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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acttgattgacctaccttttacagtaatttgttcattatggttgaataatgatgatcacagttctgattttagtattgttataaaatgttttggctgtagGCTTTCAGTGACAAAAGTAGAGATTATACAGTGCCGGATCCTAGTCTGCTTGCAGCACAAGGTCCACCAACAGCTTGGCAAAATCCTCAGGCTGCATCTA

Basic information

species Glycine max
transcript GLYMA09G37080.1
intron # 10
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|207784087|gb|GD758397.1|GD758397
EST:     ATTGTAAGCTTCATCTATCATACTCTCGTCATACTGATCTCAATGTAAAG                         GCTTTCAGTGACAAAAGTAGAGATTATACAGTGCCGGATCCTAGTCTGCTT
genomic: ATTGTAAGCTTCATCTATCATACTCTCGTCATACTGATCTCAATGTAAAGgtataaaaat ... ttggctgtagGCTTTCAGTGACAAAAGTAGAGATTATACAGTGCCGGATCCTAGTCTGCTT
EST: gi|58024389|gb|CX711130.1|CX711130
EST:     ATTGTAAGCTTCATCTATCATACTCTCGTCATACTGATCTCAATGTAAAG                         GCTTTCAGTGACAAAAGTAGAGATTATACAGTGCCGGATCCTAGTCTGCTT
genomic: ATTGTAAGCTTCATCTATCATACTCTCGTCATACTGATCTCAATGTAAAGgtataaaaat ... ttggctgtagGCTTTCAGTGACAAAAGTAGAGATTATACAGTGCCGGATCCTAGTCTGCTT
EST: gi|193570659|gb|FK522384.1|FK522384
EST:     ATTGTAAGCTTCATCTATCATACTCTCGTCATACTGATCTCAATGTAAAG                         GCTTTCAGTGACAAAAGTAGAGATTATACAGTGCCGGATCCTAGTCTGCTT
genomic: ATTGTAAGCTTCATCTATCATACTCTCGTCATACTGATCTCAATGTAAAGgtataaaaat ... ttggctgtagGCTTTCAGTGACAAAAGTAGAGATTATACAGTGCCGGATCCTAGTCTGCTT
EST: gi|208178396|gb|GD977005.1|GD977005
EST:     ATTGTAAGCTTCATCTATCATACTCTCGTCATACTGATCTCAATGTAAAG                         GCTTTCAGTGACAAAAGTAGAGATTATACAGTGCCGGATCCTAGTCTGCTT
genomic: ATTGTAAGCTTCATCTATCATACTCTCGTCATACTGATCTCAATGTAAAGgtataaaaat ... ttggctgtagGCTTTCAGTGACAAAAGTAGAGATTATACAGTGCCGGATCCTAGTCTGCTT
EST: gi|58014314|gb|CX701056.1|CX701056
EST:     ATTGTAAGCTTCATCTATCATACTCTCGTCATACTGATCTCAATGTAAAG                         GCTTTCAGTGACAAAAGTAGAGATTATACAGTGCCGGATCCTAGTCTGCTT
genomic: ATTGTAAGCTTCATCTATCATACTCTCGTCATACTGATCTCAATGTAAAGgtataaaaat ... ttggctgtagGCTTTCAGTGACAAAAGTAGAGATTATACAGTGCCGGATCCTAGTCTGCTT
EST: gi|193377459|gb|FK340157.1|FK340157
EST:     ATTGTAAGCTTCATCTATCATACTCTCGTCATACTGATCTCAATGTAAAG                         GCTCTCAGTGACAAAAGTAGAGATTATACAGTGCCGGATCCTAGTCTGCTT
genomic: ATTGTAAGCTTCATCTATCATACTCTCGTCATACTGATCTCAATGTAAAGgtataaaaat ... ttggctgtagGCTTTCAGTGACAAAAGTAGAGATTATACAGTGCCGGATCCTAGTCTGCTT
EST: gi|58017755|gb|CX704497.1|CX704497
EST:     ATTGTAAGCTTCATCTATCATACTCTCGTCATACTGATCTCAATGTAAAG                         GCTTTCAGTGACAAAAGTAGAGATTATACAGTGCCGGATCGTAGTCTGCTT
genomic: ATTGTAAGCTTCATCTATCATACTCTCGTCATACTGATCTCAATGTAAAGgtataaaaat ... ttggctgtagGCTTTCAGTGACAAAAGTAGAGATTATACAGTGCCGGATCCTAGTCTGCTT
EST: gi|7283672|gb|AW596276.1|AW596276
EST:     ATTGTAAGCTCCATCTATCATACTCTCGTCATACTGATCTCAATGTAAAG                         GCTCTCAGTGACAAAAGTAGAGATTATACAGTGCCG
genomic: ATTGTAAGCTTCATCTATCATACTCTCGTCATACTGATCTCAATGTAAAGgtataaaaat ... ttggctgtagGCTTTCAGTGACAAAAGTAGAGATTATACAGTGCCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ataatgatgatcacagttctgattttagtattgttataaaatgttttggctgtagGCTTTCAGTGACAAAAGTAGAGATTATACAGTGCCGGATCCTAGTCTGCTTGCAGCACAAGGTCCACCAACAGCTTGGCAAAATCCTCAGGCTGCATCTA
                ttctgat  putative branch site (score: 3)
                   tgattttagtattgtt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
acttgattgacctaccttttacagtaatttgttcattatggttgaataatgatgatcacagttctgattttagtattgttataaaatgttttggctgtagGCTTTCAGTGACAAAAGTAGAGATTATACAGTGCCGGATCCTAGTCTGCTTGCAGCACAAGGTCCACCAACAGCTTGGCAAAATCCTCAGGCTGCATCTA

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