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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatggtttgcgttcccattggaatagctatacctatctatgtgaaagttgatgatgaatttcaccaacgtaattgcaccaaatttatatattgagatcatgcactaacttaaattcaatctttcagGCATAGATCCGCAGCAAGAGATTACGTTGGTGAGGCAAGTTGAGTATCAAGATTCTCTCGTGGAAGCAGCATGGCCACTAGGCAGTGCCATAGAAGCCAT

Basic information

species Glycine max
transcript GLYMA16G04770.4
intron # 8
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|31308066|gb|CD393269.1|CD393269
EST:     TATATGCTTAGATCTTGTATACGAATATACATTGCTCGTTGATGGATTTG                         GCATAGATCCGCAGCAAGAGATTACGTTGGTGAGGCAAGTTGAGTATCAAG
genomic: TATATGCTTAGATCTTGTATACGAATATACATTGCTCGTTGATGGATTTGgtatggtttg ... aatctttcagGCATAGATCCGCAGCAAGAGATTACGTTGGTGAGGCAAGTTGAGTATCAAG
EST: gi|7639989|gb|AW734299.1|AW734299
EST:     TATATGCTTAGATCTTGTATACGAATATACATTGCTCGTTGATGGATTTG                         GCATAGATCCGCAGCAAGAGATTACGTTGGTGAGGCAAGTTGAGTATCAAG
genomic: TATATGCTTAGATCTTGTATACGAATATACATTGCTCGTTGATGGATTTGgtatggtttg ... aatctttcagGCATAGATCCGCAGCAAGAGATTACGTTGGTGAGGCAAGTTGAGTATCAAG
EST: gi|31465540|gb|CD407568.1|CD407568
EST:     TATATGCTTAGATCTTGTATACGAATATACATTGCTCGTTGATGGATTTG                         GCATAGATCCGCAGCAAGAGATTACGTTGGTGAGGCAAGTTGAGTATCAAG
genomic: TATATGCTTAGATCTTGTATACGAATATACATTGCTCGTTGATGGATTTGgtatggtttg ... aatctttcagGCATAGATCCGCAGCAAGAGATTACGTTGGTGAGGCAAGTTGAGTATCAAG
EST: gi|5057771|gb|AI736247.1|AI736247
EST:     TATATGCTTAGATCTTGTATACGAATATACATTGCTCGTTGATGGATTTG                         GCATAGATCCGCAGCAAGAGATTACGTTGGTGAGGCAAGTTGAGTATCAAG
genomic: TATATGCTTAGATCTTGTATACGAATATACATTGCTCGTTGATGGATTTGgtatggtttg ... aatctttcagGCATAGATCCGCAGCAAGAGATTACGTTGGTGAGGCAAGTTGAGTATCAAG
EST: gi|22524257|gb|BU083068.1|BU083068
EST:     TATATGCTTAGATCTTGTATACGAATATACATTGCTCGTTGATGGATTTG                         GCATAGATCCGCAGCAAGAGATTACGTTGGTGAGGCAAGTTGAGTATCAAG
genomic: TATATGCTTAGATCTTGTATACGAATATACATTGCTCGTTGATGGATTTGgtatggtttg ... aatctttcagGCATAGATCCGCAGCAAGAGATTACGTTGGTGAGGCAAGTTGAGTATCAAG
EST: gi|209718019|gb|BW671850.1|BW671850
EST:     TATATGCTTAGATCTTGTATACGAATATACATTGCTCGTTGATGGATTTG                         GCATAGATCCGCAGCAAGAGATTACGTTGGTGAGGCAAGTTGAGTATCAAG
genomic: TATATGCTTAGATCTTGTATACGAATATACATTGCTCGTTGATGGATTTGgtatggtttg ... aatctttcagGCATAGATCCGCAGCAAGAGATTACGTTGGTGAGGCAAGTTGAGTATCAAG
EST: gi|16345490|gb|BI971085.1|BI971085
EST:     TATATGCTTAGATCTTGTATACGAATATACATTGCTCGTTGATGGATTTG                         GCATAGATCCGCAGCAAGAGATTACGTTGGTGAGGCAAGTTGAGTATCAAG
genomic: TATATGCTTAGATCTTGTATACGAATATACATTGCTCGTTGATGGATTTGgtatggtttg ... aatctttcagGCATAGATCCGCAGCAAGAGATTACGTTGGTGAGGCAAGTTGAGTATCAAG
EST: gi|31306831|gb|CD392034.1|CD392034
EST:     TATATGCTTAGATCTTGTATACGAATATACATTGCTCGTTGATGGATTTG                         GCATAGATCCGCAGCAAGAGATTACCTTGGTGAGGCAAGTTGAGTATCAAG
genomic: TATATGCTTAGATCTTGTATACGAATATACATTGCTCGTTGATGGATTTGgtatggtttg ... aatctttcagGCATAGATCCGCAGCAAGAGATTACGTTGGTGAGGCAAGTTGAGTATCAAG
EST: gi|31472483|gb|CD414511.1|CD414511
EST:     TATATGCTTAGATCTTGTATACGAATATACATTGCTCGTTGATGGATTTG                         GCATAGATCCGCAGCAAGAGATTACGTTGGTGAGGCAAGTTGAGTATCAAG
genomic: TATATGCTTAGATCTTGTATACGAATATACATTGCTCGTTGATGGATTTGgtatggtttg ... aatctttcagGCATAGATCCGCAGCAAGAGATTACGTTGGTGAGGCAAGTTGAGTATCAAG
EST: gi|23063614|gb|BU578587.1|BU578587
EST:     TATATGCTTAGATCTTGTATACGAATATACATTGCTCGTTGATGGATTTG                         GCATAGATCCGCAGCAAGAGATTACGTTGGTGAGGCAAGTTGAGTATCAAG
genomic: TATATGCTTAGATCTTGTATACGAATATACATTGCTCGTTGATGGATTTGgtatggtttg ... aatctttcagGCATAGATCCGCAGCAAGAGATTACGTTGGTGAGGCAAGTTGAGTATCAAG
EST: gi|31459452|gb|CD401480.1|CD401480
EST:     TATATGCTTAGATCTTGTATACGAATATACATTGCTCGTTGATGGATTTG                         GCATAGATCCGCAGCAAGAGATTACGTTGGTGAGGCAAGTTGAGTATCAAG
genomic: TATATGCTTAGATCTTGTATACGAATATACATTGCTCGTTGATGGATTTGgtatggtttg ... aatctttcagGCATAGATCCGCAGCAAGAGATTACGTTGGTGAGGCAAGTTGAGTATCAAG
EST: gi|31470653|gb|CD412681.1|CD412681
EST:     TATATGCTTAGATCTTGTATACGAATATACATTGCTCGTTGATGGATTTG                         GCATAGATCCGCAGCAAGAGATTACGTTGGTGAGGCAAGTTGAGTATCAAG
genomic: TATATGCTTAGATCTTGTATACGAATATACATTGCTCGTTGATGGATTTGgtatggtttg ... aatctttcagGCATAGATCCGCAGCAAGAGATTACGTTGGTGAGGCAAGTTGAGTATCAAG
EST: gi|31463475|gb|CD405503.1|CD405503
EST:     TATATGCTTAGATCTTGTATACGAATATACATTGCTCGTTGATGGATTTG                         GCATAGATCCGCAGCAAGAGATTACGTTGGTGAGGCAAGTTGAGTATCAAG
genomic: TATATGCTTAGATCTTGTATACGAATATACATTGCTCGTTGATGGATTTGgtatggtttg ... aatctttcagGCATAGATCCGCAGCAAGAGATTACGTTGGTGAGGCAAGTTGAGTATCAAG
EST: gi|31457448|gb|CD399476.1|CD399476
EST:     TATATGCTTAGATCTTGTATACGAATATACATTGCTCGTTGATGGATTTG                         GCATAGATCCGCAGCAAGAGATTACGTTCCTGAGGCAAGTTGAGTATCAAG
genomic: TATATGCTTAGATCTTGTATACGAATATACATTGCTCGTTGATGGATTTGgtatggtttg ... aatctttcagGCATAGATCCGCAGCAAGAGATTACGTTGGTGAGGCAAGTTGAGTATCAAG
EST: gi|31307120|gb|CD392323.1|CD392323
EST:     TATATGCTTAGATCTTGTATACGAATATACATTGCTCGTTGATGGATTTG                         GCATAGATCCGCAGCAAGAGATTACGTTGGTGAGGCAAGTTGAGTATCAAG
genomic: TATATGCTTAGATCTTGTATACGAATATACATTGCTCGTTGATGGATTTGgtatggtttg ... aatctttcagGCATAGATCCGCAGCAAGAGATTACGTTGGTGAGGCAAGTTGAGTATCAAG
EST: gi|27424828|gb|CA936348.1|CA936348
EST:     TATATGCTTAGATCTTGTATACGAATATACATTGCTCGTTGATGGATTTG                         GCATAGATCCGCAGCAAGAGATTACGTTGGTGAGGCAAGTTGAGTATCAAG
genomic: TATATGCTTAGATCTTGTATACGAATATACATTGCTCGTTGATGGATTTGgtatggtttg ... aatctttcagGCATAGATCCGCAGCAAGAGATTACGTTGGTGAGGCAAGTTGAGTATCAAG
EST: gi|19935852|gb|BQ080613.1|BQ080613
EST:     TATATGCTTAGATCTTGTATACGAATATACATTGCTCGTTGATGGATTTG                         GCATAGATCCGCAGCAAGAGATTACGTTGGTGAGGCAAGTTGAGTATCAAG
genomic: TATATGCTTAGATCTTGTATACGAATATACATTGCTCGTTGATGGATTTGgtatggtttg ... aatctttcagGCATAGATCCGCAGCAAGAGATTACGTTGGTGAGGCAAGTTGAGTATCAAG
EST: gi|31467978|gb|CD410006.1|CD410006
EST:     TATATGCTTAGATCTTGTATACGAATATACATTGCTCGTTGATGGATTTG                         GCATAGATCCGCAGCAAGAGATTACGTTGGTGAGGCAAGTTGAGTATCAAG
genomic: TATATGCTTAGATCTTGTATACGAATATACATTGCTCGTTGATGGATTTGgtatggtttg ... aatctttcagGCATAGATCCGCAGCAAGAGATTACGTTGGTGAGGCAAGTTGAGTATCAAG
EST: gi|9900614|gb|BE609582.1|BE609582
EST:     TATATGCTTAGATCTTGTATACGAATATACATTGCTCGTTGATGGATTTG                         GCATAGATCCGCAGCAAGAGATTACGTTGGTGAGGCAAGTTGAGTATCAAG
genomic: TATATGCTTAGATCTTGTATACGAATATACATTGCTCGTTGATGGATTTGgtatggtttg ... aatctttcagGCATAGATCCGCAGCAAGAGATTACGTTGGTGAGGCAAGTTGAGTATCAAG
EST: gi|31473162|gb|CD415190.1|CD415190
EST:     TATATGCTTAGATCTTGTATACGAATATACATTGCTCGTTGATGGATTTG                         GCATAGATCCGCAGCAAGAGATTACGTTGGTGAGGCAAGTTGAGTATCAAG
genomic: TATATGCTTAGATCTTGTATACGAATATACATTGCTCGTTGATGGATTTGgtatggtttg ... aatctttcagGCATAGATCCGCAGCAAGAGATTACGTTGGTGAGGCAAGTTGAGTATCAAG
EST: gi|209721792|gb|BW666399.1|BW666399
EST:     TATATGCTTAGATCTTGTATACGAATATACATTGCTCGTTGATGGATTTG                         GCATAGATCCGCAGCAAGAGATTACGTTGGTGAGGCAAGTTGAGTATCAAG
genomic: TATATGCTTAGATCTTGTATACGAATATACATTGCTCGTTGATGGATTTGgtatggtttg ... aatctttcagGCATAGATCCGCAGCAAGAGATTACGTTGGTGAGGCAAGTTGAGTATCAAG
EST: gi|31473169|gb|CD415197.1|CD415197
EST:     TATATGCTTAGATCTTGTATACGAATATACATTGCTCGTTGATGGATTTG                         GCATAGATCCGC
genomic: TATATGCTTAGATCTTGTATACGAATATACATTGCTCGTTGATGGATTTGgtatggtttg ... aatctttcagGCATAGATCCGC
EST: gi|13477701|gb|BG507474.1|BG507474
EST:     TATATGCTTAGATCTTGTATACGAATATACATTGCTCGTTGATGGATTTG                         GCATAGATCCGCAGCAAGAGATTACGTTGGTGAGGCAAGTTGAGTATCAAG
genomic: TATATGCTTAGATCTTGTATACGAATATACATTGCTCGTTGATGGATTTGgtatggtttg ... aatctttcagGCATAGATCCGCAGCAAGAGATTACGTTGGTGAGGCAAGTTGAGTATCAAG
EST: gi|22524763|gb|BU083574.1|BU083574
EST:     TATATGCTTAGATCTTGTATACGAATATACATTGCTCGTTGATGGATTTG                         GCATAGATCCGCAGCAAGAGATTACGTTGGTGAGGCAAGTTGAGTATCAAG
genomic: TATATGCTTAGATCTTGTATACGAATATACATTGCTCGTTGATGGATTTGgtatggtttg ... aatctttcagGCATAGATCCGCAGCAAGAGATTACGTTGGTGAGGCAAGTTGAGTATCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attgcaccaaatttatatattgagatcatgcactaacttaaattcaatctttcagGCATAGATCCGCAGCAAGAGATTACGTTGGTGAGGCAAGTTGAGTATCAAGATTCTCTCGTGGAAGCAGCATGGCCACTAGGCAGTGCCATAGAAGCCAT
                              cactaac  putative branch site (score: 1)
                                               tctttc  putative PPT
        aaatttatatattgag  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatggtttgcgttcccattggaatagctatacctatctatgtgaaagttgatgatgaatttcaccaacgtaattgcaccaaatttatatattgagatcatgcactaacttaaattcaatctttcagGCATAGATCCGCAGCAAGAGATTACGTTGGTGAGGCAAGTTGAGTATCAAGATTCTCTCGTGGAAGCAGCATGGCCACTAGGCAGTGCCATAGAAGCCAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC