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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATGAGATTGTCAAACTTGAAAATGTACCATATCTTAACCGGTTGGGTACAATGCTCATTAACAACAACAGGATTACTAGAATTAATCCCAACATTGGAGgtacagtttgaactttgaactgcacattctcatgtttgtgctctctttccttctagttgtaagctactcaaaatcttactgtcatttgtattgcag

Basic information

species Glycine max
transcript GLYMA10G24350.2
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G24350.2 (Glycine max), 5'ss of exon 4
lower sequence: Vv01s0150g00590.t01 (Vitis vinifera), 5'ss of exon 3
AATGAGATTGTCAAACTTGAAAATGTACCATATCTTAACCGGTTGGGTACAATGCTCATTAACAACAACAGGATTACTAGAATTAATCCCAACATTGGAGgtacagt----------ttgaactttgaactgcacattctcatgtttgtgct-ctctttccttctagt-tgtaagctactcaaaatcttactgtcatttgtattgcag
|||||||||||||| || |||||  | || |||||||| |||||||||||  |||| || |||||||| || |||||  | || || ||||| || |||||||   |          |||   ||   | |    |||   || || | |   |  | | |||||  |    |||||     |  | |||  ||  ||    ||||||
AATGAGATTGTCAAGCTCGAAAACTTGCCTTATCTTAATCGGTTGGGTACTTTGCTTATCAACAACAATAGAATTACCCGTATCAACCCCAATATCGGAGgtaagctgagaatgatattgggtttatcattatttattaatattttggggtcacaatgttcttctgttacacaagcttagatatcttttatggtgcttaaatttgcag
















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|58016033|gb|CX702775.1|CX702775
EST:     ATGCTCATT-ACNAACAACAGGATTACTAGAATTAATCCCAACATTGGAG                         AGTTCTTGCCAAATTTACACACTCTAGTTCTCACAAACAACAGAATTGTAA
genomic: ATGCTCATTAAC-AACAACAGGATTACTAGAATTAATCCCAACATTGGAGgtacagtttg ... tgtattgcagAGTTCTTGCCAAATTTACACACTCTAGTTCTCACAAACAACAGAATTGTAA
EST: gi|208075968|gb|GD873385.1|GD873385
EST:     AACAACAGGATTACTTAGTAATTTAATCCCAACATTGGAG                         AGTTCTTGCCAAATTTACACACTCTAGTTCTCACAAACAACAGAATTGTAA
genomic: AACAACAGGATTAC-TAG-AA-TTAATCCCAACATTGGAGgtacagtttg ... tgtattgcagAGTTCTTGCCAAATTTACACACTCTAGTTCTCACAAACAACAGAATTGTAA
EST: gi|27425309|gb|CA936829.1|CA936829
EST:     AATGCTCATTAACAACAACAGGATTACTAGAATTAATCCCAACATTGGAG                         AGTTCTTGCCAAATTTACACACTCTAGTTCTCACAAACAACAGAATTGTAA
genomic: AATGCTCATTAACAACAACAGGATTACTAGAATTAATCCCAACATTGGAGgtacagtttg ... tgtattgcagAGTTCTTGCCAAATTTACACACTCTAGTTCTCACAAACAACAGAATTGTAA
EST: gi|58023144|gb|CX709885.1|CX709885
EST:     GGATTACTAGAATTAATCCCAACATTGGAG                         AGTTCTTGCCAAATTTACACACTCTAGTTCTCACAAACAACAGAATTGTAA
genomic: GGATTACTAGAATTAATCCCAACATTGGAGgtacagtttg ... tgtattgcagAGTTCTTGCCAAATTTACACACTCTAGTTCTCACAAACAACAGAATTGTAA
EST: gi|192320515|gb|FK011925.1|FK011925
EST:     AATGCTCATTAACAACAACAGGATTACTAGAATTAATCCCAACATTGGAG                         AGTTCTTGCCAAATTTACACACTCTAGTTCTCACAAACAACAGAATTGTAA
genomic: AATGCTCATTAACAACAACAGGATTACTAGAATTAATCCCAACATTGGAGgtacagtttg ... tgtattgcagAGTTCTTGCCAAATTTACACACTCTAGTTCTCACAAACAACAGAATTGTAA
EST: gi|23052917|gb|BU577408.1|BU577408
EST:     AATGCTCATTAACAACAACAGGATTACTAGAATTAATCCCAACATTGGAG                         AGTTCTTGCCAAATTTACACACTCTAGTTCTCACAAACAACAGAATTGTAA
genomic: AATGCTCATTAACAACAACAGGATTACTAGAATTAATCCCAACATTGGAGgtacagtttg ... tgtattgcagAGTTCTTGCCAAATTTACACACTCTAGTTCTCACAAACAACAGAATTGTAA
EST: gi|7691074|gb|AW759208.1|AW759208
EST:     AATGCTCATTAACAACAACAGGATTACTAGAATTAATCCCAACATTGGAG                         AGTTCTTGCCAAATTTACACACTCTAGTTCTCACAAACAACAGAATTGTAA
genomic: AATGCTCATTAACAACAACAGGATTACTAGAATTAATCCCAACATTGGAGgtacagtttg ... tgtattgcagAGTTCTTGCCAAATTTACACACTCTAGTTCTCACAAACAACAGAATTGTAA
EST: gi|13479182|gb|BG508525.1|BG508525
EST:     AATGCTCATTAACAACAACAGGATTACTAGAATTAATCCCAACATTGGAG                         AGTTCTTGCCAAATTTACACACTCTAGTTCTCACAAACAACAGAATTGTAA
genomic: AATGCTCATTAACAACAACAGGATTACTAGAATTAATCCCAACATTGGAGgtacagtttg ... tgtattgcagAGTTCTTGCCAAATTTACACACTCTAGTTCTCACAAACAACAGAATTGTAA
EST: gi|213618238|gb|DB973008.1|DB973008
EST:     AATGCTCATTAACAACAACAGGATTACTAGAATTAATCCCAACATTGGAG                         AGTTCTTGCCAAATTTACACACTCTAGTTCTCACAAACAACAGAATTGTAA
genomic: AATGCTCATTAACAACAACAGGATTACTAGAATTAATCCCAACATTGGAGgtacagtttg ... tgtattgcagAGTTCTTGCCAAATTTACACACTCTAGTTCTCACAAACAACAGAATTGTAA
EST: gi|16106162|gb|BI893902.1|BI893902
EST:     AATGCTCATTAACAACAACAGGATTACTAGAATTAATCCCAACATTGGAG                         AGTTCTTGCCAAATTTACACACTCTAGTTCTCACAAACAACAGAATTGTAA
genomic: AATGCTCATTAACAACAACAGGATTACTAGAATTAATCCCAACATTGGAGgtacagtttg ... tgtattgcagAGTTCTTGCCAAATTTACACACTCTAGTTCTCACAAACAACAGAATTGTAA
EST: gi|13791609|gb|BG654200.1|BG654200
EST:     AATGCTCATTAACAACAACAGGATTACTAGAATTAATCCCAACATTGGAG                         AGTTCTTGCCAAATTTACACACTCTAGTTCTCACAAACAACAGAATTGTAA
genomic: AATGCTCATTAACAACAACAGGATTACTAGAATTAATCCCAACATTGGAGgtacagtttg ... tgtattgcagAGTTCTTGCCAAATTTACACACTCTAGTTCTCACAAACAACAGAATTGTAA
EST: gi|192308052|gb|FG999035.1|FG999035
EST:     AATGCTCATTAACAACAACAGGATTACTAGAATTAATCCCAACATTGGAG                         AGTTCTTGCCAAATTTACACACTCTAGTTCTCACAAACAACAGAATTGTAA
genomic: AATGCTCATTAACAACAACAGGATTACTAGAATTAATCCCAACATTGGAGgtacagtttg ... tgtattgcagAGTTCTTGCCAAATTTACACACTCTAGTTCTCACAAACAACAGAATTGTAA
EST: gi|213595893|gb|DB966252.1|DB966252
EST:     AATGCTCATTAACAACAACAGGATTACTAGAATTAATCCCAACATTGGAG                         AGTTCTTGCCAAATTTACACACTCTAGTTCTCACAAACAACAGAATTGTAA
genomic: AATGCTCATTAACAACAACAGGATTACTAGAATTAATCCCAACATTGGAGgtacagtttg ... tgtattgcagAGTTCTTGCCAAATTTACACACTCTAGTTCTCACAAACAACAGAATTGTAA
EST: gi|10232355|gb|BE801243.1|BE801243
EST:     AATGCTCATTAACAACAACAGGATTACTAGAATTAATCCCAACATTGGAG                         AGTTCTTGCCAAATTTACACACTCTAGTTCTCACAAACAACAGAATTGTAA
genomic: AATGCTCATTAACAACAACAGGATTACTAGAATTAATCCCAACATTGGAGgtacagtttg ... tgtattgcagAGTTCTTGCCAAATTTACACACTCTAGTTCTCACAAACAACAGAATTGTAA
EST: gi|27446299|gb|CA953422.1|CA953422
EST:     AATGCTCATTAACAACAACAGGATTACTAGAATTAATCCCAACATTGGAG                         AGTTCTTGCCAAATTTACACACTCTAGTTCTCACAAACAACAGAATTGTAA
genomic: AATGCTCATTAACAACAACAGGATTACTAGAATTAATCCCAACATTGGAGgtacagtttg ... tgtattgcagAGTTCTTGCCAAATTTACACACTCTAGTTCTCACAAACAACAGAATTGTAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AATGAGATTGTCAAACTTGAAAATGTACCATATCTTAACCGGTTGGGTACAATGCTCATTAACAACAACAGGATTACTAGAATTAATCCCAACATTGGAGgtacagtttgaactttgaactgcacattctcatgtttgtgctctctttccttctagttgtaagctactcaaaatcttactgtcatttgtattgcag

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