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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgatcttctgatgcatttctagtgccaccttcccaacatgaactacgttaatagtatattttctgaaatttcagAGGTTGCAAGACGACAATAGAGTCATGATAACTGATGGAGTGGTGCATATGATATCATAAAAT

Basic information

species Glycine max
transcript GLYMA08G08920.1
intron # 15
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|193715157|gb|FK650238.1|FK650238
EST:     GGCAAGATCCACCACCTTACAGTGCTGCAGATATACTACTCCTATTAGAG                         AGGTTGCAAGACGACAATAGAGTCATGAATAACTGATGGAGTGGTGCATAT
genomic: GGCAAGATCCACCACCTTACAGTGCTGCAGATATACTACTCCTATTAGAGgtatgatctt ... gaaatttcagAGGTTGCAAGACGACAATAGAGTCATGA-TAACTGATGGAGTGGTGCATAT
EST: gi|208296772|gb|GE091356.1|GE091356
EST:     GGCAAGATCCACCACCTTACAGTGCTGCAGATATACTACTCCTATTAGAG                         AGGTTGCAAGACGACAATAGAGTCATGATAACTGATGGAGTGGTGCATATG
genomic: GGCAAGATCCACCACCTTACAGTGCTGCAGATATACTACTCCTATTAGAGgtatgatctt ... gaaatttcagAGGTTGCAAGACGACAATAGAGTCATGATAACTGATGGAGTGGTGCATATG
EST: gi|16341642|gb|BI967237.1|BI967237
EST:     GGCAAGATCCACCACCTTACAGTGCTGCAGATATACTACTCCTATTAGAG                         AGGTTGCAAGACGACAATAGAGTCATGATAACTGATGGAGTGGTGCATATG
genomic: GGCAAGATCCACCACCTTACAGTGCTGCAGATATACTACTCCTATTAGAGgtatgatctt ... gaaatttcagAGGTTGCAAGACGACAATAGAGTCATGATAACTGATGGAGTGGTGCATATG
EST: gi|208209884|gb|GE006409.1|GE006409
EST:     GGCAAGATCCACCACCTTACAGTGCTGCAGATATACTACTCCTATTAGAG                         AGGTTGCAAGACGACAATAGAGTCATGATAACTGATGGAGTGGTGACAATA
genomic: GGCAAGATCCACCACCTTACAGTGCTGCAGATATACTACTCCTATTAGAGgtatgatctt ... gaaatttcagAGGTTGCAAGACGACAATAGAGTCATGATAACTGATGGAGTGGTG-CA-TA
EST: gi|208220916|gb|GE018052.1|GE018052
EST:     GGCAAGATCCACCACCTTACAGTGCTGCAGATATACTACTCCTATTAGAG                         AGGTTGCAAGACGAACAATAGAGTCATGATAACTGATGGAGTGGTGCATAT
genomic: GGCAAGATCCACCACCTTACAGTGCTGCAGATATACTACTCCTATTAGAGgtatgatctt ... gaaatttcagAGGTTGCAAGACGA-CAATAGAGTCATGATAACTGATGGAGTGGTGCATAT
EST: gi|193441761|gb|FK407726.1|FK407726
EST:     GGCAAGATCCACCACCTTACAGTGCTGCAGATATACTACTCCTATTAGAG                         AGGTTGCAAGACGACAATAGAGTCA
genomic: GGCAAGATCCACCACCTTACAGTGCTGCAGATATACTACTCCTATTAGAGgtatgatctt ... gaaatttcagAGGTTGCAAGACGACAATAGAGTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagtgccaccttcccaacatgaactacgttaatagtatattttctgaaatttcagAGGTTGCAAGACGACAATAGAGTCATGATAACTGATGGAGTGGTGCATATGATATCATAAAAT
                          cgttaat  putative branch site (score: 4)
                                       ttttctg  putative PPT
                            ttaatagtatattttc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgatcttctgatgcatttctagtgccaccttcccaacatgaactacgttaatagtatattttctgaaatttcagAGGTTGCAAGACGACAATAGAGTCATGATAACTGATGGAGTGGTGCATATGATATCATAAAAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA