACGTGGCCAAAG                         ATGTGAAATCCATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
genomic: ATGGTTCCTCCTCAATTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAGgttcttcttc ... gtttgtgcagATGTGAAATCCATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
EST: gi|6502294|gb|AW203667.1|AW203667
EST:     ATGGTTCCTCCTCAATTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAG                         ATGTGAAATCCATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
genomic: ATGGTTCCTCCTCAATTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAGgttcttcttc ... gtttgtgcagATGTGAAATCCATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
EST: gi|27424501|gb|CA936021.1|CA936021
EST:     ATGGTTCCTCCTCAATTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAG                         ATGTGAAATCCATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
genomic: ATGGTTCCTCCTCAATTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAGgttcttcttc ... gtttgtgcagATGTGAAATCCATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
EST: gi|192295752|gb|FG992593.1|FG992593
EST:     ATGGTTCCTCCTCAATTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAG                         ATGTGAAATCCATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
genomic: ATGGTTCCTCCTCAATTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAGgttcttcttc ... gtttgtgcagATGTGAAATCCATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
EST: gi|151412172|gb|EV281984.1|EV281984
EST:     ATGGTTCCTCCTCAATTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAG                         ATGTGAAATCCATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
genomic: ATGGTTCCTCCTCAATTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAGgttcttcttc ... gtttgtgcagATGTGAAATCCATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAAGAAGAAGAATCAGAGCTCAGCGATAAGCAGAAAGTGGAAATCGCGAAATGGTTCCTCCTCAATTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAGgttcttcttccttttccgcatttcctttttcgctatctattgttctacatttcaattaattcccgaaacgtttgtgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA