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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagaattaattgagcagtgaatacatttcaagtgacttttactggcttgtgtttagcagtggatgttgattttatattctattattattttctccttgtttagCCTACATCTCAGTTGTCTGAACTATGGTCACCTCTGGAAAGCCAAGGATGGAAACCTTATGTTGAATCAAATAAGCCAA

Basic information

species Glycine max
transcript GLYMA01G02850.1
intron # 2
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|208076741|gb|GD877336.1|GD877336
EST:     TTAAACCTAGGCACTCACGTCTTCTCAGGAGTGCTGTGCAACGAGAAACT                         CCTACATCTCAGTTGTCTGAACTATGGTCACCTCTGGAAAGCCAAGGATGG
genomic: TTAAACCTAGGCACTCACGTCTTCTCAGGAGTGCTGTGCAACGAGAAACTgtaagaatta ... ccttgtttagCCTACATCTCAGTTGTCTGAACTATGGTCACCTCTGGAAAGCCAAGGATGG
EST: gi|7147128|gb|AW509050.1|AW509050
EST:     TTAAACCTAGGCACTCACGTCTTCTCAGGAGTGCTGTGCAACGAGAAACT                         CCTACATCTCAGTTGTCTGAACTATGGTCACCTCTGGAAAGCCAAGGATGG
genomic: TTAAACCTAGGCACTCACGTCTTCTCAGGAGTGCTGTGCAACGAGAAACTgtaagaatta ... ccttgtttagCCTACATCTCAGTTGTCTGAACTATGGTCACCTCTGGAAAGCCAAGGATGG
EST: gi|26043675|gb|CA782127.1|CA782127
EST:     TTAAACCTAGGCACTCACGTCTTCTCAGGAGTGCTGTGCAACGAGAAACT                         CCTACATCTCAGTTGTCTGAACTATGGTCACCTCTGGAAAGCCAAGGATGG
genomic: TTAAACCTAGGCACTCACGTCTTCTCAGGAGTGCTGTGCAACGAGAAACTgtaagaatta ... ccttgtttagCCTACATCTCAGTTGTCTGAACTATGGTCACCTCTGGAAAGCCAAGGATGG
EST: gi|7147562|gb|AW509484.1|AW509484
EST:     TTAAACCTAGGCACTCACGTCTTCTCAGGAGTGCTGTGCAACGAGAAACT                         CCTACATCTCAGTTGTCTGAACTATGGTCACCTCTGGAAAGCCAAGGATGG
genomic: TTAAACCTAGGCACTCACGTCTTCTCAGGAGTGCTGTGCAACGAGAAACTgtaagaatta ... ccttgtttagCCTACATCTCAGTTGTCTGAACTATGGTCACCTCTGGAAAGCCAAGGATGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgtttagcagtggatgttgattttatattctattattattttctccttgtttagCCTACATCTCAGTTGTCTGAACTATGGTCACCTCTGGAAAGCCAAGGATGGAAACCTTATGTTGAATCAAATAAGCCAA
               tgttgat  putative branch site (score: 4)
                            ttctattattattttc  putative PPT
                    attttatattctatta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagaattaattgagcagtgaatacatttcaagtgacttttactggcttgtgtttagcagtggatgttgattttatattctattattattttctccttgtttagCCTACATCTCAGTTGTCTGAACTATGGTCACCTCTGGAAAGCCAAGGATGGAAACCTTATGTTGAATCAAATAAGCCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA