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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...caaaattctattttaacctgtttatatatctttggcatatgctcttgatttttattttattgttttctgctttttccccttacgtggtttccaaacccagCCATGGTTGTCTCGAGCATATGATCCCTGTACTGAGAGGTACTCTACCTTGTATTTCAATCGTCCAGAAGTTCAGAAGGCACTTCATGCCAATGTAACTG

Basic information

species Glycine max
transcript GLYMA16G26070.2
intron # 5
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|13789996|gb|BG652587.1|BG652587
EST:     CAGTATGCAATGATATAGCAGCAATCAAACGCCGTTTGGGGGGTCGCTAT                         CCATGGTTGTCTCGAGCATATGATCCCTGTACTGAGAGGTACTCTACCTTG
genomic: CAGTATGCAATGATATAGCAGCAATCAAACGCCGTTTGGGGGGTCGCTATgtaagctttt ... ccaaacccagCCATGGTTGTCTCGAGCATATGATCCCTGTACTGAGAGGTACTCTACCTTG
EST: gi|58019406|gb|CX706148.1|CX706148
EST:     CAGTATGCAATGATATAGCAGCAATCAAACGCCGTTTGGGGGGTCGCTAT                         CCATGGTTGTCTCGAGCATATGATCCCTGTACTGAGAGGTACTCTACCTTG
genomic: CAGTATGCAATGATATAGCAGCAATCAAACGCCGTTTGGGGGGTCGCTATgtaagctttt ... ccaaacccagCCATGGTTGTCTCGAGCATATGATCCCTGTACTGAGAGGTACTCTACCTTG
EST: gi|10846445|gb|BF071337.1|BF071337
EST:     CAGTATGCAATGATATAGCAGCAATCAAACGCCGTTTGGGGGGTCGCTAT                         CCATGGTTGTCTCGAGCATATGATCCCTGTACTGAGAGGTACTCTACCTTG
genomic: CAGTATGCAATGATATAGCAGCAATCAAACGCCGTTTGGGGGGTCGCTATgtaagctttt ... ccaaacccagCCATGGTTGTCTCGAGCATATGATCCCTGTACTGAGAGGTACTCTACCTTG
EST: gi|193435150|gb|FK399832.1|FK399832
EST:     GGGGGGTCGCTAT                         CCATGGTTGTCTCGAGCATATGATCCCTGTACTGAGAGGTACTCTACCTTG
genomic: GGGGGGTCGCTATgtaagctttt ... ccaaacccagCCATGGTTGTCTCGAGCATATGATCCCTGTACTGAGAGGTACTCTACCTTG
EST: gi|51336355|gb|CO980221.1|CO980221
EST:     CAGTATGCAATGATATAGCAGCAATCAAACGCCGTTTGGGGGGTCGCTAT                         CCATGGTTGTCTCGAGCATATGATCCCTGTACTGAGAGGTACTCTACCTTG
genomic: CAGTATGCAATGATATAGCAGCAATCAAACGCCGTTTGGGGGGTCGCTATgtaagctttt ... ccaaacccagCCATGGTTGTCTCGAGCATATGATCCCTGTACTGAGAGGTACTCTACCTTG
EST: gi|58016301|gb|CX703043.1|CX703043
EST:     CAGTATGCAATGATATAGCAGCAATCAAACGCCGTTTGGGGGGTCGCTAT                         CCATGGTTGTCTCGAGCATATGATCCCTGTACTGAGAGGTACTCTACCTTG
genomic: CAGTATGCAATGATATAGCAGCAATCAAACGCCGTTTGGGGGGTCGCTATgtaagctttt ... ccaaacccagCCATGGTTGTCTCGAGCATATGATCCCTGTACTGAGAGGTACTCTACCTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgatttttattttattgttttctgctttttccccttacgtggtttccaaacccagCCATGGTTGTCTCGAGCATATGATCCCTGTACTGAGAGGTACTCTACCTTGTATTTCAATCGTCCAGAAGTTCAGAAGGCACTTCATGCCAATGTAACTG
                               cccttac  putative branch site (score: 3)
                                          tttcc  putative PPT
     tttattttattgtttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
caaaattctattttaacctgtttatatatctttggcatatgctcttgatttttattttattgttttctgctttttccccttacgtggtttccaaacccagCCATGGTTGTCTCGAGCATATGATCCCTGTACTGAGAGGTACTCTACCTTGTATTTCAATCGTCCAGAAGTTCAGAAGGCACTTCATGCCAATGTAACTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT
- - - - - - - - cctgttt
- - - - - - - - - - - - - - -ctttggc
- - - - - - - - - - - - - - - - - - -tatgctc