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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtaccatagttatccatgtatcttattggctttgctcttgcattttgggtttcgaccgtgtgtttatatatttgttgtgggatgttcttctggtttcagGAAAAACTTTATCAGTGGATTTTTAGACAACAAGAGGGAGGATCACGGGTTGGAACAGTTGATGTACTTAATTACATTCAG

Basic information

species Glycine max
transcript GLYMA16G27830.1
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|207755840|gb|GD728377.1|GD728377
EST:     GCCGGGGAACGACACGCCCTC                         GAAAAACTTTATCAGTGGATTTTTAGACAACAAGAGGGAGGATCACGGGTT
genomic: GCCGGGGAACGACACGCCCTCgtaatataat ... ctggtttcagGAAAAACTTTATCAGTGGATTTTTAGACAACAAGAGGGAGGATCACGGGTT
EST: gi|21889635|gb|BQ742848.1|BQ742848
EST:     CCATGAACCACCAGAAGCTCTCCTTCAACGCCGGGGAACGACACGCCCTC                         GAAAAACTTTATCAGTGGATTTTTAGACAACAAGAGGGAGGATCACGGGTT
genomic: CCATGAACCACCAGAAGCTCTCCTTCAACGCCGGGGAACGACACGCCCTCgtaatataat ... ctggtttcagGAAAAACTTTATCAGTGGATTTTTAGACAACAAGAGGGAGGATCACGGGTT
EST: gi|207790391|gb|GD760828.1|GD760828
EST:     GCCGGGGAACGACACGCCCTC                         GAAAAACTTTATCAGTGGATTTTTAGACAACAAGAGGGAGGATCACGGGTT
genomic: GCCGGGGAACGACACGCCCTCgtaatataat ... ctggtttcagGAAAAACTTTATCAGTGGATTTTTAGACAACAAGAGGGAGGATCACGGGTT
EST: gi|207753182|gb|GD723704.1|GD723704
EST:     TCTCCTTCAACGCCGGGGAACGACACGCCCTC                         GAAAAACTTTATCAGTGGATTTTTAGACAACAAGAGGGAGGATCACGGGTT
genomic: TCTCCTTCAACGCCGGGGAACGACACGCCCTCgtaatataat ... ctggtttcagGAAAAACTTTATCAGTGGATTTTTAGACAACAAGAGGGAGGATCACGGGTT
EST: gi|208053659|gb|GD850576.1|GD850576
EST:     CGCCGGGGAACGACACGCCCTC                         GAAAAACTTTATCAGTGGATTTTTAGACAACAAGAGGGAGGATCACGGGTT
genomic: CGCCGGGGAACGACACGCCCTCgtaatataat ... ctggtttcagGAAAAACTTTATCAGTGGATTTTTAGACAACAAGAGGGAGGATCACGGGTT
EST: gi|298173321|gb|HO016657.1|HO016657
EST:     GGGGAACGACACGCCCTC                         GAAAAACTTTATCAGTGGATTTTTAGACAACAAGAAGGAGGATCACGGGTT
genomic: GGGGAACGACACGCCCTCgtaatataat ... ctggtttcagGAAAAACTTTATCAGTGGATTTTTAGACAACAAGAGGGAGGATCACGGGTT
EST: gi|208268511|gb|GE072502.1|GE072502
EST:     CGCCGGGGAACGACACGCCCTC                         GAAAAACTTTATCAGTGGATTTTTAGACAACAAGAGGGAGGATCACGGGTT
genomic: CGCCGGGGAACGACACGCCCTCgtaatataat ... ctggtttcagGAAAAACTTTATCAGTGGATTTTTAGACAACAAGAGGGAGGATCACGGGTT
EST: gi|208051236|gb|GD846739.1|GD846739
EST:     CGCCGGGGAACGACACGCCCTC                         G-AAAACTTTATCAGTGGATTTTTAGACAACAAGAGGGAGGATCACGGGTT
genomic: CGCCGGGGAACGACACGCCCTCgtaatataat ... ctggtttcagGAAAAACTTTATCAGTGGATTTTTAGACAACAAGAGGGAGGATCACGGGTT
EST: gi|193340816|gb|FK308773.1|FK308773
EST:     GCCGGGGAACGACACGCCCTC                         GAAAAACTTTATCAGTGGATTTTTAGACAACAAGAGGGAGGATCACGGGTT
genomic: GCCGGGGAACGACACGCCCTCgtaatataat ... ctggtttcagGAAAAACTTTATCAGTGGATTTTTAGACAACAAGAGGGAGGATCACGGGTT
EST: gi|193606568|gb|FK557853.1|FK557853
EST:     CGGGGAACGACACGCCCTC                         GAAAAACTTTATCAGTGGATTTTTAGACAACAAGAGGGAGGATCACGGGTT
genomic: CGGGGAACGACACGCCCTCgtaatataat ... ctggtttcagGAAAAACTTTATCAGTGGATTTTTAGACAACAAGAGGGAGGATCACGGGTT
EST: gi|208258863|gb|GE057158.1|GE057158
EST:     GCCGGGGAACGACACGCCCTC                         G-AAAACTTTATCAGTGGATTTTTAGACAACAAGA-GGAGGATCACGGGTT
genomic: GCCGGGGAACGACACGCCCTCgtaatataat ... ctggtttcagGAAAAACTTTATCAGTGGATTTTTAGACAACAAGAGGGAGGATCACGGGTT
EST: gi|208089390|gb|GD890333.1|GD890333
EST:     GCCGGGGAACGACACGTCCCTC                         GAAAAACTTTATCAGTGGATTTTTAGACAACAAGAGGGAGGATCACGGGT
genomic: GCCGGGGAACGACACG-CCCTCgtaatataat ... ctggtttcagGAAAAACTTTATCAGTGGATTTTTAGACAACAAGAGGGAGGATCACGGGT
EST: gi|207747121|gb|GD719770.1|GD719770
EST:     GCCGGGGAACGACACGTCCCTC                         GAAAAACTTTATCAGTGGATTTTTAGACAACAAGAGGGAGGATCACGGGT
genomic: GCCGGGGAACGACACG-CCCTCgtaatataat ... ctggtttcagGAAAAACTTTATCAGTGGATTTTTAGACAACAAGAGGGAGGATCACGGGT
EST: gi|22525222|gb|BU084033.1|BU084033
EST:     CCATGAACCACCAGAAGCTCTCCTTCAACGCCGGGGAACGACACGCCCTC                         GAAAAACTTTATCAGTGGATTTTTAGACAACAAGAGGGAGGATCACGGGTT
genomic: CCATGAACCACCAGAAGCTCTCCTTCAACGCCGGGGAACGACACGCCCTCgtaatataat ... ctggtttcagGAAAAACTTTATCAGTGGATTTTTAGACAACAAGAGGGAGGATCACGGGTT
EST: gi|207803351|gb|GD774900.1|GD774900
EST:     GCCGGGGAACGACACGCCCTC                         GAAAAACTTTATCAGTGGA-TTTTAGACAACAAGAGGGAGGATCACGGGTT
genomic: GCCGGGGAACGACACGCCCTCgtaatataat ... ctggtttcagGAAAAACTTTATCAGTGGATTTTTAGACAACAAGAGGGAGGATCACGGGTT
EST: gi|208076532|gb|GD873949.1|GD873949
EST:     CGCCGGGGAACGACACGCCCTC                         GAAAAACTTTATCAGTGGATTTTTAGACAACAAGAGGGAGGATCACGGGTT
genomic: CGCCGGGGAACGACACGCCCTCgtaatataat ... ctggtttcagGAAAAACTTTATCAGTGGATTTTTAGACAACAAGAGGGAGGATCACGGGTT
EST: gi|207695264|gb|GD678061.1|GD678061
EST:     CGCCGGGGAACGACACGCCCTC                         GAAAAACTTTATCAGTGGATTTTTAGACAACAAGAGGGAGGATCACGGGTT
genomic: CGCCGGGGAACGACACGCCCTCgtaatataat ... ctggtttcagGAAAAACTTTATCAGTGGATTTTTAGACAACAAGAGGGAGGATCACGGGTT
EST: gi|208146928|gb|GD949243.1|GD949243
EST:     GCCGGGGAACGACACGCCCTC                         GAAAAACTTTATCAGTGGATTTTTAGACAACAAGAGGGAGGATCGCGGGTT
genomic: GCCGGGGAACGACACGCCCTCgtaatataat ... ctggtttcagGAAAAACTTTATCAGTGGATTTTTAGACAACAAGAGGGAGGATCACGGGTT
EST: gi|193309323|gb|FK277503.1|FK277503
EST:     CGCCGGGGAACGACACGCCCTC                         GAAAAACTTTATCAGTGGATTTTTAGACAACAAGAGGGAGGATCACGGGTT
genomic: CGCCGGGGAACGACACGCCCTCgtaatataat ... ctggtttcagGAAAAACTTTATCAGTGGATTTTTAGACAACAAGAGGGAGGATCACGGG-T
EST: gi|193582937|gb|FK543149.1|FK543149
EST:     CGGGGAACGACACGCCCTC                         GAAAAACTTTATCAGTGGA-TTTTAGACAACAAGAGGGAGGATCACGGGTT
genomic: CGGGGAACGACACGCCCTCgtaatataat ... ctggtttcagGAAAAACTTTATCAGTGGATTTTTAGACAACAAGAGGGAGGATCACGGGTT
EST: gi|193600863|gb|FK550400.1|FK550400
EST:     GCCGGGGAACGACACGCCCTC                         G-AAAACTTTATCAGTGGATTTTTAGACAACAAGAGGGAGGATCACGGGTT
genomic: GCCGGGGAACGACACGCCCTCgtaatataat ... ctggtttcagGAAAAACTTTATCAGTGGATTTTTAGACAACAAGAGGGAGGATCACGGGTT
EST: gi|21889228|gb|BQ742441.1|BQ742441
EST:     CCATGAACCACCAGAAGCTCTCCTTCAACGCCGGGGAACGACACGCCCTC                         GAAAAACTTTATCAGTGGATTTTTAGACAACAAGAGGGAGGATCACGGGTT
genomic: CCATGAACCACCAGAAGCTCTCCTTCAACGCCGGGGAACGACACGCCCTCgtaatataat ... ctggtttcagGAAAAACTTTATCAGTGGATTTTTAGACAACAAGAGGGAGGATCACGGGTT
EST: gi|207707881|gb|GD689816.1|GD689816
EST:     GCCGGGGAACGACACGCCCTC                         G-AAAACTTTATCAGTGGATTTTTAGACAACAAGAGGGAGGATCGCGGGTT
genomic: GCCGGGGAACGACACGCCCTCgtaatataat ... ctggtttcagGAAAAACTTTATCAGTGGATTTTTAGACAACAAGAGGGAGGATCACGGGTT
EST: gi|5510278|gb|AI856662.1|AI856662
EST:     CCATGAACCACCAGAAGCTCTCCTTCAACGCCGGGGAACGACACGCCCTC                         GAAAAACTTTATCAGTGGATTTTTAGACAACAAGAGGGAGGATCACGGGTT
genomic: CCATGAACCACCAGAAGCTCTCCTTCAACGCCGGGGAACGACACGCCCTCgtaatataat ... ctggtttcagGAAAAACTTTATCAGTGGATTTTTAGACAACAAGAGGGAGGATCACGGGTT
EST: gi|208105741|gb|GD906978.1|GD906978
EST:     GAACGACACGCCCTC                         GAAAAACTTTATCAGTGGATTTTTAGACAACAAGAGGGAGGATCACGGGTT
genomic: GAACGACACGCCCTCgtaatataat ... ctggtttcagGAAAAACTTTATCAGTGGATTTTTAGACAACAAGAGGGAGGATCACGGGTT
EST: gi|208116798|gb|GD915794.1|GD915794
EST:     GCCGGGGAACGACACGCCCTC                         GAAAAACTTTATCAGTGGATTTTTAGACAGCAAGAGGGAGGATCACGGGTT
genomic: GCCGGGGAACGACACGCCCTCgtaatataat ... ctggtttcagGAAAAACTTTATCAGTGGATTTTTAGACAACAAGAGGGAGGATCACGGGTT
EST: gi|207702973|gb|GD686459.1|GD686459
EST:     GCCGGGGAACGACACGCCCTC                         GAAAAACTTTATCAGTGGATTTTTAGACAACAAGAGGGAGGATCACGGGTT
genomic: GCCGGGGAACGACACGCCCTCgtaatataat ... ctggtttcagGAAAAACTTTATCAGTGGATTTTTAGACAACAAGAGGGAGGATCACGGGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgggtttcgaccgtgtgtttatatatttgttgtgggatgttcttctggtttcagGAAAAACTTTATCAGTGGATTTTTAGACAACAAGAGGGAGGATCACGGGTTGGAACAGTTGATGTACTTAATTACATTCAG
                                      tgttcttct  CT-rich tract
                tgtttatatatttgtt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgtaccatagttatccatgtatcttattggctttgctcttgcattttgggtttcgaccgtgtgtttatatatttgttgtgggatgttcttctggtttcagGAAAAACTTTATCAGTGGATTTTTAGACAACAAGAGGGAGGATCACGGGTTGGAACAGTTGATGTACTTAATTACATTCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAT
- - - - - - - ccatgta
- - - - - - - - - - - - - - ggctttg
- - - - - - - - - - - - - - - - - -ctcttgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtgtgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttgtggg