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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttgcatatcaatccctccctcccttttaccaactaccccattcaacattttctattttattttcttattatattctccttttttttttgtagCTATTGCGTGGAGATTCTGGGATGTTTTTCACCAATTTGTCTAAGGAAGAAGTTGAAAG

Basic information

species Glycine max
transcript GLYMA15G05360.1
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|17400452|gb|BM177234.1|BM177234
EST:     GTCGCTCCGCTTCAGATGAGATCAGACCTGGCCTTCACAAGGTTTCAAAG                         CTATTGCGTGGAGATTCTGGGATGTTTTTCACCAATTTGTCTAAGGAAGAA
genomic: GTCGCTCCGCTTCAGATGAGATCAGACCTGGCCTTCACAAGGTTTCAAAGgttgcatatc ... ttttttgtagCTATTGCGTGGAGATTCTGGGATGTTTTTCACCAATTTGTCTAAGGAAGAA
EST: gi|31460855|gb|CD402883.1|CD402883
EST:     GTCGCTCCGCTTCAGATGAGATCAGACCTGGCCTTCACAAGGTTTCAAAG                         CTATTGCGTGGAGATTCTGGGATGTTTTTCACCAATTTGTCTAAGGAAGAA
genomic: GTCGCTCCGCTTCAGATGAGATCAGACCTGGCCTTCACAAGGTTTCAAAGgttgcatatc ... ttttttgtagCTATTGCGTGGAGATTCTGGGATGTTTTTCACCAATTTGTCTAAGGAAGAA
EST: gi|151409671|gb|EV279479.1|EV279479
EST:     GTCGCTCCGCTTCAGATGAGATCAGACCTGGCCTTCACAAGGTTTCAAAG                         CTATTGCGTGGAGATTCTGGGATGTTTTTCACCAATTTGTCTAAGGAAGAA
genomic: GTCGCTCCGCTTCAGATGAGATCAGACCTGGCCTTCACAAGGTTTCAAAGgttgcatatc ... ttttttgtagCTATTGCGTGGAGATTCTGGGATGTTTTTCACCAATTTGTCTAAGGAAGAA
EST: gi|298188090|gb|HO032047.1|HO032047
EST:     GTCGCTCCGCTTCAGATGAGATCAGACCTGGCCTTCACAAGGTTTCAAAG                         CTATTGCGTGGAGATTCTGGGATGTTTTTCACCAATTTGTCTAAGGAAGAA
genomic: GTCGCTCCGCTTCAGATGAGATCAGACCTGGCCTTCACAAGGTTTCAAAGgttgcatatc ... ttttttgtagCTATTGCGTGGAGATTCTGGGATGTTTTTCACCAATTTGTCTAAGGAAGAA
EST: gi|298178045|gb|HO027428.1|HO027428
EST:     GTCGCTCCGCTTCAGATGAGATCAGACCTGGCCTTCACAAGGTTTCAAAG                         CTATTGCGTGGAGATTCTGGGATGTTTTTCACCAATTTGTCTAAGGAAGAA
genomic: GTCGCTCCGCTTCAGATGAGATCAGACCTGGCCTTCACAAGGTTTCAAAGgttgcatatc ... ttttttgtagCTATTGCGTGGAGATTCTGGGATGTTTTTCACCAATTTGTCTAAGGAAGAA
EST: gi|298192153|gb|HO036235.1|HO036235
EST:     GTCGCTCCGCTTCAGATGAGATCAGACCTGGCCTTCACAAGGTTTCAAAG                         CTATTGCGTGGAGATTCTGGGATGTTTTTCACCAATTTGTCTAAGGAAGAA
genomic: GTCGCTCCGCTTCAGATGAGATCAGACCTGGCCTTCACAAGGTTTCAAAGgttgcatatc ... ttttttgtagCTATTGCGTGGAGATTCTGGGATGTTTTTCACCAATTTGTCTAAGGAAGAA
EST: gi|33390011|gb|CA853218.1|CA853218
EST:     GTCGCTCCGCTTCAGATGAGATCAGACCTGGCCTTCACAAGGTTTCAAAG                         CTATTGCGTGGAGATTCTGGGATGTTTTTCACCAATTTGTCTAAGGAAGAA
genomic: GTCGCTCCGCTTCAGATGAGATCAGACCTGGCCTTCACAAGGTTTCAAAGgttgcatatc ... ttttttgtagCTATTGCGTGGAGATTCTGGGATGTTTTTCACCAATTTGTCTAAGGAAGAA
EST: gi|213597447|gb|DB962525.1|DB962525
EST:     GTCGCTCCGCTTCAGATGAGATCAGACCTGGCCTTCACAAGGTTTCAAAG                         CTATTGCGTGGAGATTCTGGGATGTTTTTCACCAATTTGTCTAAGGAAGAA
genomic: GTCGCTCCGCTTCAGATGAGATCAGACCTGGCCTTCACAAGGTTTCAAAGgttgcatatc ... ttttttgtagCTATTGCGTGGAGATTCTGGGATGTTTTTCACCAATTTGTCTAAGGAAGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccattcaacattttctattttattttcttattatattctccttttttttttgtagCTATTGCGTGGAGATTCTGGGATGTTTTTCACCAATTTGTCTAAGGAAGAAGTTGAAAG
          ttttctattttatttt  CT-rich tract
         attttctattttattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttgcatatcaatccctccctcccttttaccaactaccccattcaacattttctattttattttcttattatattctccttttttttttgtagCTATTGCGTGGAGATTCTGGGATGTTTTTCACCAATTTGTCTAAGGAAGAAGTTGAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT