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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaataattatgatgaagcagttatgctaataaaattgaaattattagtaagagtgattaagaggaagaaatattgatggtgatcaatgttgaaattgcagGGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGTTCAAAGGAACAAGAATGAAGAGGAAGCAGCTTTCGTGAAGGTGAGCATG

Basic information

species Glycine max
transcript GLYMA10G30440.3
intron # 1
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|24136689|gb|BU927199.1|BU927199
EST:     GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAA                         GGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGT
genomic: GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAAgtaagttctt ... gaaattgcagGGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGT
EST: gi|9820363|gb|BE555873.1|BE555873
EST:     GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAA                         GGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATNTAGAAAGAACATAGT
genomic: GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAAgtaagttctt ... gaaattgcagGGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGT
EST: gi|4301491|gb|AI443198.1|AI443198
EST:     GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAA                         GGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGT
genomic: GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAAgtaagttctt ... gaaattgcagGGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGT
EST: gi|10237457|gb|BE806345.1|BE806345
EST:     G-ACCTCTTC-TCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAA                         GGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATT-AGAAAGN-CATAGT
genomic: GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAAgtaagttctt ... gaaattgcagGGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGT
EST: gi|23730559|gb|BU763368.1|BU763368
EST:     GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAA                         GGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGT
genomic: GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAAgtaagttctt ... gaaattgcagGGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGT
EST: gi|192324698|gb|FK016499.1|FK016499
EST:     GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAA                         GGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGT
genomic: GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAAgtaagttctt ... gaaattgcagGGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGT
EST: gi|23735071|gb|BU765800.1|BU765800
EST:     GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAA                         GGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGT
genomic: GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAAgtaagttctt ... gaaattgcagGGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGT
EST: gi|19348034|gb|BM892566.1|BM892566
EST:     GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAA                         GGCACAAGTTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAG
genomic: GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAAgtaagttctt ... gaaattgcagGGCACAAGT-GGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAG
EST: gi|209722268|gb|BW651258.1|BW651258
EST:     GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAA                         GGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGT
genomic: GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAAgtaagttctt ... gaaattgcagGGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGT
EST: gi|7283687|gb|AW596291.1|AW596291
EST:     GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAA                         GGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGT
genomic: GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAAgtaagttctt ... gaaattgcagGGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGT
EST: gi|209715337|gb|BW654224.1|BW654224
EST:     GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAA                         GGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGT
genomic: GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAAgtaagttctt ... gaaattgcagGGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGT
EST: gi|10843606|gb|BF066882.1|BF066882
EST:     GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAA                         GGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGT
genomic: GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAAgtaagttctt ... gaaattgcagGGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGT
EST: gi|15664601|gb|BI701972.1|BI701972
EST:     GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAA                         GGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGT
genomic: GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAAgtaagttctt ... gaaattgcagGGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGT
EST: gi|151396373|gb|EV266250.1|EV266250
EST:     GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAA                         GGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGGAAGAACATAGT
genomic: GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAAgtaagttctt ... gaaattgcagGGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGT
EST: gi|9820894|gb|BE556404.1|BE556404
EST:     GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAA                         GGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTGAGATAGAACATAGT
genomic: GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAAgtaagttctt ... gaaattgcagGGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGT
EST: gi|15203732|gb|BI426500.1|BI426500
EST:     GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAA                         GGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGT
genomic: GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAAgtaagttctt ... gaaattgcagGGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGT
EST: gi|298197862|gb|HO039401.1|HO039401
EST:     GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAA                         GGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGT
genomic: GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAAgtaagttctt ... gaaattgcagGGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGT
EST: gi|13477480|gb|BG507349.1|BG507349
EST:     GCACCTCTTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAA                         GGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGT
genomic: GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAAgtaagttctt ... gaaattgcagGGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGT
EST: gi|22524540|gb|BU083351.1|BU083351
EST:     GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAA                         GGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGT
genomic: GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAAgtaagttctt ... gaaattgcagGGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGT
EST: gi|14990576|gb|BI316249.1|BI316249
EST:     GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAA                         GGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGT
genomic: GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAAgtaagttctt ... gaaattgcagGGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGT
EST: gi|9819817|gb|BE555393.1|BE555393
EST:     GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAA                         GGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGT
genomic: GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAAgtaagttctt ... gaaattgcagGGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGT
EST: gi|19269673|gb|BM885929.1|BM885929
EST:     GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAA                         GGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGT
genomic: GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAAgtaagttctt ... gaaattgcagGGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGT
EST: gi|26045737|gb|CA783233.1|CA783233
EST:     GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAA                         GGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGT
genomic: GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAAgtaagttctt ... gaaattgcagGGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGT
EST: gi|10708992|gb|BF008777.1|BF008777
EST:     GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAA                         GGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGT
genomic: GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAAgtaagttctt ... gaaattgcagGGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGT
EST: gi|21993808|gb|BQ785336.1|BQ785336
EST:     GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAA                         GGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGT
genomic: GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAAgtaagttctt ... gaaattgcagGGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGT
EST: gi|37994711|gb|CF806335.1|CF806335
EST:     GCACCTCTTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAA                         GGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGT
genomic: GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAAgtaagttctt ... gaaattgcagGGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGT
EST: gi|8669250|gb|BE190357.1|BE190357
EST:     GCACCTGCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAA                         GGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGT
genomic: GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAAgtaagttctt ... gaaattgcagGGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGT
EST: gi|15814097|gb|BI786372.1|BI786372
EST:     GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAA                         GGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGT
genomic: GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAAgtaagttctt ... gaaattgcagGGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGT
EST: gi|5058144|gb|AI736620.1|AI736620
EST:     GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAA                         GGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGT
genomic: GCACCTCCTCCTCCTTCTCGAGCCAACGACCCTGCAAAACCACCTGCAAAgtaagttctt ... gaaattgcagGGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtaagagtgattaagaggaagaaatattgatggtgatcaatgttgaaattgcagGGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGTTCAAAGGAACAAGAATGAAGAGGAAGCAGCTTTCGTGAAGGTGAGCATG
                         tattgat  putative branch site (score: 3)
                   aagaaatatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aaataattatgatgaagcagttatgctaataaaattgaaattattagtaagagtgattaagaggaagaaatattgatggtgatcaatgttgaaattgcagGGCACAAGTGGTGGGTTGGCCACCAGTTAGGTCATTTAGAAAGAACATAGTTCAAAGGAACAAGAATGAAGAGGAAGCAGCTTTCGTGAAGGTGAGCATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - -gttatgc
- - - - - - - - - - - - - -aataaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggaagaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gatggtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caatgtt