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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttaaccctcacacactctctgttattcctcaattccattactcctttactgaatggattgatcccgttttttggttgcagTTGGATGAAGATTTGCAGAGAGCGAGATGCATCATCGTTGACGGTGACTCCTCTTCGCTTCTCCCTGGCCATGCACAAG

Basic information

species Glycine max
transcript GLYMA20G38960.1
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|14259702|gb|BG882610.1|BG882610
EST:     TCGATTCTCTTGTCTCCACCAAACAAATCCCTCCCTCCTTAGCCGATAAG                         TTGGATGAAGATTTGCAGAGAGCGAGATGCATCATCGTTGACGGTGACTCC
genomic: TCGATTCTCTTGTCTCCACCAAACAAATCCCTCCCTCCTTAGCCGATAAGgtatgttaac ... ttggttgcagTTGGATGAAGATTTGCAGAGAGCGAGATGCATCATCGTTGACGGTGACTCC
EST: gi|298182431|gb|HO026606.1|HO026606
EST:     TCGATTCTCTTGTCTCCACCAAACAAATCCCTCCCTCCTTAGCCGATAAG                         CTGGAGGAAGATTTGCAGAGAGCGAGATGCATCATCGTTGACGGTGACTCC
genomic: TCGATTCTCTTGTCTCCACCAAACAAATCCCTCCCTCCTTAGCCGATAAGgtatgttaac ... ttggttgcagTTGGATGAAGATTTGCAGAGAGCGAGATGCATCATCGTTGACGGTGACTCC
EST: gi|207843228|gb|GD816830.1|GD816830
EST:     TCGATTCTCTTGTCTCCACCAAACAAACCCCTCCCTCCTTAGCCGATAAG                         TTGGATGAAGATTTGCAGAGAGCGAGATGCATCATCGTTGACGGTGACTCC
genomic: TCGATTCTCTTGTCTCCACCAAACAAATCCCTCCCTCCTTAGCCGATAAGgtatgttaac ... ttggttgcagTTGGATGAAGATTTGCAGAGAGCGAGATGCATCATCGTTGACGGTGACTCC
EST: gi|14258798|gb|BG881706.1|BG881706
EST:     TCGATTCTCTTGTCTCCACCAAACAAATCCCTCCCTCCTTAGCCGATAAG                         TTGGATGAAGATTTGCAGAGAGCGAGATGCATCATCGTTGACGGTGACTCC
genomic: TCGATTCTCTTGTCTCCACCAAACAAATCCCTCCCTCCTTAGCCGATAAGgtatgttaac ... ttggttgcagTTGGATGAAGATTTGCAGAGAGCGAGATGCATCATCGTTGACGGTGACTCC
EST: gi|213590375|gb|DB963896.1|DB963896
EST:     TCGATTCTCTTGTCTCCACCAAACAAATCCCTCCCTCCTTAGCCGATAAG                         TTGGATGAAGATTTGCAGAGAGCGAGATGCATCATCGTTGACGGTGACTCC
genomic: TCGATTCTCTTGTCTCCACCAAACAAATCCCTCCCTCCTTAGCCGATAAGgtatgttaac ... ttggttgcagTTGGATGAAGATTTGCAGAGAGCGAGATGCATCATCGTTGACGGTGACTCC
EST: gi|298199045|gb|HO042408.1|HO042408
EST:     TCGATCCTCTTGTCTCCACCAAACAAATCCCTCCCTCCTTAGCCGATAAG                         TTGGATGAAGATTTGCAGAGAGCGAGATGCATCATCGTTGACGGTGACTCC
genomic: TCGATTCTCTTGTCTCCACCAAACAAATCCCTCCCTCCTTAGCCGATAAGgtatgttaac ... ttggttgcagTTGGATGAAGATTTGCAGAGAGCGAGATGCATCATCGTTGACGGTGACTCC
EST: gi|192319099|gb|FK010635.1|FK010635
EST:     TCGATTCTCTTGTCTCCACCAAACAAATCCCTCCCTCCTTAGCCGATAAG                         TTGGATGAAGATTTGCAGAGAGCGAGATGCATCATCGTTGACGGTGACTCC
genomic: TCGATTCTCTTGTCTCCACCAAACAAATCCCTCCCTCCTTAGCCGATAAGgtatgttaac ... ttggttgcagTTGGATGAAGATTTGCAGAGAGCGAGATGCATCATCGTTGACGGTGACTCC
EST: gi|192320395|gb|FK012253.1|FK012253
EST:     TCGATTCTCTTGTCTCCACCAAACAAATCCCTCCCTCCTTAGCCGATAAG                         TTGGATGAAGATTTGCAGAGAGCGAGATGCATCATCGTTGACGGTGACTCC
genomic: TCGATTCTCTTGTCTCCACCAAACAAATCCCTCCCTCCTTAGCCGATAAGgtatgttaac ... ttggttgcagTTGGATGAAGATTTGCAGAGAGCGAGATGCATCATCGTTGACGGTGACTCC
EST: gi|209701984|gb|BW664584.1|BW664584
EST:     TCGATTCTCTTGTCTCCACCAAACAAATCCCTCCCTCCTTAGCCGATAAG                         TTGGATGAAGATTTGCAGAGAGCGAGATGCATCATCGTTGACGGTGACTCC
genomic: TCGATTCTCTTGTCTCCACCAAACAAATCCCTCCCTCCTTAGCCGATAAGgtatgttaac ... ttggttgcagTTGGATGAAGATTTGCAGAGAGCGAGATGCATCATCGTTGACGGTGACTCC
EST: gi|213594582|gb|DB958001.1|DB958001
EST:     TCGATTCTCTTGTCTCCACCAAACAAATCCCTCCCTCCTTAGCCGATAAG                         TTGGATGAAGATTTGCAGAGAGCGAGATGCATCATCGTTGACGGTGACTCC
genomic: TCGATTCTCTTGTCTCCACCAAACAAATCCCTCCCTCCTTAGCCGATAAGgtatgttaac ... ttggttgcagTTGGATGAAGATTTGCAGAGAGCGAGATGCATCATCGTTGACGGTGACTCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcctcaattccattactcctttactgaatggattgatcccgttttttggttgcagTTGGATGAAGATTTGCAGAGAGCGAGATGCATCATCGTTGACGGTGACTCCTCTTCGCTTCTCCCTGGCCATGCACAAG
                              gattgat  putative branch site (score: 4)
                                    tcccgtttttt  CT-rich tract
                                         tttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgttaaccctcacacactctctgttattcctcaattccattactcctttactgaatggattgatcccgttttttggttgcagTTGGATGAAGATTTGCAGAGAGCGAGATGCATCATCGTTGACGGTGACTCCTCTTCGCTTCTCCCTGGCCATGCACAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC