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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atgagacaaatgcataccatgaatgttacttttgttgctgtaattgaaatttttattatgttgaaatgctaaattattttgcggtttattttggttctagGGTTTCTCCAGGTGTGGTTTGATTTACAGTTTCTGATGCTGAAGAAATAAAAAAGCTTGAAGGCTTTTGCTCTTCTGTGTGAAAAATGTTGGAAAGTGGT

Basic information

species Glycine max
transcript GLYMA05G36540.2
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|209728007|gb|BW666729.1|BW666729
EST:     CCACTCTCTTATCACCGCTCGCTTTCTTAACTAGAGCCCTCTCCGTTGAG                         GGTTTCTCCAGGTGTGGTTTGATTTACAGTTTCTGATGCTGAAGAAATAAA
genomic: CTACTCTCTTATCACAGCTCGCTTTCTTAACTAGAGCCCTCTCCGTTGAGgtacgcgtat ... ttggttctagGGTTTCTCCAGGTGTGGTTTGATTTACAGTTTCTGATGCTGAAGAAATAAA
EST: gi|208042928|gb|GD842306.1|GD842306
EST:     CCACTCTCTTATCACCGCTCGCTTTCTTAACTAGAGCCCTCTCCGTTGAG                         GGTTTCTCCAGGTGTGGTTTGATTTACAGTTTCTGATGCTGAAGAAATAAA
genomic: CTACTCTCTTATCACAGCTCGCTTTCTTAACTAGAGCCCTCTCCGTTGAGgtacgcgtat ... ttggttctagGGTTTCTCCAGGTGTGGTTTGATTTACAGTTTCTGATGCTGAAGAAATAAA
EST: gi|209728953|gb|BW651730.1|BW651730
EST:     CCACTCTCTTATCACCGCTCGCTTTCTTAACTAGAGCCCTCTCCGTTGAG                         GGTTTCTCCAGGTGTGGTTTGATTTACAGTTTCTGATGCTGAAGAAATAAA
genomic: CTACTCTCTTATCACAGCTCGCTTTCTTAACTAGAGCCCTCTCCGTTGAGgtacgcgtat ... ttggttctagGGTTTCTCCAGGTGTGGTTTGATTTACAGTTTCTGATGCTGAAGAAATAAA
EST: gi|213598200|gb|DB970140.1|DB970140
EST:     CCACTCTCTTATCACCGCTCGCTTTCTTAACTAGAGCCCTCTCCGTTGAG                         GGTTTCTCCAGGTGTGGTTTGATTTACAGTTTCTGATGCTGA
genomic: CTACTCTCTTATCACAGCTCGCTTTCTTAACTAGAGCCCTCTCCGTTGAGgtacgcgtat ... ttggttctagGGTTTCTCCAGGTGTGGTTTGATTTACAGTTTCTGATGCTGA
EST: gi|213597094|gb|DB968175.1|DB968175
EST:     CCACTCTCTTATCACCGCTCGCTTTCTTAACTAGAGCCCTCTCCGTTGAG                         GGTTTCTCCAGGTGTGGTTTGATTTACAGTTTCTGATGCTGAAGAAATAAA
genomic: CTACTCTCTTATCACAGCTCGCTTTCTTAACTAGAGCCCTCTCCGTTGAGgtacgcgtat ... ttggttctagGGTTTCTCCAGGTGTGGTTTGATTTACAGTTTCTGATGCTGAAGAAATAAA
EST: gi|213588525|gb|DB957494.1|DB957494
EST:     CCACTCTCTTATCACCGCTCGCTTTCTTAACTAGAGCCCTCTCCGTTGAG                         GGTTTCTCCAGGTGTGGTTTGATTTACAGTTTCTGATGCTGAAGAAATAAA
genomic: CTACTCTCTTATCACAGCTCGCTTTCTTAACTAGAGCCCTCTCCGTTGAGgtacgcgtat ... ttggttctagGGTTTCTCCAGGTGTGGTTTGATTTACAGTTTCTGATGCTGAAGAAATAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaaatttttattatgttgaaatgctaaattattttgcggtttattttggttctagGGTTTCTCCAGGTGTGGTTTGATTTACAGTTTCTGATGCTGAAGAAATAAAAAAGCTTGAAGGCTTTTGCTCTTCTGTGTGAAAAATGTTGGAAAGTGGT
                     tgctaaa  putative branch site (score: 2)
                                       tttatttt  putative PPT
     ttttattatgttgaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atgagacaaatgcataccatgaatgttacttttgttgctgtaattgaaatttttattatgttgaaatgctaaattattttgcggtttattttggttctagGGTTTCTCCAGGTGTGGTTTGATTTACAGTTTCTGATGCTGAAGAAATAAAAAAGCTTGAAGGCTTTTGCTCTTCTGTGTGAAAAATGTTGGAAAGTGGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- gagacaaa
- - - - - -gcatacc
- - - - - - - - - -tgaatgt
- - - - - - - - - - - - - - - - tgttgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaaatgc