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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ataatttttgggttaatggaattaatggtaactactgcataatgcatgttgcaatttgtggtgcctgcttttgacattcctaatggtggtgataaattagATACAATTATTGGCGGACCTCGATTTGAAGAAAACTCCTCAGCTGCTTGAGTTGCTTGATGATAGTAAG

Basic information

species Glycine max
transcript GLYMA03G22450.1
intron # 6
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|193546295|gb|FK501772.1|FK501772
EST:     CGTCATCTGGTGCTTGGGGTGATTTCTCAGATTATTAAG                         ATACAATTATTGGCGGACCTCGATTTG-AGAAAACTCCTCAGCTGCTTGAG
genomic: CGTCATCTGGTGCTTGGGGTGATTTCTCAGATTATTAAGgtaaacaatc ... gataaattagATACAATTATTGGCGGACCTCGATTTGAAGAAAACTCCTCAGCTGCTTGAG
EST: gi|193486184|gb|FK451698.1|FK451698
EST:     CGTCATCTGGTGCTTGGGGTGATTTCTCAGATTATTAAG                         ATACAATTATTGGCGGACCTCGATTTGAAGAAAACTCCTCAGCTGCTTGAG
genomic: CGTCATCTGGTGCTTGGGGTGATTTCTCAGATTATTAAGgtaaacaatc ... gataaattagATACAATTATTGGCGGACCTCGATTTGAAGAAAACTCCTCAGCTGCTTGAG
EST: gi|208245262|gb|GE041628.1|GE041628
EST:     CGTCATCTGGTGCTTGGGGTGATTTCTCAGATTATTAAG                         ATACAATTATTGGCGGACCTCGATTTGAAGAAAACTCCTCAGCTGCTTGAG
genomic: CGTCATCTGGTGCTTGGGGTGATTTCTCAGATTATTAAGgtaaacaatc ... gataaattagATACAATTATTGGCGGACCTCGATTTGAAGAAAACTCCTCAGCTGCTTGAG
EST: gi|193536063|gb|FK491347.1|FK491347
EST:     CGTCATCTGGTGCTT-GGGTGAATTTACTCAGATTATTAAG                         ATACAATTATTGGCGGACCTCGATTTGAAGAAAACTCCTCAGCTGCTTGAG
genomic: CGTCATCTGGTGCTTGGGGTG-ATTT-CTCAGATTATTAAGgtaaacaatc ... gataaattagATACAATTATTGGCGGACCTCGATTTGAAGAAAACTCCTCAGCTGCTTGAG
EST: gi|208075796|gb|GD874753.1|GD874753
EST:     CGTCATCTGGTGCTTGGGGTGATTTCTCAGATTATTAAG                         ATACAATTATTGGCGGACCTCGATTTGAAGAAAACTCCTCAGCTGCTTGAG
genomic: CGTCATCTGGTGCTTGGGGTGATTTCTCAGATTATTAAGgtaaacaatc ... gataaattagATACAATTATTGGCGGACCTCGATTTGAAGAAAACTCCTCAGCTGCTTGAG
EST: gi|208188002|gb|GD986816.1|GD986816
EST:     CGTCATCTGGTGCTTGGGGTGATTTCTCAGATTATTAAG                         ATACAATTATTGGCGGACCTCGATTTGAAGAAAACTCCTCAGCTGCTTGAG
genomic: CGTCATCTGGTGCTTGGGGTGATTTCTCAGATTATTAAGgtaaacaatc ... gataaattagATACAATTATTGGCGGACCTCGATTTGAAGAAAACTCCTCAGCTGCTTGAG
EST: gi|193480645|gb|FK446407.1|FK446407
EST:     CGTCATCTGGTGCTTGGGGTGATTTCTCAGATTATTAAG                         ATACAATTATTGGCGGACCTCGATTTGAAGAAAACTCCTCAGCTGCTTGAG
genomic: CGTCATCTGGTGCTTGGGGTGATTTCTCAGATTATTAAGgtaaacaatc ... gataaattagATACAATTATTGGCGGACCTCGATTTGAAGAAAACTCCTCAGCTGCTTGAG
EST: gi|208276418|gb|GE076952.1|GE076952
EST:     CGTCATCTGGTGCTTGGGGTGATTTCTCAGATTATTAAG                         ATACAATTATTGGCGGACCTCGATTTGAAGAAAACTCCTCAGCTGCTTGAG
genomic: CGTCATCTGGTGCTTGGGGTGATTTCTCAGATTATTAAGgtaaacaatc ... gataaattagATACAATTATTGGCGGACCTCGATTTGAAGAAAACTCCTCAGCTGCTTGAG
EST: gi|192305988|gb|FG993620.1|FG993620
EST:     CGTCATCTGGTGCTTGGGGTGATTTCTCAGATTATTAAG                         ATACAATTATTGGCGGACCTCGATTTGAAGAAAACTCCTCAGCTGCTTGAG
genomic: CGTCATCTGGTGCTTGGGGTGATTTCTCAGATTATTAAGgtaaacaatc ... gataaattagATACAATTATTGGCGGACCTCGATTTGAAGAAAACTCCTCAGCTGCTTGAG
EST: gi|207813907|gb|GD785142.1|GD785142
EST:     GTCATCTGGTGCTTGGGGGTGATTTCTCAGATTATTAAG                         ATACAATTATTGGCGGACCTCGATTTGAAGAAAACTCCTCAGCTGCTTGAG
genomic: GTCATCTGGTGCTT-GGGGTGATTTCTCAGATTATTAAGgtaaacaatc ... gataaattagATACAATTATTGGCGGACCTCGATTTGAAGAAAACTCCTCAGCTGCTTGAG
EST: gi|208261266|gb|GE058174.1|GE058174
EST:     CGTCATCTGGTGCTTGGGGTGATTTCTCAGATTATTAAG                         ATACAATTATTGGCGGACCTCGATTTGAAGAAAACTCCTCAGCTGCTTGAG
genomic: CGTCATCTGGTGCTTGGGGTGATTTCTCAGATTATTAAGgtaaacaatc ... gataaattagATACAATTATTGGCGGACCTCGATTTGAAGAAAACTCCTCAGCTGCTTGAG
EST: gi|208151760|gb|GD945575.1|GD945575
EST:     CGTCATC-GGATGCTTGGGGTGATTTCTCAGATTATTAAG                         ATACAATTATTGGCGGACCTCGATTTGAAGAAAACTACCTCAGCTGCT
genomic: CGTCATCTGG-TGCTTGGGGTGATTTCTCAGATTATTAAGgtaaacaatc ... gataaattagATACAATTATTGGCGGACCTCGATTTGAAGAAAACT-CCTCAGCTGCT
EST: gi|193656419|gb|FK602891.1|FK602891
EST:     CGTCATCTGGTGCTTGGGGTGATTTCTCAGATTATTAAG                         ATACAATTATTGGCGGACCTCGATTTGAAGAAAACTCCTCAGCTGCTTGAG
genomic: CGTCATCTGGTGCTTGGGGTGATTTCTCAGATTATTAAGgtaaacaatc ... gataaattagATACAATTATTGGCGGACCTCGATTTGAAGAAAACTCCTCAGCTGCTTGAG
EST: gi|193419101|gb|FK382275.1|FK382275
EST:     CGTCATCTGGTGCTTGGGGTGATTTCTCAGATTATTAAG                         ATACAATTATTGGCGGACCTCGATTTGAAGAAAACTCCTCAGCTGCTTGAG
genomic: CGTCATCTGGTGCTTGGGGTGATTTCTCAGATTATTAAGgtaaacaatc ... gataaattagATACAATTATTGGCGGACCTCGATTTGAAGAAAACTCCTCAGCTGCTTGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgttgcaatttgtggtgcctgcttttgacattcctaatggtggtgataaattagATACAATTATTGGCGGACCTCGATTTGAAGAAAACTCCTCAGCTGCTTGAGTTGCTTGATGATAGTAAG
                                tcctaat  putative branch site (score: 2)
                                            tgataaatta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ataatttttgggttaatggaattaatggtaactactgcataatgcatgttgcaatttgtggtgcctgcttttgacattcctaatggtggtgataaattagATACAATTATTGGCGGACCTCGATTTGAAGAAAACTCCTCAGCTGCTTGAGTTGCTTGATGATAGTAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - - - - - - - - - - - - - - - -tgcataa
- - - - - - - - - - - - - - - - - - - - - -gcatgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtggtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cattcct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggtggt