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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTCGAAGGAGAGACCCACTCTTGggtaagtttcgttctttctcccctcacgataatactttgttctcttcttctatgtttttgtatagctaagatgtgtttttttaatgctacatgctgtgta...

Basic information

species Glycine max
transcript GLYMA18G47780.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G47780.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv04s0023g00670.t01 (Vitis vinifera), 5'ss of exon 3
GCTCGAAGGAGAGACCCACTCTTGggtaagtttcgttctttctcc---cctcacgataatactttgttctcttcttctatgtttttgtatagctaagatgtgtttttttaatgctacatgctgtgta
 ||||||||||||||||||||| |||||||||| ||  | |   |   ||| |   |   | ||   | | |  ||           |   |  ||||   |    |  | |  |  ||  | ||  
-CTCGAAGGAGAGACCCACTCTCGGgtaagttttgtgatattcacaatccttattttgtaatttacctgtttggttgctgaaaaaactgaggaaaagaaaagaaaataaagttttggattttatg--
















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|120531863|gb|EH259996.1|EH259996
EST:     AGCTCGAAGGAGAGACCCACTCTTG                         GTGGCACGCGGATTAAGACCCGCAAACGAAATATTGCTGCGCCGCTGGACC
genomic: AGCTCGAAGGAGAGACCCACTCTTGggtaagtttc ... tccatccccaGTGGCACGCGGATTAAGACCCGCAAACGAAATATTGCTGCGCCGCTGGACC
EST: gi|23727845|gb|BU761958.1|BU761958
EST:     AGCTCGAAGGAGAGACCCACTCTTG                         GTGGCACGCGGATTAAGACCCGCAAACGAAATATTGCTGCGCCGCTGGACC
genomic: AGCTCGAAGGAGAGACCCACTCTTGggtaagtttc ... tccatccccaGTGGCACGCGGATTAAGACCCGCAAACGAAATATTGCTGCGCCGCTGGACC
EST: gi|21889224|gb|BQ742437.1|BQ742437
EST:     AGCTCGAAGGAGAGACCCACTCTTG                         GTGGCACGCGGATTAAGACCCGCAAACGAAATATTGCTGCGCCGCTGGACC
genomic: AGCTCGAAGGAGAGACCCACTCTTGggtaagtttc ... tccatccccaGTGGCACGCGGATTAAGACCCGCAAACGAAATATTGCTGCGCCGCTGGACC
EST: gi|10233547|gb|BE802435.1|BE802435
EST:     AGCTCGAAGGAGAGACCCACTCTTG                         GTGGCACGCGGATTAAGACCCGCAAACGAAATATTGCTGCGCCGCTGGACC
genomic: AGCTCGAAGGAGAGACCCACTCTTGggtaagtttc ... tccatccccaGTGGCACGCGGATTAAGACCCGCAAACGAAATATTGCTGCGCCGCTGGACC
EST: gi|10709161|gb|BF008885.1|BF008885
EST:     AGCTCGAAGGAGAGACCCACTCTTG                         GTGGCACGCGGATTAAGACCCGCAAACGAAATATTGCTGCGCCGCTGGACC
genomic: AGCTCGAAGGAGAGACCCACTCTTGggtaagtttc ... tccatccccaGTGGCACGCGGATTAAGACCCGCAAACGAAATATTGCTGCGCCGCTGGACC
EST: gi|17963939|gb|BM270682.1|BM270682
EST:     AGCTCGAAGGAGAGACCCACTCTTG                         GTGGCACGCGGATTAAGACCCGCAAACGAAATATTGCTGCGCCGCTGGACC
genomic: AGCTCGAAGGAGAGACCCACTCTTGggtaagtttc ... tccatccccaGTGGCACGCGGATTAAGACCCGCAAACGAAATATTGCTGCGCCGCTGGACC
EST: gi|4292136|gb|AI437719.1|AI437719
EST:     AGCTCGAAGGAGAGACCCACTCTTG                         GTGGCACGCGGATTAAGACCCGCAAACGAAATATTGCTGCGCCGCTGGACC
genomic: AGCTCGAAGGAGAGACCCACTCTTGggtaagtttc ... tccatccccaGTGGCACGCGGATTAAGACCCGCAAACGAAATATTGCTGCGCCGCTGGACC
EST: gi|14126644|gb|BG791082.1|BG791082
EST:     AGCTCGAAGGAGAGACCCACTCTTG                         GTGGCACGCGGATTAAGACCCGCAAACGAAATATTGCTGCGCCGCTGGACC
genomic: AGCTCGAAGGAGAGACCCACTCTTGggtaagtttc ... tccatccccaGTGGCACGCGGATTAAGACCCGCAAACGAAATATTGCTGCGCCGCTGGACC
EST: gi|24135721|gb|BU926231.1|BU926231
EST:     AGCTCGAAGGAGAGACCCACTCTTG                         GTGGCACGCGGATTAAGACCCGCAAACGAAATATTGCTGCGCCGCTGGACC
genomic: AGCTCGAAGGAGAGACCCACTCTTGggtaagtttc ... tccatccccaGTGGCACGCGGATTAAGACCCGCAAACGAAATATTGCTGCGCCGCTGGACC
EST: gi|14125668|gb|BG790106.1|BG790106
EST:     AGCTCGAAGGAGAGACCCACTCTTG                         GTGGCACGCGGATTAAGACCCGCAAACGAAATATTGCTGCGCCGCTGGACC
genomic: AGCTCGAAGGAGAGACCCACTCTTGggtaagtttc ... tccatccccaGTGGCACGCGGATTAAGACCCGCAAACGAAATATTGCTGCGCCGCTGGACC
EST: gi|17518498|gb|BM187540.1|BM187540
EST:     AGCTCGAAGGAGAGACCCACTCTTG                         GTGGCACGCGGATTAAGACCCGCAAACGAAATATTGCTGCGCCGCTGGACC
genomic: AGCTCGAAGGAGAGACCCACTCTTGggtaagtttc ... tccatccccaGTGGCACGCGGATTAAGACCCGCAAACGAAATATTGCTGCGCCGCTGGACC
EST: gi|19345855|gb|BM890735.1|BM890735
EST:     AGCTCGAAGGAGAGACCCACTCTTG                         GTGGCACGCGGATTAAGACCCGCAAACGAAATATTGCTGCGCCGCTGGACC
genomic: AGCTCGAAGGAGAGACCCACTCTTGggtaagtttc ... tccatccccaGTGGCACGCGGATTAAGACCCGCAAACGAAATATTGCTGCGCCGCTGGACC
EST: gi|20811794|gb|BQ296272.1|BQ296272
EST:     AGCTCGAAGGAGAGACCCACTCTTG                         GTGGCACGCGGATTAAGACCCGCAAACGAAATATTGCTGCGCCGCTGGACC
genomic: AGCTCGAAGGAGAGACCCACTCTTGggtaagtttc ... tccatccccaGTGGCACGCGGATTAAGACCCGCAAACGAAATATTGCTGCGCCGCTGGACC
EST: gi|151410055|gb|EV279863.1|EV279863
EST:     AGCTCGAAGGAGAGACCCACTCTTG                         GTGGCACGCGGATTAAGACCCGCAAACGAAATATTGCTGCGCCGCTGGACC
genomic: AGCTCGAAGGAGAGACCCACTCTTGggtaagtttc ... tccatccccaGTGGCACGCGGATTAAGACCCGCAAACGAAATATTGCTGCGCCGCTGGACC
EST: gi|18039719|gb|BM308013.1|BM308013
EST:     AGCTCGAAGGAGAGACCCACTCTTG                         GTGGCACGCGGATTAAGACCCGCAAACGAAATATTGCTGCGCCGCTGGACC
genomic: AGCTCGAAGGAGAGACCCACTCTTGggtaagtttc ... tccatccccaGTGGCACGCGGATTAAGACCCGCAAACGAAATATTGCTGCGCCGCTGGACC
EST: gi|18041364|gb|BM309658.1|BM309658
EST:     AGCTCGAAGGAGAGACCCACTCTTG                         GTGGCACGCGGATTAAGACCCGCAAACGAAATATTGCTGCGCCGCTGGACC
genomic: AGCTCGAAGGAGAGACCCACTCTTGggtaagtttc ... tccatccccaGTGGCACGCGGATTAAGACCCGCAAACGAAATATTGCTGCGCCGCTGGACC
EST: gi|151394651|gb|EV264522.1|EV264522
EST:     AGCTCGAAGGAGAGACCCACTCTTG                         GTGGCACGCGGATTAAGACCCGCAAACGAAATATTGCTGCGCCGCTGGACC
genomic: AGCTCGAAGGAGAGACCCACTCTTGggtaagtttc ... tccatccccaGTGGCACGCGGATTAAGACCCGCAAACGAAATATTGCTGCGCCGCTGGACC
EST: gi|120494210|gb|EH222377.1|EH222377
EST:     AGCTCGAAGGAGAGACCCACTCTTG                         GTGGCACGCGGATTAAGACCCGCAAACGAAATATTGCTGCGCCGCTGGACC
genomic: AGCTCGAAGGAGAGACCCACTCTTGggtaagtttc ... tccatccccaGTGGCACGCGGATTAAGACCCGCAAACGAAATATTGCTGCGCCGCTGGACC
EST: gi|11413000|gb|BF425020.1|BF425020
EST:     AGCTCGAAGGAGAGACCCACTCTTG                         GTGGCACGCGGATTAAGACCCGCAAACGAAATATTGCTGCGCCGCTGGACC
genomic: AGCTCGAAGGAGAGACCCACTCTTGggtaagtttc ... tccatccccaGTGGCACGCGGATTAAGACCCGCAAACGAAATATTGCTGCGCCGCTGGACC
EST: gi|18041470|gb|BM309764.1|BM309764
EST:     AGCTCGAAGGAGAGACCCACTCTTG                         GTGGCACGCGGATTAAGACCCGCAAACGAAATATTGCTGCGCCGCTGGACC
genomic: AGCTCGAAGGAGAGACCCACTCTTGggtaagtttc ... tccatccccaGTGGCACGCGGATTAAGACCCGCAAACGAAATATTGCTGCGCCGCTGGACC
EST: gi|209702200|gb|BW673232.1|BW673232
EST:     AGCTCGAAGGAGAGACCCACTCTTG                         GTGGCACGCGGATTAAGACCCGCAAACGAAATATTGCTGCGCCGCTGGACC
genomic: AGCTCGAAGGAGAGACCCACTCTTGggtaagtttc ... tccatccccaGTGGCACGCGGATTAAGACCCGCAAACGAAATATTGCTGCGCCGCTGGACC
EST: gi|9987802|gb|BE661910.1|BE661910
EST:     AGCTCGAAGGAGAGACCCACTCTTG                         GTGGCACGCGGATTAAGACCCGCAAACGAAATATTGCTGCGCCGCTGGACC
genomic: AGCTCGAAGGAGAGACCCACTCTTGggtaagtttc ... tccatccccaGTGGCACGCGGATTAAGACCCGCAAACGAAATATTGCTGCGCCGCTGGACC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCTCGAAGGAGAGACCCACTCTTGggtaagtttcgttctttctcccctcacgataatactttgttctcttcttctatgtttttgtatagctaagatgtgtttttttaatgctacatgctgtgta

- -  AAGGAG
- - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctcccct