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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGGGATCCCGCTGGAGTGCATAAGGCATTAGAGTTAATTGCCTCCCACCTAAGGAAGTTTTTAGTTGATCGCGGTGTAATTCCAATTTTTGAAATGAATgtaagtgtgatttcatctttaacttgtgaagaacctatcttcataataaggaataagctgataaatgcttgtgggagcccatttgtttcagctttttttc...

Basic information

species Glycine max
transcript GLYMA03G40840.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G40840.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv14s0081g00440.t01 (Vitis vinifera), 5'ss of exon 5
TGGGGATCCCGCTGGAGTGCATAAGGCATTAGAGTTAATTGCCTCCCACCTAAGGAAGTTTTTAGTTGATCGCGGTGTAATTCCAATTTTTGAAATGAATgtaagtgtgatttcatctttaac-ttgtgaagaacctatcttcataataaggaataagctgataaatgct-tgtgggagcccatttgtttcagctttttttc---
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AGGGGAACCCATTGGAGTGCATAAAGCAGTGGAGCTAATTGCATCTCACCTCAGGAAATTTTTAGTTGACCGCAGTGTAATTCCATTATTTGAAATGCAAgtaagtctgctcttttcttaaatgttgcagtgaatcattagaacctacgtttaacatttaaataaacaatatctttctactaaatttttataacttttctctcag
















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|8283100|gb|BE020669.1|BE020669
EST:     TAAGGAAGTTTTTAGTTGATCGCGGTGTAATTCCAATTTTTGAAATGAAT                         ATGCAAACAGCCAATCCCCACCATGCAGAGCACATGCCACCCCACCAATCT
genomic: TAAGGAAGTTTTTAGTTGATCGCGGTGTAATTCCAATTTTTGAAATGAATgtaagtgtga ... atttcttcagATGCAAACAGCCAATCCCCACCATGCAGAGCACATGCCACCCCACCAATCT
EST: gi|193650907|gb|FK598522.1|FK598522
EST:     TAAGGAAGTTTTTAGTTGATCGCGGTGTAATTCCAATTTTTGAAATGAAT                         ATGCAAACAGCCAATCCCCACCATGCAGAGCACATGCCACCC-ACCAATCT
genomic: TAAGGAAGTTTTTAGTTGATCGCGGTGTAATTCCAATTTTTGAAATGAATgtaagtgtga ... atttcttcagATGCAAACAGCCAATCCCCACCATGCAGAGCACATGCCACCCCACCAATCT
EST: gi|208188329|gb|GD983125.1|GD983125
EST:     TAAGGAAGTTTTTAGTTGATCGCGGTGTAATTCCAATTTTTGAAATGAAT                         ATGCAAACAGCCAATCCCCACCATGCAGAGCACATGCCACCCCACCAATCT
genomic: TAAGGAAGTTTTTAGTTGATCGCGGTGTAATTCCAATTTTTGAAATGAATgtaagtgtga ... atttcttcagATGCAAACAGCCAATCCCCACCATGCAGAGCACATGCCACCCCACCAATCT
EST: gi|207732567|gb|GD704730.1|GD704730
EST:     TAAGGAAGTTTTTAGTTGATCGCGGTGTAATTCCAATTTTTGAAATGAAT                         ATGCAAACAGCCAATCCCCACCATGCAGAGCACATGCCACCCCACCAACCT
genomic: TAAGGAAGTTTTTAGTTGATCGCGGTGTAATTCCAATTTTTGAAATGAATgtaagtgtga ... atttcttcagATGCAAACAGCCAATCCCCACCATGCAGAGCACATGCCACCCCACCAATCT
EST: gi|192331608|gb|FK019969.1|FK019969
EST:     TAAGGAAGTTTTTAGTTGATCGCGGTGTAATTCCAATTTTTGAAATG-A-                         AT--------CCAATCCCCACCATGCAGAGCACATGCCACCCCACCAATCT
genomic: TAAGGAAGTTTTTAGTTGATCGCGGTGTAATTCCAATTTTTGAAATGAATgtaagtgtga ... atttcttcagATGCAAACAGCCAATCCCCACCATGCAGAGCACATGCCACCCCACCAATCT
EST: gi|193664017|gb|FK608709.1|FK608709
EST:     TAAGGAAG-TTTTAGTTGATCGCGGTGTAATTCCAATTTTTGAAATGAAT                         ATGCAAACAGCCAATCCCCACCATGCAGAGCACATGCCACCCCACCAATCT
genomic: TAAGGAAGTTTTTAGTTGATCGCGGTGTAATTCCAATTTTTGAAATGAATgtaagtgtga ... atttcttcagATGCAAACAGCCAATCCCCACCATGCAGAGCACATGCCACCCCACCAATCT
EST: gi|192328162|gb|FK020423.1|FK020423
EST:     TAAGGAAGTTTTTAGTTGATCGCGGTGTAATTCCAATTTTTGAAATG-A-                         AT--------CCAATCCCCACCATGCAGAGCACATGCCACCCCACCAATCT
genomic: TAAGGAAGTTTTTAGTTGATCGCGGTGTAATTCCAATTTTTGAAATGAATgtaagtgtga ... atttcttcagATGCAAACAGCCAATCCCCACCATGCAGAGCACATGCCACCCCACCAATCT
EST: gi|193555319|gb|FK511018.1|FK511018
EST:     TAAGGAAGTTTTTAGTTGATCGCGGTGTAATTCCAATTTTTGAAATGAAT                         ATGCAAACAGCTAATACCCACCATGC
genomic: TAAGGAAGTTTTTAGTTGATCGCGGTGTAATTCCAATTTTTGAAATGAATgtaagtgtga ... atttcttcagATGCAAACAGCCAATCCCCACCATGC
EST: gi|15661574|gb|BI698945.1|BI698945
EST:     TAAGGAAGTTTTTAGTTGATCGCGGTGTAATTCCAATTTTTGAAATGAAT                         ATGCAAACAGCCAATCCCCACCATGCAGAGCACATGCCACCCCACCAATCT
genomic: TAAGGAAGTTTTTAGTTGATCGCGGTGTAATTCCAATTTTTGAAATGAATgtaagtgtga ... atttcttcagATGCAAACAGCCAATCCCCACCATGCAGAGCACATGCCACCCCACCAATCT
EST: gi|207822733|gb|GD793968.1|GD793968
EST:     TAAGGAAGTTTTTAGTTGATCGCGGTGTAATTCCAATTTTTGAAATGAAT                         ATGCAAACAGCCAATCCCCACCATGCAGAGCACATGCCACCCCACCAACCT
genomic: TAAGGAAGTTTTTAGTTGATCGCGGTGTAATTCCAATTTTTGAAATGAATgtaagtgtga ... atttcttcagATGCAAACAGCCAATCCCCACCATGCAGAGCACATGCCACCCCACCAATCT
EST: gi|298183659|gb|HO028872.1|HO028872
EST:     TAAGGAAGTTTTTAGTTGATCGCGGTGTAATTCCAATTTTTGAAATGAAT                         ATGCAAGCAGCCAATCCCCACCATGCAGAGCACATGCCACCCCACCAATCT
genomic: TAAGGAAGTTTTTAGTTGATCGCGGTGTAATTCCAATTTTTGAAATGAATgtaagtgtga ... atttcttcagATGCAAACAGCCAATCCCCACCATGCAGAGCACATGCCACCCCACCAATCT
EST: gi|10848043|gb|BF070607.1|BF070607
EST:     TAAGGAAGTTTTTAGTTGATCGCGGTGTAATTCCAATTTTTGAAATGAAT                         ATGCAAACAGCCAATCCCCACCATGCAGAGCACATGCCACCCCACCAATCT
genomic: TAAGGAAGTTTTTAGTTGATCGCGGTGTAATTCCAATTTTTGAAATGAATgtaagtgtga ... atttcttcagATGCAAACAGCCAATCCCCACCATGCAGAGCACATGCCACCCCACCAATCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGGGGATCCCGCTGGAGTGCATAAGGCATTAGAGTTAATTGCCTCCCACCTAAGGAAGTTTTTAGTTGATCGCGGTGTAATTCCAATTTTTGAAATGAATgtaagtgtgatttcatctttaacttgtgaagaacctatcttcataataaggaataagctgataaatgcttgtgggagcccatttgtttcagctttttttc

- - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtgggag