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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgcttcctacctctctgcttctctccctcaccatccgatttgaattttctgtttctcgaattgattcgttcgattttattactttccttttcagATCGGCTTCAGATGGGCGAAGTTGTCTCCACCATTCCAA

Basic information

species Glycine max
transcript GLYMA13G01270.1
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|192319248|gb|FK009132.1|FK009132
EST:     TCGAATCCTCGTTCTCGGCCTCGACAATGCCGGCAAAACCACTATTCTCT                         ATCGGCTTCAGATGGGCGAAGTTGTCTCCACCATTCCAA
genomic: TCGAATCCTCGTTCTCGGCCTCGACAATGCCGGCAAAACCACTATTCTCTgtacgcttcc ... tccttttcagATCGGCTTCAGATGGGCGAAGTTGTCTCCACCATTCCAA
EST: gi|192313159|gb|FK003279.1|FK003279
EST:     TCGAATCCTCGTTCTCGGCCTCGACAATGCCGGCAAAACCACTATTCTCT                         ATCGGCTTCAGATGGGCGAAGTTGTCTCCACCATTCCAA
genomic: TCGAATCCTCGTTCTCGGCCTCGACAATGCCGGCAAAACCACTATTCTCTgtacgcttcc ... tccttttcagATCGGCTTCAGATGGGCGAAGTTGTCTCCACCATTCCAA
EST: gi|26047527|gb|CA784291.1|CA784291
EST:     TCGAATCCTCGTTCTCGGCCTCGACAATGCCGGCAAAACCACTATTCTCT                         ATCGGCTTCAGATGGGCGAAGTTGTCTCCACCATTCCAA
genomic: TCGAATCCTCGTTCTCGGCCTCGACAATGCCGGCAAAACCACTATTCTCTgtacgcttcc ... tccttttcagATCGGCTTCAGATGGGCGAAGTTGTCTCCACCATTCCAA
EST: gi|192299620|gb|FG990002.1|FG990002
EST:     TCGAATCCTCGTTCTCGGCCTCGACAATGCCGGCAAAACCACTATTCTCT                         ATCGGCTTCAGATGGGCGAAGTTGTCTCCACCATTCCAA
genomic: TCGAATCCTCGTTCTCGGCCTCGACAATGCCGGCAAAACCACTATTCTCTgtacgcttcc ... tccttttcagATCGGCTTCAGATGGGCGAAGTTGTCTCCACCATTCCAA
EST: gi|7042626|gb|AW472520.1|AW472520
EST:     TCGAATCCTCGTTCTCGGCCTCGACAATGCCGGCAAAACCACTATTCTCT                         ATCGGCTTCAGATGGGCGAAGTTGTCTCCACCATTCCAA
genomic: TCGAATCCTCGTTCTCGGCCTCGACAATGCCGGCAAAACCACTATTCTCTgtacgcttcc ... tccttttcagATCGGCTTCAGATGGGCGAAGTTGTCTCCACCATTCCAA
EST: gi|192308422|gb|FK000918.1|FK000918
EST:     TCGAATCCTCGTTCTCGGCCTCGACAATGCCGGCAAAACCACTATTCTCT                         ATCGGCTTCAGATGGGCGAAGTTGTCTCCACCATTCCAA
genomic: TCGAATCCTCGTTCTCGGCCTCGACAATGCCGGCAAAACCACTATTCTCTgtacgcttcc ... tccttttcagATCGGCTTCAGATGGGCGAAGTTGTCTCCACCATTCCAA
EST: gi|298163498|gb|HO012231.1|HO012231
EST:     TCGAATCCTCGTTCTCGGCCTCGACAATGCCGGCAAAACCACTATTCTCT                         ATCGGCTTCAGATGGGCGAAGTTGTCTCCACCATTCCAA
genomic: TCGAATCCTCGTTCTCGGCCTCGACAATGCCGGCAAAACCACTATTCTCTgtacgcttcc ... tccttttcagATCGGCTTCAGATGGGCGAAGTTGTCTCCACCATTCCAA
EST: gi|192306665|gb|FG998077.1|FG998077
EST:     TCGAATCCTCGTTCTCGGCCTCGACAATGCCGGCAAAACCACTATTCTCT                         ATCGGCTTCAGATGGGCGAAGTTGTCTCCACCATTCCAA
genomic: TCGAATCCTCGTTCTCGGCCTCGACAATGCCGGCAAAACCACTATTCTCTgtacgcttcc ... tccttttcagATCGGCTTCAGATGGGCGAAGTTGTCTCCACCATTCCAA
EST: gi|12488647|gb|BG042170.1|BG042170
EST:     TCGAATCCTCGTTCT-NGCCTCGACAATGCCGGCAAAACCACTATTCTCT                         ATCGGCTTCAGATGGGCGAAGTTGTCTCCACCATTCCAA
genomic: TCGAATCCTCGTTCTCGGCCTCGACAATGCCGGCAAAACCACTATTCTCTgtacgcttcc ... tccttttcagATCGGCTTCAGATGGGCGAAGTTGTCTCCACCATTCCAA
EST: gi|192326406|gb|FK017693.1|FK017693
EST:     TCGAATCCTCGTTCTCGGCCTCGACAATGCCGGCAAAACCACTATTCTCT                         ATCGGCTTCAGATGGGCGAAGTTGTCTCCACCATTCCAA
genomic: TCGAATCCTCGTTCTCGGCCTCGACAATGCCGGCAAAACCACTATTCTCTgtacgcttcc ... tccttttcagATCGGCTTCAGATGGGCGAAGTTGTCTCCACCATTCCAA
EST: gi|10848119|gb|BF070667.1|BF070667
EST:     TCGAATCCTCGTTCTCGGCCTCGACAATGCCGGCAAAACCACTATTCTCT                         ATCGGCTTCAGATGGGCGAAGTTGTCTCCACCATTCCAA
genomic: TCGAATCCTCGTTCTCGGCCTCGACAATGCCGGCAAAACCACTATTCTCTgtacgcttcc ... tccttttcagATCGGCTTCAGATGGGCGAAGTTGTCTCCACCATTCCAA
EST: gi|15813778|gb|BI786053.1|BI786053
EST:     TCGAATCCTCGTTCTCGGCCTCGACAATGCCGGCAAAACCACTATTCTCT                         ATCGGCTTCAGATGGGCGAAGTTGTCTCCACCATTCCAA
genomic: TCGAATCCTCGTTCTCGGCCTCGACAATGCCGGCAAAACCACTATTCTCTgtacgcttcc ... tccttttcagATCGGCTTCAGATGGGCGAAGTTGTCTCCACCATTCCAA
EST: gi|9565450|gb|BE474959.1|BE474959
EST:     TCGAATCCTCGTTCTCGGCCTCGACAATGCCGGCAAAACCACTATTCTCT                         ATCGGCTTCAGATGGGCGAAGTTGTCTCCACCATTCCAA
genomic: TCGAATCCTCGTTCTCGGCCTCGACAATGCCGGCAAAACCACTATTCTCTgtacgcttcc ... tccttttcagATCGGCTTCAGATGGGCGAAGTTGTCTCCACCATTCCAA
EST: gi|298165965|gb|HO008936.1|HO008936
EST:     TCGAATCCTCGTTCTCGGCCTCGACAATGCCGGCAAAACCACTATTCTCT                         ATCGGCTTCAGATGGGCGAAGTTGTCTCCACCATTCCAA
genomic: TCGAATCCTCGTTCTCGGCCTCGACAATGCCGGCAAAACCACTATTCTCTgtacgcttcc ... tccttttcagATCGGCTTCAGATGGGCGAAGTTGTCTCCACCATTCCAA
EST: gi|208096947|gb|GD894222.1|GD894222
EST:     TCGAATCCTCGTTCTCGGCCTCGACAATGCCGGCAAAACCACTATTCTCT                         ATCGGCTTCAGATGGGCGAAGTTGTCTCCAACCATTCCAA
genomic: TCGAATCCTCGTTCTCGGCCTCGACAATGCCGGCAAAACCACTATTCTCTgtacgcttcc ... tccttttcagATCGGCTTCAGATGGGCGAAGTTGTCTCCA-CCATTCCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgaattttctgtttctcgaattgattcgttcgattttattactttccttttcagATCGGCTTCAGATGGGCGAAGTTGTCTCCACCATTCCAA
                   aattgat  putative branch site (score: 4)
                                  ttttattactttcctt  putative PPT
                                 attttattacttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacgcttcctacctctctgcttctctccctcaccatccgatttgaattttctgtttctcgaattgattcgttcgattttattactttccttttcagATCGGCTTCAGATGGGCGAAGTTGTCTCCACCATTCCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGATG