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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gcctgatgcggaattaatattctgtttgatacaacatatttacacgctcatctgttatgtacttggttccagtgttcttattgttctgtttgatgttcagGATGCTGTTTCTCTTGCCCGCACGGAAGAGGAGCCTGAGGCAGCCGCACGAAAGTTAACAGAAGCAGCATTTTCTCGTGGGAGTGCAGATAACATTACAT

Basic information

species Glycine max
transcript GLYMA13G08090.2
intron # 8
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|13479242|gb|BG508585.1|BG508585
EST:     AATTGCTTATTCTTGCAAGTGATGGACTCTGGGATGTAGTACAAAATGAC                         GATGCTGTTTCTCTTGCCCGCACGGAAGAGGAGCCTGAGGCAGCCGCACGA
genomic: AATTGCTTATTCTTGCAAGTGATGGACTCTGGGATGTAGTACAAAATGACgtaagctttg ... tgatgttcagGATGCTGTTTCTCTTGCCCGCACGGAAGAGGAGCCTGAGGCAGCCGCACGA
EST: gi|209700605|gb|BW670421.1|BW670421
EST:     AATTGCTTATTCTTGCAAGTGATGGACTCTGGGATGTAGTACAAAATGAC                         GATGCTGTTTCTCTTGCCCGCACGGAAGAGGAGCCTGAGGCAGCCGCACGA
genomic: AATTGCTTATTCTTGCAAGTGATGGACTCTGGGATGTAGTACAAAATGACgtaagctttg ... tgatgttcagGATGCTGTTTCTCTTGCCCGCACGGAAGAGGAGCCTGAGGCAGCCGCACGA
EST: gi|5508875|gb|AI855433.1|AI855433
EST:     AATTGCTTATTCTTGCAAGTGATGGACTCTGGGATGTAGTACAAAATGAC                         GATGCTGTTTCTCTTGCCCGCACGGAAGAGGAGCCTGAGGCAGCCGCACGA
genomic: AATTGCTTATTCTTGCAAGTGATGGACTCTGGGATGTAGTACAAAATGACgtaagctttg ... tgatgttcagGATGCTGTTTCTCTTGCCCGCACGGAAGAGGAGCCTGAGGCAGCCGCACGA
EST: gi|19346687|gb|BM891567.1|BM891567
EST:     AATTGCTTATTCTTGCAAGTGATGGACTCTGGGATGTAGTACAAAATGAC                         GATGCTGTTTCTCTTGCCCGCACGGAAGAGGAGCCTGAGGCAGCCGCACGA
genomic: AATTGCTTATTCTTGCAAGTGATGGACTCTGGGATGTAGTACAAAATGACgtaagctttg ... tgatgttcagGATGCTGTTTCTCTTGCCCGCACGGAAGAGGAGCCTGAGGCAGCCGCACGA
EST: gi|13481405|gb|BG510748.1|BG510748
EST:     AATTGCTTATTCTTGCAAGTGATGGACTCTGGGATGTAGTACAAAATGAC                         GATGCTGTTTCTCTTGCCCGCACGGAAGAGGAGCCTGAGGCAGCCGCACGA
genomic: AATTGCTTATTCTTGCAAGTGATGGACTCTGGGATGTAGTACAAAATGACgtaagctttg ... tgatgttcagGATGCTGTTTCTCTTGCCCGCACGGAAGAGGAGCCTGAGGCAGCCGCACGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gctcatctgttatgtacttggttccagtgttcttattgttctgtttgatgttcagGATGCTGTTTCTCTTGCCCGCACGGAAGAGGAGCCTGAGGCAGCCGCACGAAAGTTAACAGAAGCAGCATTTTCTCGTGGGAGTGCAGATAACATTACAT
                                          gtttgat  putative branch site (score: 5)
                                      ttctgttt  CT-rich tract
                             ttcttatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gcctgatgcggaattaatattctgtttgatacaacatatttacacgctcatctgttatgtacttggttccagtgttcttattgttctgtttgatgttcagGATGCTGTTTCTCTTGCCCGCACGGAAGAGGAGCCTGAGGCAGCCGCACGAAAGTTAACAGAAGCAGCATTTTCTCGTGGGAGTGCAGATAACATTACAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT