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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAGAGGAAGAATCAGAGCTCAGCGATAAGCAGAAAGTGGAGATCGCGAAATGGTTCCTCCTCAACTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAGgttacttcttcttcttcttctttttccgcattttctttttcgctttctatctattattctacaattgaatcaattaccgaatattttctgcag

Basic information

species Glycine max
transcript GLYMA03G39530.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G39530.1 (Glycine max), 5'ss of exon 1
lower sequence: Vv14s0060g02220.t01 (Vitis vinifera), 5'ss of exon 1
GAAGAGGAAGAATCAGAGCTCAGCGATAAGCAGAAAGTGGAGATCGCGAAATGGTTCCTCCTCAACTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAGgt-tacttcttcttcttcttct------ttttccg------cattttctttt---tcgctttctatcta--ttattctacaattgaatcaattaccgaatattttctgcag----------
|||   | ||||  |||| | |||||  |||||||   ||||||||| || ||||||||||||||||||||  |||||||||| |||||||| ||||||||| | |||  |||  |||| |       | ||| |      ||||| || ||   || | |||    ||  || |||| |  ||||       | ||  | |||| ||             
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|192308192|gb|FK001290.1|FK001290
EST:     ATGGTTCCTCCTCAACTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAG                         ATGTGAAATCGATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
genomic: ATGGTTCCTCCTCAACTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAGgttacttctt ... ttttctgcagATGTGAAATCGATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
EST: gi|213613616|gb|DB963304.1|DB963304
EST:     ATGGTTCCTCCTCAACTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAG                         ATGTGAAATCGATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
genomic: ATGGTTCCTCCTCAACTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAGgttacttctt ... ttttctgcagATGTGAAATCGATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
EST: gi|151403727|gb|EV273537.1|EV273537
EST:     ATGGTTCCTCCTCAACTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAG                         ATGTGAAATCGATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
genomic: ATGGTTCCTCCTCAACTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAGgttacttctt ... ttttctgcagATGTGAAATCGATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
EST: gi|192295129|gb|FG986848.1|FG986848
EST:     ATGGTTCCTCCTCAACTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAG                         ATGTGAAATCGATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
genomic: ATGGTTCCTCCTCAACTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAGgttacttctt ... ttttctgcagATGTGAAATCGATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
EST: gi|192303311|gb|FG995619.1|FG995619
EST:     ATGGTTCCTCCTCAACTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAG                         ATGTGAAATCGATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
genomic: ATGGTTCCTCCTCAACTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAGgttacttctt ... ttttctgcagATGTGAAATCGATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
EST: gi|192322679|gb|FK015016.1|FK015016
EST:     AACTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAG                         ATGTGAAATCGATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
genomic: AACTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAGgttacttctt ... ttttctgcagATGTGAAATCGATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
EST: gi|7234298|gb|AW569637.1|AW569637
EST:     GGAGAAATCCAATACGTTGCCAAAG                         ATGTGAAATCGATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
genomic: GGAGAAATCCAATACGTTGCCAAAGgttacttctt ... ttttctgcagATGTGAAATCGATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
EST: gi|298184947|gb|HO030160.1|HO030160
EST:     ATGGTTCCTCCTCAACTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAG                         GTGTGAAATCGATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
genomic: ATGGTTCCTCCTCAACTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAGgttacttctt ... ttttctgcagATGTGAAATCGATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
EST: gi|4282509|gb|AI440540.1|AI440540
EST:     ATGGTTCCTCCTCAACTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAG                         ATGTGAAATCGATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
genomic: ATGGTTCCTCCTCAACTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAGgttacttctt ... ttttctgcagATGTGAAATCGATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
EST: gi|9903152|gb|BE612120.1|BE612120
EST:     ATGGTTCCTCCTCAACTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAG                         ATGTGAAATCGATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
genomic: ATGGTTCCTCCTCAACTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAGgttacttctt ... ttttctgcagATGTGAAATCGATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
EST: gi|21677242|gb|BQ629593.1|BQ629593
EST:     ATGGTTCCTCCTCAACTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAG                         ATGTGAAATCGATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
genomic: ATGGTTCCTCCTCAACTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAGgttacttctt ... ttttctgcagATGTGAAATCGATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
EST: gi|18040959|gb|BM309253.1|BM309253
EST:     ATGGTTCCTCCTCAACTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAG                         ATGTGAAATCGATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
genomic: ATGGTTCCTCCTCAACTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAGgttacttctt ... ttttctgcagATGTGAAATCGATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
EST: gi|24135512|gb|BU926022.1|BU926022
EST:     ATGGTTCCTCCTCAACTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAG                         ATGTGAAATCGATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
genomic: ATGGTTCCTCCTCAACTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAGgttacttctt ... ttttctgcagATGTGAAATCGATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
EST: gi|151397822|gb|EV267695.1|EV267695
EST:     ATGGTTCCTCCTCAACTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAG                         ATGTGAAATCGATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
genomic: ATGGTTCCTCCTCAACTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAGgttacttctt ... ttttctgcagATGTGAAATCGATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
EST: gi|22541742|gb|BU091585.1|BU091585
EST:     ATGGTTCCTCCTCAACTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAG                         ATGTGAAATCGATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
genomic: ATGGTTCCTCCTCAACTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAGgttacttctt ... ttttctgcagATGTGAAATCGATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
EST: gi|192313101|gb|FK004691.1|FK004691
EST:     ATGGTTCCTCCTCAACTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAG                         ATGTGAAATCGATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
genomic: ATGGTTCCTCCTCAACTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAGgttacttctt ... ttttctgcagATGTGAAATCGATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
EST: gi|192299932|gb|FG992145.1|FG992145
EST:     ATGGTTCCTCCTCAACTCTCCTTCCGGAGAAATCCAATACGTTGCCAAAG                         ATGTGAAATCGATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
genomic: ATGGTTCCTCCTCAACTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAGgttacttctt ... ttttctgcagATGTGAAATCGATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
EST: gi|298194345|gb|HO040993.1|HO040993
EST:     ATGGTTCCTCCTCAACTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAG                         ATGTGAAATCGATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
genomic: ATGGTTCCTCCTCAACTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAGgttacttctt ... ttttctgcagATGTGAAATCGATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
EST: gi|298180513|gb|HO022066.1|HO022066
EST:     ATGGTTCCTCCTCAACTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAG                         ATGTGAAATCGATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
genomic: ATGGTTCCTCCTCAACTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAGgttacttctt ... ttttctgcagATGTGAAATCGATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
EST: gi|151399910|gb|EV269781.1|EV269781
EST:     ATGGTTCCTCCTCAACTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAG                         ATGTGAAATCGATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
genomic: ATGGTTCCTCCTCAACTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAGgttacttctt ... ttttctgcagATGTGAAATCGATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
EST: gi|151399252|gb|EV269123.1|EV269123
EST:     CCAATACGTTGCCAAAG                         ATGTGAAATCGATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
genomic: CCAATACGTTGCCAAAGgttacttctt ... ttttctgcagATGTGAAATCGATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
EST: gi|192313102|gb|FK004692.1|FK004692
EST:     ATGGTTCCTCCTCAACTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAG                         ATGTGAAATCGATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
genomic: ATGGTTCCTCCTCAACTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAGgttacttctt ... ttttctgcagATGTGAAATCGATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
EST: gi|9203900|gb|BE330124.1|BE330124
EST:     ATGGTTCCTCCTCAACTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAG                         ATGTGAAATCGATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG
genomic: ATGGTTCCTCCTCAACTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAGgttacttctt ... ttttctgcagATGTGAAATCGATTCTCAACAACGACGATTTGTACAAGGAAGCCGCTTCCG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAAGAGGAAGAATCAGAGCTCAGCGATAAGCAGAAAGTGGAGATCGCGAAATGGTTCCTCCTCAACTCTCCTCCCGGAGAAATCCAATACGTTGCCAAAGgttacttcttcttcttcttctttttccgcattttctttttcgctttctatctattattctacaattgaatcaattaccgaatattttctgcag

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