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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaaaacaattatagtgacatttgttctcattatatttgattatataattgaaagatggtattagcaattcatttgttgctatatgatgcatttcatgcagATAGATAGTTAGCAGACTTGGCTGACCCTGAGCAGGAGGAATAAGAATAAGATGCCTCCTTATGATTGTATGTTTCTGTTTAAGCCCCATATAAGGAAGG

Basic information

species Glycine max
transcript GLYMA01G01220.2
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|12691478|gb|BG157814.1|BG157814
EST:     TCGCCTTCGTCGATCGAAGTGGAGCTTCCATTTCATAGCCGGCGGTGAAG                         ATAGATAGTTAGCAGACTTGGCTGACCCTGAGCAGGAGGAATAAGAATAAG
genomic: TCGCCTTCGTCGATCGAAGTGGAGCTTCCATTTCATAGCCGGCGGTGAAGgtacgatttc ... tttcatgcagATAGATAGTTAGCAGACTTGGCTGACCCTGAGCAGGAGGAATAAGAATAAG
EST: gi|298172626|gb|HO019666.1|HO019666
EST:     TCGCCTTCGTCGATCGAAGTGGAGCTTCCATTTCATAGCCGGCGGTGAAG                         ATAGATAGTTAGCAGACTTGGCTGACCCTGAGCAGGAGGAATAAGAATAAG
genomic: TCGCCTTCGTCGATCGAAGTGGAGCTTCCATTTCATAGCCGGCGGTGAAGgtacgatttc ... tttcatgcagATAGATAGTTAGCAGACTTGGCTGACCCTGAGCAGGAGGAATAAGAATAAG
EST: gi|298190317|gb|HO032438.1|HO032438
EST:     CGGCGGTGAAG                         ATAGATAGTTAGCAGACTTGGCTGACCCTGAGCAGGAGGAATAAGAATAAG
genomic: CGGCGGTGAAGgtacgatttc ... tttcatgcagATAGATAGTTAGCAGACTTGGCTGACCCTGAGCAGGAGGAATAAGAATAAG
EST: gi|298174411|gb|HO014556.1|HO014556
EST:     TCGCCTTCGTCGATCGAAGTGGAGCTTCCATTTCATAGCCGGCGGTGAAG                         ATAGATAGTTAGCAGACTTGGCTGACCCTGAGCAGGAGGAATAAGAATAAG
genomic: TCGCCTTCGTCGATCGAAGTGGAGCTTCCATTTCATAGCCGGCGGTGAAGgtacgatttc ... tttcatgcagATAGATAGTTAGCAGACTTGGCTGACCCTGAGCAGGAGGAATAAGAATAAG
EST: gi|193321575|gb|FK286607.1|FK286607
EST:     GAAGTGGAGCTTCCATTTCATAGCCGGCGGTGAAG                         ATAGATAGTTAGCAGACTTGGCTGACCCTGAGCAGGAGGAATAAGAATAAG
genomic: GAAGTGGAGCTTCCATTTCATAGCCGGCGGTGAAGgtacgatttc ... tttcatgcagATAGATAGTTAGCAGACTTGGCTGACCCTGAGCAGGAGGAATAAGAATAAG
EST: gi|16347691|gb|BI973286.1|BI973286
EST:     TCGCCTTCGTCGATCGAAGTGGAGCTTCCATTTCATAGCCGGCGGTGAAG                         ATAGATAGTTAGCAGACTTGGCTGACCCTGAGCAGGAGGAATAAGAATAAG
genomic: TCGCCTTCGTCGATCGAAGTGGAGCTTCCATTTCATAGCCGGCGGTGAAGgtacgatttc ... tttcatgcagATAGATAGTTAGCAGACTTGGCTGACCCTGAGCAGGAGGAATAAGAATAAG
EST: gi|298171850|gb|HO021442.1|HO021442
EST:     TCGCCTTCGTCGATCGAAGTGGAGCTTCCATTTCATAGCCGGCGGTGAAG                         ATAGATAGTTAGCAGACTTGGCTGACCCTGAGCAGGAGGAATAAGAATAAG
genomic: TCGCCTTCGTCGATCGAAGTGGAGCTTCCATTTCATAGCCGGCGGTGAAGgtacgatttc ... tttcatgcagATAGATAGTTAGCAGACTTGGCTGACCCTGAGCAGGAGGAATAAGAATAAG
EST: gi|298175270|gb|HO018151.1|HO018151
EST:     TCGCCTTCGTCGATCGAAGTGGAGCTTCCATTTCATAGCCGGCGGTGAAG                         ATAGATAGTTAGCAGACTTGGCTGACCCTGAGCAGGAGGAATAAGAATAAG
genomic: TCGCCTTCGTCGATCGAAGTGGAGCTTCCATTTCATAGCCGGCGGTGAAGgtacgatttc ... tttcatgcagATAGATAGTTAGCAGACTTGGCTGACCCTGAGCAGGAGGAATAAGAATAAG
EST: gi|298194153|gb|HO040801.1|HO040801
EST:     CGATCGAAGTGGAGCTTCCATTTCATAGCCGGCGGTGAAG                         ATAGATAGTTAGCAGACTTGGCTGACCCTGAGCAGGAGGAATAAGAATAAG
genomic: CGATCGAAGTGGAGCTTCCATTTCATAGCCGGCGGTGAAGgtacgatttc ... tttcatgcagATAGATAGTTAGCAGACTTGGCTGACCCTGAGCAGGAGGAATAAGAATAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattgaaagatggtattagcaattcatttgttgctatatgatgcatttcatgcagATAGATAGTTAGCAGACTTGGCTGACCCTGAGCAGGAGGAATAAGAATAAGATGCCTCCTTATGATTGTATGTTTCTGTTTAAGCCCCATATAAGGAAGG
                    aattcattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aaaaacaattatagtgacatttgttctcattatatttgattatataattgaaagatggtattagcaattcatttgttgctatatgatgcatttcatgcagATAGATAGTTAGCAGACTTGGCTGACCCTGAGCAGGAGGAATAAGAATAAGATGCCTCCTTATGATTGTATGTTTCTGTTTAAGCCCCATATAAGGAAGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
-aaaacaa
- - - - - - - - - - - - - - - - - - - - - - - - - - -gatggta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gttgcta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgatgca