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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agcggggtggttatcccttatcttttcattgcaaaattgcagaaatagggcattaattaatatagattgatggatataaggttttggtttaatttatcagGCTAAAGGTTTGAAGGTCACCTGCTTGTTATGTTATTGCTCAGAAGGGGACAACATATCGGATGCTTTTCAGTTAGGCGATGCAGTATGTAAACTTCTCC

Basic information

species Glycine max
transcript GLYMA11G13100.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G13100.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv03s0063g01800.t01 (Vitis vinifera), 3'ss of exon 5
---agcggggtggttatcccttatcttttcattgcaaaattgcagaaatagggcattaattaatatagattgatggatataaggtt-ttggtttaatttatcagGCTAAAGGTTTGAAGGTCACCTGCTTGTTATGTTATTGCTCAGAAGGGGACAACATATCGGATGCTTTTCAGTTAGGCGATGCAGTATGTAAACTTCTCC
            | ||  |||  |   |    |    | ||| |     ||  ||||  |  |   |    | || || |||  || |||| | | |  ||||||| |||||||||||||| || ||||| |||||||| ||||||||||||||||| ||| | ||||||||  |  | |  || || | ||| ||||||||  
ttatattctactgctactcctagttgctattatatttagttgtaactgcagttcatttgtggactaa----ggtgaatttaactttattggctcattggatcagGCCAAAGGTTTGAAGGTAACTTGCTTATTATGTTACTGCTCAGAAGGGGACAATATACCTGATGCTTTCAATCTGGCTGACGCGGCATGCAAACTTCTTG
















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|58023783|gb|CX710524.1|CX710524
EST:     AAAATTATTATGCTAGCTTGCCTTTTGCTGCACTTTTTTCTTTTCTCAAG                         GCTAAAGGTTTGAAGGTCACCTGCTTGTTATGTTATTGCTCAGAAGGGGAC
genomic: AAAATTATTATGCTAGCTTGCCTTTTGCTGCACTTTTTTCTTTTCTCAAGgtaacttgta ... aatttatcagGCTAAAGGTTTGAAGGTCACCTGCTTGTTATGTTATTGCTCAGAAGGGGAC
EST: gi|192298009|gb|FG993243.1|FG993243
EST:     AAAATTATTATGCTAGCTTGCCTTTTGCTGCACTTTTTTCTTTTCTCAAG                         GCTAAAGGTTTGAAGGTCCCCTGCTTGTTATGTTATTGCTCAGAAGGGGAC
genomic: AAAATTATTATGCTAGCTTGCCTTTTGCTGCACTTTTTTCTTTTCTCAAGgtaacttgta ... aatttatcagGCTAAAGGTTTGAAGGTCACCTGCTTGTTATGTTATTGCTCAGAAGGGGAC
EST: gi|51335190|gb|CO979056.1|CO979056
EST:     AAAATTATTATGCTAGCTTGCCTTTTGCTGCACTTTTTTCTTTTCTCAAG                         GCTAAAGGTTTGAAGGTCACCTGCTTGTTATGTTATTGCTCAGAAGGGGAC
genomic: AAAATTATTATGCTAGCTTGCCTTTTGCTGCACTTTTTTCTTTTCTCAAGgtaacttgta ... aatttatcagGCTAAAGGTTTGAAGGTCACCTGCTTGTTATGTTATTGCTCAGAAGGGGAC
EST: gi|151399130|gb|EV269001.1|EV269001
EST:     AAAATTATTATGCTAGCTTGCCTTTTGCTGCACTTTTT-CTTT-CTCAAG                         -CTAA-GGTTTGAAG-TCACCTGCTTGTTATGTTATTGCTCAGAAGGG
genomic: AAAATTATTATGCTAGCTTGCCTTTTGCTGCACTTTTTTCTTTTCTCAAGgtaacttgta ... aatttatcagGCTAAAGGTTTGAAGGTCACCTGCTTGTTATGTTATTGCTCAGAAGGG
EST: gi|192320077|gb|FK014161.1|FK014161
EST:     AAAATTATTATGCTAGCTTGCCTTTTGCTGCACTTTTTTCTTTTCTCAAG                         GCTAAAGGTTTGAAGGTCACCTGCTTGTTATGTTATTGCTCAGAAGGGGAC
genomic: AAAATTATTATGCTAGCTTGCCTTTTGCTGCACTTTTTTCTTTTCTCAAGgtaacttgta ... aatttatcagGCTAAAGGTTTGAAGGTCACCTGCTTGTTATGTTATTGCTCAGAAGGGGAC
EST: gi|57574613|gb|CX547588.1|CX547588
EST:     AAAATTATTATGCTAGCTTGCCTTTTGCTGCACTTTTCTCTTTTCTCAAG                         GCTAAAGGTTTGAAGGTCACCTGCTTGTTATGTTATTGCTCAGAAGGGGAC
genomic: AAAATTATTATGCTAGCTTGCCTTTTGCTGCACTTTTTTCTTTTCTCAAGgtaacttgta ... aatttatcagGCTAAAGGTTTGAAGGTCACCTGCTTGTTATGTTATTGCTCAGAAGGGGAC
EST: gi|58023165|gb|CX709906.1|CX709906
EST:     AAAATTATTATGCTAGCTTGCCTTTTGCTGCACTTTTCTCTTTTCTCAAG                         GCTAAAGGTTTGAAGGTCACCTGCTTGTTATGTTATTGCTCAGAAGGGGAC
genomic: AAAATTATTATGCTAGCTTGCCTTTTGCTGCACTTTTTTCTTTTCTCAAGgtaacttgta ... aatttatcagGCTAAAGGTTTGAAGGTCACCTGCTTGTTATGTTATTGCTCAGAAGGGGAC
EST: gi|10254670|gb|BE822436.1|BE822436
EST:     AAAATTATTATGCTAGCTTGCCTTTTGCTGCACTTTTTTCTTTTCTCAAG                         GCTAAAGGTTTGAAGGTCACCTGCTTGTTATGTTATTGCTCAGAAGGGGAC
genomic: AAAATTATTATGCTAGCTTGCCTTTTGCTGCACTTTTTTCTTTTCTCAAGgtaacttgta ... aatttatcagGCTAAAGGTTTGAAGGTCACCTGCTTGTTATGTTATTGCTCAGAAGGGGAC
EST: gi|58020212|gb|CX706954.1|CX706954
EST:     AAAATTATTATGCTAGCTTGCCTTTTGCTGCACTTTTTTCTTTTCTCAAG                         GCTAAAGGTTTGAAGGTCACCTGCTTGTTATGTTATTGCTCAGAAGGGGAC
genomic: AAAATTATTATGCTAGCTTGCCTTTTGCTGCACTTTTTTCTTTTCTCAAGgtaacttgta ... aatttatcagGCTAAAGGTTTGAAGGTCACCTGCTTGTTATGTTATTGCTCAGAAGGGGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagggcattaattaatatagattgatggatataaggttttggtttaatttatcagGCTAAAGGTTTGAAGGTCACCTGCTTGTTATGTTATTGCTCAGAAGGGGACAACATATCGGATGCTTTTCAGTTAGGCGATGCAGTATGTAAACTTCTCC
      attaattaatatagat  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
agcggggtggttatcccttatcttttcattgcaaaattgcagaaatagggcattaattaatatagattgatggatataaggttttggtttaatttatcagGCTAAAGGTTTGAAGGTCACCTGCTTGTTATGTTATTGCTCAGAAGGGGACAACATATCGGATGCTTTTCAGTTAGGCGATGCAGTATGTAAACTTCTCC

- - gggtggt
- - - - - - - - - - - - - cattgca
- - - - - - - - - - - - - - - - - - - - - - - - ggcatta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttgatgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggttttg