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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aataatttctcatattgcagatttttatttaaaacattgctaacaataccacatgttgattgcatatggctgatctacattgattattgatttattgcagTTGGATGATTGGGTTCTTTGCCGGATTTACAAGAAGTCCAAACATGCTCTAACTTCAACAGAGGCATCAATAGGGGTGGGTGAGGTAGATCAAGCAGAGG

Basic information

species Glycine max
transcript GLYMA16G04740.1
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|21677735|gb|BQ630086.1|BQ630086
EST:     GCCTTGTAGACAACAACAAACCCATCAAGCTCAAAGACTCCTCCATGAGA                         TTGGATGATTGGGTTCTTTGCCGGATTTACAAGAAGTCCAAACATGCTCTA
genomic: GCCTTGTAGACAACAACAAACCCATCAAGCTCAAAGACTCCTCCATGAGAgtaagtgtca ... tttattgcagTTGGATGATTGGGTTCTTTGCCGGATTTACAAGAAGTCCAAACATGCTCTA
EST: gi|192302989|gb|FG997005.1|FG997005
EST:     GCCTTGTAGACAACAACAAACCCATCAAGCTCAAAGACTCCTCCATGAGA                         TTGGATGATTGGGTTCTTTGCCGGATTTACAAGAAGTCCAAACATGCTCTA
genomic: GCCTTGTAGACAACAACAAACCCATCAAGCTCAAAGACTCCTCCATGAGAgtaagtgtca ... tttattgcagTTGGATGATTGGGTTCTTTGCCGGATTTACAAGAAGTCCAAACATGCTCTA
EST: gi|10232144|gb|BE801032.1|BE801032
EST:     GCCTTGTAGACAACAACAAACCCATCAAGCTCAAAGACTCCTCCATGAGA                         TTGGATGATTGGGTTCTTTGCCGGATTTACAAGAAGTCCAAACATGCTCTA
genomic: GCCTTGTAGACAACAACAAACCCATCAAGCTCAAAGACTCCTCCATGAGAgtaagtgtca ... tttattgcagTTGGATGATTGGGTTCTTTGCCGGATTTACAAGAAGTCCAAACATGCTCTA
EST: gi|6069768|gb|AW099384.1|AW099384
EST:     GCCTTGTAGACAACAACAAACCCATCAAGCTCAAAGACTCCTCCATGAGA                         TTGGATGATTGGGTTCTTTGCCGGATTTACAAGAAGTCCAAA
genomic: GCCTTGTAGACAACAACAAACCCATCAAGCTCAAAGACTCCTCCATGAGAgtaagtgtca ... tttattgcagTTGGATGATTGGGTTCTTTGCCGGATTTACAAGAAGTCCAAA
EST: gi|17402168|gb|BM178950.1|BM178950
EST:     GCCTTGTAGACAACAACAAACCCATCAAGCTCAAAGACTCCTCCATGAGA                         TTGGATGATTGGGTTCTTTGCCGGATTTACAAGAAGTCCAAACATGCTCTA
genomic: GCCTTGTAGACAACAACAAACCCATCAAGCTCAAAGACTCCTCCATGAGAgtaagtgtca ... tttattgcagTTGGATGATTGGGTTCTTTGCCGGATTTACAAGAAGTCCAAACATGCTCTA
EST: gi|10844889|gb|BF068085.1|BF068085
EST:     GCCTTGTAGACAACAACAAACCCATCAAGCTCAAAGACTCCTCCATGAGA                         TTGGATGATTGGGTTCTTTGCCGGATTTACAAGAAGTCCAAACATGCTCTA
genomic: GCCTTGTAGACAACAACAAACCCATCAAGCTCAAAGACTCCTCCATGAGAgtaagtgtca ... tttattgcagTTGGATGATTGGGTTCTTTGCCGGATTTACAAGAAGTCCAAACATGCTCTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ataccacatgttgattgcatatggctgatctacattgattattgatttattgcagTTGGATGATTGGGTTCTTTGCCGGATTTACAAGAAGTCCAAACATGCTCTAACTTCAACAGAGGCATCAATAGGGGTGGGTGAGGTAGATCAAGCAGAGG
                                       tattgat  putative branch site (score: 3)
 tacattgattattgat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aataatttctcatattgcagatttttatttaaaacattgctaacaataccacatgttgattgcatatggctgatctacattgattattgatttattgcagTTGGATGATTGGGTTCTTTGCCGGATTTACAAGAAGTCCAAACATGCTCTAACTTCAACAGAGGCATCAATAGGGGTGGGTGAGGTAGATCAAGCAGAGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - tattgca
- - - - - - - - - - - - - - - - - - -tgctaac
- - - - - - - - - - - - - - - - - - - - - - - - ccacatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgcatat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gctgatc