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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tcctatcctgaccaccgaatgaccctcaatatttatttgaaaagtaacattattttcttagacagtttgtgatgtttggtcatgtgaatttgatttgcagGGTTGGATTATAAACTTCAAGTAGGGATTGGACACTTTTATCATATATTCTACGAGGGATGTTTAGCAAATTTTGAAATTGGAGAGGAAGGAGAAGAAGC

Basic information

species Glycine max
transcript GLYMA16G17680.1
intron # 3
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|151397241|gb|EV267114.1|EV267114
EST:     ACTAGAGAAGACGTACATACCTCCAGAAGGCTTTCTTACAACACTGAAAG                         GGTTGGATTATAAACTTCAAGTAGGGATTGGACACTTTTATCATATATTCT
genomic: ACTAGAGAAGACATACATACCTCCAGAAGGCTTTCTTACAACACTGAAAGgtaattatgt ... tgatttgcagGGTTGGATTATAAACTTCAAGTAGGGATTGGACACTTTTATCATATATTCT
EST: gi|209718226|gb|BW657845.1|BW657845
EST:     ACTAGAGAAGACATACATACCTCCAGAAGGCTTTCTTACAACACTGAAAG                         GGTTGGATTATAAACTTCAAGTAGGGATTGGACACTTTTATCATATATTCT
genomic: ACTAGAGAAGACATACATACCTCCAGAAGGCTTTCTTACAACACTGAAAGgtaattatgt ... tgatttgcagGGTTGGATTATAAACTTCAAGTAGGGATTGGACACTTTTATCATATATTCT
EST: gi|17401324|gb|BM178106.1|BM178106
EST:     TAGAGAAGA-ATACATACCTCCCAGA-GGCTTTCTTANCAACACTGAAAG                         GGGTGGATTATAAACTTCAAGTAGGGATTGGA
genomic: TAGAGAAGACATACATACCTCC-AGAAGGCTTTCTTA-CAACACTGAAAGgtaattatgt ... tgatttgcagGGTTGGATTATAAACTTCAAGTAGGGATTGGA
EST: gi|10845696|gb|BF068758.1|BF068758
EST:     ACTAGAGAAGACATACATACCTCCAGAAGGCTTTCTTACAACACTGAAAG                         GGTTGGATTATAAACTTCAAGTAGGGATTGGACACTTTTATCATATATTCT
genomic: ACTAGAGAAGACATACATACCTCCAGAAGGCTTTCTTACAACACTGAAAGgtaattatgt ... tgatttgcagGGTTGGATTATAAACTTCAAGTAGGGATTGGACACTTTTATCATATATTCT
EST: gi|17519561|gb|BM188603.1|BM188603
EST:     ACTAGAGAAGACATACATACCTCCAGAAGGCTTTCTTACAACACTGAAAG                         GGTTGGATTATAAACTTCAAGTAGGG
genomic: ACTAGAGAAGACATACATACCTCCAGAAGGCTTTCTTACAACACTGAAAGgtaattatgt ... tgatttgcagGGTTGGATTATAAACTTCAAGTAGGG
EST: gi|209703310|gb|BW653241.1|BW653241
EST:     ACTAGAGAAGACATACATACCTCCAGAAGGCTTTCTTACAACACTGAAAG                         GGTTGGATTATAAACTTCAAGTAGGGATTGGACACTTTTATCATATATTCT
genomic: ACTAGAGAAGACATACATACCTCCAGAAGGCTTTCTTACAACACTGAAAGgtaattatgt ... tgatttgcagGGTTGGATTATAAACTTCAAGTAGGGATTGGACACTTTTATCATATATTCT
EST: gi|298166324|gb|HO009295.1|HO009295
EST:     ACTAGAGAAGACATACATACCTCCAGAAGGCTTTCTTACAACACTGAAAG                         GGTTGGATTATAAACTTCAAGTAGGGATTGGACACTTTTATCATATATT
genomic: ACTAGAGAAGACATACATACCTCCAGAAGGCTTTCTTACAACACTGAAAGgtaattatgt ... tgatttgcagGGTTGGATTATAAACTTCAAGTAGGGATTGGACACTTTTATCATATATT
EST: gi|192314101|gb|FK011473.1|FK011473
EST:     ACTAGAGAAGACATACATACCTCCAGAAGGCTTTCTTACAACACTGAAAG                         GGTTGGATTATAAACTTCAAGTAGGGATTGGACACTTTTATCATATATTTT
genomic: ACTAGAGAAGACATACATACCTCCAGAAGGCTTTCTTACAACACTGAAAGgtaattatgt ... tgatttgcagGGTTGGATTATAAACTTCAAGTAGGGATTGGACACTTTTATCATATATTCT
EST: gi|16348077|gb|BI973672.1|BI973672
EST:     ACTAGAGAAGACATACATACCTCCAGAAGGCTTTCTTACAACACTGAAAA                         GGTTGGATTAT
genomic: ACTAGAGAAGACATACATACCTCCAGAAGGCTTTCTTACAACACTGAAAGgtaattatgt ... tgatttgcagGGTTGGATTAT
EST: gi|58024852|gb|CX711593.1|CX711593
EST:     ACTAGAGAAGACATACATACCTCCAGAAGGCTTTCTTACAACACTGAAAG                         GGTTGGATTATAAACTTCAAGTAGGGATTGGACACTTTTATCATATATTCT
genomic: ACTAGAGAAGACATACATACCTCCAGAAGGCTTTCTTACAACACTGAAAGgtaattatgt ... tgatttgcagGGTTGGATTATAAACTTCAAGTAGGGATTGGACACTTTTATCATATATTCT
EST: gi|8283595|gb|BE021154.1|BE021154
EST:     ACTAGAGAAGACATACATACCTCCAGAAGGCTTTCTTACAACACTGAAAG                         GGTTGGATTATAAACTTCAAGTAGGGATTGGACACTTTTATCATATATTCT
genomic: ACTAGAGAAGACATACATACCTCCAGAAGGCTTTCTTACAACACTGAAAGgtaattatgt ... tgatttgcagGGTTGGATTATAAACTTCAAGTAGGGATTGGACACTTTTATCATATATTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aacattattttcttagacagtttgtgatgtttggtcatgtgaatttgatttgcagGGTTGGATTATAAACTTCAAGTAGGGATTGGACACTTTTATCATATATTCTACGAGGGATGTTTAGCAAATTTTGAAATTGGAGAGGAAGGAGAAGAAGC
     tattttctta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tcctatcctgaccaccgaatgaccctcaatatttatttgaaaagtaacattattttcttagacagtttgtgatgtttggtcatgtgaatttgatttgcagGGTTGGATTATAAACTTCAAGTAGGGATTGGACACTTTTATCATATATTCTACGAGGGATGTTTAGCAAATTTTGAAATTGGAGAGGAAGGAGAAGAAGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
-cctatcc
- - - - tgaccac
- - - - - - - - - - -accctca
- - - - - - - - - - - - - - - - - - - -aaaagtaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtttgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atgtttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcatgtg