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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagttttccctctctctttctctctttagggttcactccaaattcattgtattcatatatttattattcagGGAGACAGGAACGATTCTGAAGATCAACCTCCTTCCAAGCGTCGACTTTCATCTGCCGTCGTTAAG

Basic information

species Glycine max
transcript GLYMA08G19640.1
intron # 2
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|193358073|gb|FK319687.1|FK319687
EST:     CTCCTGCTCTCCGCACTAACGGTGTTCGCCAACGA-CCTTTATTCGCCCT                         GGAGACAGGAACGATTCTGAAGATCAACCTCCTTCCAAGCGTCGACTTTCA
genomic: CTCCTGCTCTCCGCACTAACGGTGTTCGCCAACGACCCTTTATTCGCCCTgttagttttc ... tattattcagGGAGACAGGAACGATTCTGAAGATCAACCTCCTTCCAAGCGTCGACTTTCA
EST: gi|208197185|gb|GD999372.1|GD999372
EST:     CACTAACGGTGTTCGCCAACGACCCTTTATTCGCCCT                         GGAGACAGGAACGATTCTGAAGATCAACCTCCTTCCAAGCGTCGACTTTCA
genomic: CACTAACGGTGTTCGCCAACGACCCTTTATTCGCCCTgttagttttc ... tattattcagGGAGACAGGAACGATTCTGAAGATCAACCTCCTTCCAAGCGTCGACTTTCA
EST: gi|193380715|gb|FK347440.1|FK347440
EST:     CTCCTGCTCTCCGCACTAACGGTGTTCGCCAACGACCCTTTATTCGCCCT                         GGAGACAGGAACGATTCTGAAGATCAACCTCCTTCCAAGCGTCGACTTTCA
genomic: CTCCTGCTCTCCGCACTAACGGTGTTCGCCAACGACCCTTTATTCGCCCTgttagttttc ... tattattcagGGAGACAGGAACGATTCTGAAGATCAACCTCCTTCCAAGCGTCGACTTTCA
EST: gi|208089087|gb|GD888196.1|GD888196
EST:     TCCTGTCTCTCCGCACTAACGGTGTTCGCCAACGACCCTTTATTCGCCCT                         GGAGACAGGAACGATTCTGAAGATCAACCTCCTTCCAAGCGTCGACTTTCA
genomic: TCCTG-CTCTCCGCACTAACGGTGTTCGCCAACGACCCTTTATTCGCCCTgttagttttc ... tattattcagGGAGACAGGAACGATTCTGAAGATCAACCTCCTTCCAAGCGTCGACTTTCA
EST: gi|213601376|gb|DB968706.1|DB968706
EST:     CTCCTGCTCTCCGCACTAACGGTGTTCGCCAACGACCCTTTATTCGCCCT                         GGAGACAGGAACGATTCTGAAGATCAACCTCCTTCCAAGCGTCGACTTTCA
genomic: CTCCTGCTCTCCGCACTAACGGTGTTCGCCAACGACCCTTTATTCGCCCTgttagttttc ... tattattcagGGAGACAGGAACGATTCTGAAGATCAACCTCCTTCCAAGCGTCGACTTTCA
EST: gi|208117757|gb|GD914639.1|GD914639
EST:     CTCCTGCTCTCCGCACTAACGGTGTTCGCCAACGACCCTTTATTCGCCCG                         GGAGACAGGAACGATTCTGAAGATCAACCTCCTTCCAAGCGTCGACTTTCA
genomic: CTCCTGCTCTCCGCACTAACGGTGTTCGCCAACGACCCTTTATTCGCCCTgttagttttc ... tattattcagGGAGACAGGAACGATTCTGAAGATCAACCTCCTTCCAAGCGTCGACTTTCA
EST: gi|208313448|gb|GE116004.1|GE116004
EST:     CCTGCTCTTCCGTCACTAACGGTGTTCGCCAACGACCCTTTATTCGCCCT                         GGAGACAGGAACGATTCTGAAGATCAACCTCCTTCCAAGCGTCGACTTTCA
genomic: CCTGCTC-TCCG-CACTAACGGTGTTCGCCAACGACCCTTTATTCGCCCTgttagttttc ... tattattcagGGAGACAGGAACGATTCTGAAGATCAACCTCCTTCCAAGCGTCGACTTTCA
EST: gi|6482510|gb|AW201767.1|AW201767
EST:     CTCCTGCTCTCCGCACTAACGGTGTTCGCCAACGACCCTTTATTCGCCCT                         GGAGACAGGAACGATTCTGAAGATCAACCTCCTTCCAAGCGTCGACTTTCA
genomic: CTCCTGCTCTCCGCACTAACGGTGTTCGCCAACGACCCTTTATTCGCCCTgttagttttc ... tattattcagGGAGACAGGAACGATTCTGAAGATCAACCTCCTTCCAAGCGTCGACTTTCA
EST: gi|207790516|gb|GD760449.1|GD760449
EST:     CTCCTGCTCTCCGCACTAACGGTGTTCGCCAACGACCCTTTATTCGCCCT                         GGAGACAGGAACGATTCGGAAGATCAACCTCCCTCCAAGCGTCGACTTTCA
genomic: CTCCTGCTCTCCGCACTAACGGTGTTCGCCAACGACCCTTTATTCGCCCTgttagttttc ... tattattcagGGAGACAGGAACGATTCTGAAGATCAACCTCCTTCCAAGCGTCGACTTTCA
EST: gi|298169192|gb|HO020552.1|HO020552
EST:     CTCCTGCTCTCCGCACTAACGGTGTTCGCCAACGACCCTTTATTCGCCCT                         GGAGACAGGAACGATTCTGAAGATCAACCTCCTTCCAAGCGTCGACTTTCA
genomic: CTCCTGCTCTCCGCACTAACGGTGTTCGCCAACGACCCTTTATTCGCCCTgttagttttc ... tattattcagGGAGACAGGAACGATTCTGAAGATCAACCTCCTTCCAAGCGTCGACTTTCA
EST: gi|193380644|gb|FK347384.1|FK347384
EST:     CCCTTTATTCGCCCT                         GGAGACAGGAACGATTCTGAAGATCAACCTCCTTCCAAGTGTCGACTTTCA
genomic: CCCTTTATTCGCCCTgttagttttc ... tattattcagGGAGACAGGAACGATTCTGAAGATCAACCTCCTTCCAAGCGTCGACTTTCA
EST: gi|207784086|gb|GD758396.1|GD758396
EST:     CTCCTGCTCTCCGCACTAACGGTGTTCGCCAACGACCCTTTATTCGCCCT                         GGAGACAGGAACGATTCTGAAGATCAACCTCCTTCCAAGCGTCGACTTTCA
genomic: CTCCTGCTCTCCGCACTAACGGTGTTCGCCAACGACCCTTTATTCGCCCTgttagttttc ... tattattcagGGAGACAGGAACGATTCTGAAGATCAACCTCCTTCCAAGCGTCGACTTTCA
EST: gi|208058055|gb|GD860158.1|GD860158
EST:     CTCCTGCTCTCCGCACTAACCGTGTTCGCCAACGACCCTTTATTCGCCCT                         GGAGACAGGAACGATTCTGAAGATCAACCTCCTTCCAAGCGTCGACTTTCA
genomic: CTCCTGCTCTCCGCACTAACGGTGTTCGCCAACGACCCTTTATTCGCCCTgttagttttc ... tattattcagGGAGACAGGAACGATTCTGAAGATCAACCTCCTTCCAAGCGTCGACTTTCA
EST: gi|208247720|gb|GE044842.1|GE044842
EST:     CTCCTGCTCTCCGCACTAACGGTGTTCGCCAACGACCCTTTATTCGCCCT                         GGAGACAGGAACGATTCTGAAGATCAACCTCCTTCCAAGCGTCGACTTTCA
genomic: CTCCTGCTCTCCGCACTAACGGTGTTCGCCAACGACCCTTTATTCGCCCTgttagttttc ... tattattcagGGAGACAGGAACGATTCTGAAGATCAACCTCCTTCCAAGCGTCGACTTTCA
EST: gi|207823507|gb|GD795792.1|GD795792
EST:     CTCCTGCTCTCCGCACTAACGGTGTTCGCCAACGACCCTTTATTCGCCCT                         GGAGACAGGAACG
genomic: CTCCTGCTCTCCGCACTAACGGTGTTCGCCAACGACCCTTTATTCGCCCTgttagttttc ... tattattcagGGAGACAGGAACG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttctctctttagggttcactccaaattcattgtattcatatatttattattcagGGAGACAGGAACGATTCTGAAGATCAACCTCCTTCCAAGCGTCGACTTTCATCTGCCGTCGTTAAG
                       aaattcattgtattca  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttagttttccctctctctttctctctttagggttcactccaaattcattgtattcatatatttattattcagGGAGACAGGAACGATTCTGAAGATCAACCTCCTTCCAAGCGTCGACTTTCATCTGCCGTCGTTAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGATCA