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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cttctatatctgatatgttgaagatgccttatttattttcatgagtgtgttttcaacaattacccatgtttatttcatttaatttttggcggtaattaggTATAGAGACGCCATCAACAGCACCAGCCCGTGTAAACTCTACCTCAGATTTGGCTGAACACCCTGTGCCTACGTCTCCTACATCAACGGATGGCTGGGGG

Basic information

species Glycine max
transcript GLYMA18G47590.1
intron # 19
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|9440080|gb|BE440591.1|BE440591
EST:     ATTACTTCAACATCTTCTAATGGCACCGCAGG                         TATAGAGACGCCATCAACAGCACCAGCCCGTGTAAACTCTACCTCAGATTT
genomic: ATTACTTCAACATCTTCTAATGGCACCGCAGGtatgcctaat ... ggtaattaggTATAGAGACGCCATCAACAGCACCAGCCCGTGTAAACTCTACCTCAGATTT
EST: gi|51341246|gb|CO982563.1|CO982563
EST:     TGCAAGTTCAACTGCAATTACTTCAACATCTTCTAATGGCACCGCAGG                         TATAGAGACGCCATCAACAGCACCAGCCCGTGTAAACTCTACCTCAGATTT
genomic: TGCAAGTTCAACTGCAATTACTTCAACATCTTCTAATGGCACCGCAGGtatgcctaat ... ggtaattaggTATAGAGACGCCATCAACAGCACCAGCCCGTGTAAACTCTACCTCAGATTT
EST: gi|254342249|gb|GR853386.1|GR853386
EST:     ATGGCACCGCAGG                         TATAGAGACGCCATCAACAGCACCAGCCCGTGTAAACTCTACCTCAGATTT
genomic: ATGGCACCGCAGGtatgcctaat ... ggtaattaggTATAGAGACGCCATCAACAGCACCAGCCCGTGTAAACTCTACCTCAGATTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtgttttcaacaattacccatgtttatttcatttaatttttggcggtaattaggTATAGAGACGCCATCAACAGCACCAGCCCGTGTAAACTCTACCTCAGATTTGGCTGAACACCCTGTGCCTACGTCTCCTACATCAACGGATGGCTGGGGG
                               atttaat  putative branch site (score: 4)
                    atgtttatttcattta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cttctatatctgatatgttgaagatgccttatttattttcatgagtgtgttttcaacaattacccatgtttatttcatttaatttttggcggtaattaggTATAGAGACGCCATCAACAGCACCAGCCCGTGTAAACTCTACCTCAGATTTGGCTGAACACCCTGTGCCTACGTCTCCTACATCAACGGATGGCTGGGGG

- - - - - tgatatg
- - - - - - - - - - - gatgcct
- - - - - - - - - - - - - - - - - - - - - gagtgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acccatg