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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAGAGCAGGGCAAATTGTCACCTGGGTCAGTGATCCTATGCATGGAAACACCATTAAGGCTCCATGTGGTCTTAAAACTCGCCCCTTCGATTTCATCAGGgtatgattctcgtgtctctttctatttcaattggttattggtggctgttgagtagctttaaatatgtgcatgctaggattgaaatcagatttaagttatt...

Basic information

species Glycine max
transcript GLYMA14G35370.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G35370.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv18s0001g06250.t01 (Vitis vinifera), 5'ss of exon 4
CAGAGCAGGGCAAATTGTCACCTGGGTCAGTGATCCTATGCATGGAAACACCATTAAGGCTCCATGTGGTCTTAAAACTCGCCCCTTCGATTTCATCAGGgtatgat---tctcgtgtctctttctatttcaattggttattggtg--gctgttgagtagctttaaatatgtgcatgctaggattgaaatcagatttaagttatt
||| ||||||||||||||||| |||||||||||||||||||||||||||||||| |||||||| |||||||| ||||||||||||||||||  ||||||||||||||     || | | ||||  | ||   | |    ||   |   |  |    | ||   ||  |  |   |  |||        || ||| || | |  | 
CAGGGCAGGGCAAATTGTCACATGGGTCAGTGATCCTATGCATGGAAACACCATCAAGGCTCCCTGTGGTCTCAAAACTCGCCCCTTCGATGCCATCAGGgtatgataaacttcatctttcttgttcttatcactctacataaattttgtcgccaggcagtcatagttgagcagaaactac-----tcattagagttcaatgctc
















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|192326851|gb|FK019173.1|FK019173
EST:     CCATTAAGGCTCCATGTGGTCTTAAAACTCGCCCCTTCGATTTCATCAGG                         GCTGAAGTGAGAGCATTCTTTGATGTGCACGAGCAAGAAGGAAGCCACCCA
genomic: CCATTAAGGCTCCATGTGGTCTTAAAACTCGCCCCTTCGATTTCATCAGGgtatgattct ... aattgtacagGCTGAAGTGAGAGCATTCTTTGATGTGCACGAGCAAGAAGGAAGCCACCCA
EST: gi|19936626|gb|BQ080948.1|BQ080948
EST:     CCATTAANGCTCCATGTGGTCTTAAAACTCGCCCCTTCGATTTCATCAGG                         GCTGAAGTGAGAGCATTCTTTGATGTGCACGAGCAAGAAGGAAGCCACCCA
genomic: CCATTAAGGCTCCATGTGGTCTTAAAACTCGCCCCTTCGATTTCATCAGGgtatgattct ... aattgtacagGCTGAAGTGAGAGCATTCTTTGATGTGCACGAGCAAGAAGGAAGCCACCCA
EST: gi|207776401|gb|GD750394.1|GD750394
EST:     CCATTAAGGCTCCATGTGGTCTTAAAACTCGCCCCTTCGATTTCATCAGG                         GCTGAAGTGAGAGCATTCTTTGATGTGCACGAGCAAGAAGGAAGCCACCCA
genomic: CCATTAAGGCTCCATGTGGTCTTAAAACTCGCCCCTTCGATTTCATCAGGgtatgattct ... aattgtacagGCTGAAGTGAGAGCATTCTTTGATGTGCACGAGCAAGAAGGAAGCCACCCA
EST: gi|192296470|gb|FG991620.1|FG991620
EST:     CCATTAAGGCTCCATGTGGTCTTAAAACTCGCCCCTTCGATTTCATCAGG                         GCTGAAGTGAGAGCATTCTTTGATGTGCACGAGCAAGAAGGAAGCCACCCA
genomic: CCATTAAGGCTCCATGTGGTCTTAAAACTCGCCCCTTCGATTTCATCAGGgtatgattct ... aattgtacagGCTGAAGTGAGAGCATTCTTTGATGTGCACGAGCAAGAAGGAAGCCACCCA
EST: gi|192316961|gb|FK010892.1|FK010892
EST:     CCATTAAGGCTCCATGTGGTCTTAAAACTCGCCCCTTCGATTTCATCAGG                         GCTGAAGTGAGAGCATTCTTTGATGTGCACGAGCAAGAAGGAAGCCACCCA
genomic: CCATTAAGGCTCCATGTGGTCTTAAAACTCGCCCCTTCGATTTCATCAGGgtatgattct ... aattgtacagGCTGAAGTGAGAGCATTCTTTGATGTGCACGAGCAAGAAGGAAGCCACCCA
EST: gi|6455793|gb|AW186484.1|AW186484
EST:     CCATTAAGGCTCCATGTGGTCTTAAAACTCGCCCCTTCGATTTCATCANG                         GCTGAAGTGAGAGCATTCTTTGATGTGCACGAGCAAGAAGGAAGCCACCCA
genomic: CCATTAAGGCTCCATGTGGTCTTAAAACTCGCCCCTTCGATTTCATCAGGgtatgattct ... aattgtacagGCTGAAGTGAGAGCATTCTTTGATGTGCACGAGCAAGAAGGAAGCCACCCA
EST: gi|13251941|gb|BG362844.1|BG362844
EST:     CCATTAAGGCTCCATGTGGTCTTAAAACTCGCCCCTTCGATTTCATCAGG                         GCTGAAGTGAGAGCATTCTTTGATGTGCACGAGCAAGAAGGAAGCCACCCA
genomic: CCATTAAGGCTCCATGTGGTCTTAAAACTCGCCCCTTCGATTTCATCAGGgtatgattct ... aattgtacagGCTGAAGTGAGAGCATTCTTTGATGTGCACGAGCAAGAAGGAAGCCACCCA
EST: gi|298181000|gb|HO022439.1|HO022439
EST:     CCATTAAGGCTCCATGTGGTCTTAAAACTCGCCCCTTCGATTTCATCAGG                         GCTGAAGTGAGAGCATTCTTTGATGTGCACGAGCAAGAAGGAAGCCACCCA
genomic: CCATTAAGGCTCCATGTGGTCTTAAAACTCGCCCCTTCGATTTCATCAGGgtatgattct ... aattgtacagGCTGAAGTGAGAGCATTCTTTGATGTGCACGAGCAAGAAGGAAGCCACCCA
EST: gi|192319266|gb|FK010690.1|FK010690
EST:     CCATTAAGGCTCCATGTGGTCTTAAAACTCGCCCCTTCGATTTCATCAGG                         GCTGAAGTGAGAGCATTCTTTGATGTGCACGAGCAAGAAGGAAGCCACCCA
genomic: CCATTAAGGCTCCATGTGGTCTTAAAACTCGCCCCTTCGATTTCATCAGGgtatgattct ... aattgtacagGCTGAAGTGAGAGCATTCTTTGATGTGCACGAGCAAGAAGGAAGCCACCCA
EST: gi|151412641|gb|EV282453.1|EV282453
EST:     CCATTAAGGCTCCATGTGGTCTTAAAACTCGCCCCTTCGATTTCATCAGG                         GCTGAAGTGAGAGCATTCTTTGATGTGCACGAGCAAGAAGGAAGCCACCCA
genomic: CCATTAAGGCTCCATGTGGTCTTAAAACTCGCCCCTTCGATTTCATCAGGgtatgattct ... aattgtacagGCTGAAGTGAGAGCATTCTTTGATGTGCACGAGCAAGAAGGAAGCCACCCA
EST: gi|151402339|gb|EV272152.1|EV272152
EST:     CCACTAAGGCTCCATGTGGTCTTAAAACTCGCCCCTTCGATTTCATCAGG                         GCTGAAGTGAGAGCATTCTTTGATGTGCACGAGCAAGAAGGAAGCCACCCA
genomic: CCATTAAGGCTCCATGTGGTCTTAAAACTCGCCCCTTCGATTTCATCAGGgtatgattct ... aattgtacagGCTGAAGTGAGAGCATTCTTTGATGTGCACGAGCAAGAAGGAAGCCACCCA
EST: gi|298163934|gb|HO013579.1|HO013579
EST:     CCATTAAGGCTCCATGTGGTCTTAAAACTCGCCCCTTCGATTTCATCAGG                         GCTGAAGTGAGAGCATTCTTTGATGTGCACGGGCAAGAAGGAAGCCACCCA
genomic: CCATTAAGGCTCCATGTGGTCTTAAAACTCGCCCCTTCGATTTCATCAGGgtatgattct ... aattgtacagGCTGAAGTGAGAGCATTCTTTGATGTGCACGAGCAAGAAGGAAGCCACCCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CAGAGCAGGGCAAATTGTCACCTGGGTCAGTGATCCTATGCATGGAAACACCATTAAGGCTCCATGTGGTCTTAAAACTCGCCCCTTCGATTTCATCAGGgtatgattctcgtgtctctttctatttcaattggttattggtggctgttgagtagctttaaatatgtgcatgctaggattgaaatcagatttaagttatt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttggtgg