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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttaagaagccctgatttcatattaacatttgagggctattgatttaaatatatatcaatattatatgtttttcttctaatttatattgaaatcctaacagACTGAATACAAGAGAATCGTATCTCCCCTGAAATATCAGACCAGATCTGTTGCTGCTTTTCCAGATCAACAAGGTTTTTTG

Basic information

species Glycine max
transcript GLYMA02G13780.1
intron # 5
splice site 3'
intron type U2

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|6915623|gb|AW397153.1|AW397153
EST:     TGGGAACTGCTGATAGAAATCTGATTGTCTTCAACCTGCAAAATCCTCAG                         ACTGAATACAAGAGAATCGTATCTCCCCTGAAATATCAGACCAGATCTGTT
genomic: TGGGAACTGCTGATAGAAATCTGATTGTCTTCAACCTGCAAAATCCTCAGgtgatattta ... atcctaacagACTGAATACAAGAGAATCGTATCTCCCCTGAAATATCAGACCAGATCTGTT
EST: gi|151398315|gb|EV268186.1|EV268186
EST:     TGGGAACTGCTGATAGAAATCTGATTGTCTTCA-CCTGCAAA-TCCTCAG                         ACTGA-TACAAGAGA-TCGTATCTCCC-TGAA-TATC
genomic: TGGGAACTGCTGATAGAAATCTGATTGTCTTCAACCTGCAAAATCCTCAGgtgatattta ... atcctaacagACTGAATACAAGAGAATCGTATCTCCCCTGAAATATC
EST: gi|58015700|gb|CX702442.1|CX702442
EST:     TGGGAACTGCTGATAGAAATCTGATTGTCTTCAACNTGCAAAATCCTCAG                         ACTGAATACAAGAGAATCGTATCTCCCCTGAAATATCAGACCAGATCTGTT
genomic: TGGGAACTGCTGATAGAAATCTGATTGTCTTCAACCTGCAAAATCCTCAGgtgatattta ... atcctaacagACTGAATACAAGAGAATCGTATCTCCCCTGAAATATCAGACCAGATCTGTT
EST: gi|42722614|gb|CK768513.1|CK768513
EST:     TGGGAACTGCTGATAGAAATCTGATTGTCTTCAACCTGCAAAATCCTCAG                         ACTGAATACAAGAGAATCGTATCTCCCCTGAAATATCAGACCAGATCTGTT
genomic: TGGGAACTGCTGATAGAAATCTGATTGTCTTCAACCTGCAAAATCCTCAGgtgatattta ... atcctaacagACTGAATACAAGAGAATCGTATCTCCCCTGAAATATCAGACCAGATCTGTT
EST: gi|58015403|gb|CX702145.1|CX702145
EST:     TGGGAACTGCTGATAGAAATCTGATTGTCTTCAACCTGCAAAATCCTCAG                         ACTGAATACAAGAGAATCGTATCTCCCCTGAAATATCAGACCAGATCTGTT
genomic: TGGGAACTGCTGATAGAAATCTGATTGTCTTCAACCTGCAAAATCCTCAGgtgatattta ... atcctaacagACTGAATACAAGAGAATCGTATCTCCCCTGAAATATCAGACCAGATCTGTT
EST: gi|10232293|gb|BE801181.1|BE801181
EST:     TGGGAACTGCTGATAGAAATCTGATTGTCTTCAACCTGCAAAATCCTCAG                         ACTGAATACAAGAGAATCGTATCTCCCCTGAAATATCAGACCAGATCTGTT
genomic: TGGGAACTGCTGATAGAAATCTGATTGTCTTCAACCTGCAAAATCCTCAGgtgatattta ... atcctaacagACTGAATACAAGAGAATCGTATCTCCCCTGAAATATCAGACCAGATCTGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaatatatatcaatattatatgtttttcttctaatttatattgaaatcctaacagACTGAATACAAGAGAATCGTATCTCCCCTGAAATATCAGACCAGATCTGTTGCTGCTTTTCCAGATCAACAAGGTTTTTTG
                            ttctaat  putative branch site (score: 2)
     tatatcaatattatat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttaagaagccctgatttcatattaacatttgagggctattgatttaaatatatatcaatattatatgtttttcttctaatttatattgaaatcctaacagACTGAATACAAGAGAATCGTATCTCCCCTGAAATATCAGACCAGATCTGTTGCTGCTTTTCCAGATCAACAAGGTTTTTTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - -cctgatt
- - - - - - - - - - - - - - - - - gctattg