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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttttttttcttcttctttctttcttaattaattgccctttttatttgttttttcatttccaatttcagGTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGG

Basic information

species Glycine max
transcript GLYMA13G41110.2
intron # 1
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|207836538|gb|GD805751.1|GD805751
EST:     GCAATCCATTTCTCAATCTCACTGTTGATGGTTTCCTTAAGATCGGAGCT                         GTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAG
genomic: GCAATCCATTTCTCAATCTCACTGTTGATGGTTTCCTTAAGATCGGAGCTgtaagttttt ... ccaatttcagGTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAG
EST: gi|193340204|gb|FK307825.1|FK307825
EST:     GCAATCCATTTCTCAATCTCACTGTTGATGGTTTCCTTAAGATCGGAGCT                         GTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAG
genomic: GCAATCCATTTCTCAATCTCACTGTTGATGGTTTCCTTAAGATCGGAGCTgtaagttttt ... ccaatttcagGTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAG
EST: gi|208084810|gb|GD881064.1|GD881064
EST:     GCAATCCATTTCTCAATCTCACTGTTGATGGTTTCCTTAAGATCGGAGCT                         GTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAG
genomic: GCAATCCATTTCTCAATCTCACTGTTGATGGTTTCCTTAAGATCGGAGCTgtaagttttt ... ccaatttcagGTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAG
EST: gi|208149896|gb|GD944218.1|GD944218
EST:     GCAATCCATTTCTCAATCTCACTGTTGATGGTTTCCTTAAGATCGGAGCT                         GTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAG
genomic: GCAATCCATTTCTCAATCTCACTGTTGATGGTTTCCTTAAGATCGGAGCTgtaagttttt ... ccaatttcagGTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAG
EST: gi|208257813|gb|GE055352.1|GE055352
EST:     GCAATCCATTTCTCAATCTCACTGTTGATGGTTTCCTTAAGATCGGAGCT                         GTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAG
genomic: GCAATCCATTTCTCAATCTCACTGTTGATGGTTTCCTTAAGATCGGAGCTgtaagttttt ... ccaatttcagGTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctttctttcttaattaattgccctttttatttgttttttcatttccaatttcagGTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGG
            aattaat  putative branch site (score: 3)
                  ttgccctttttatttg  CT-rich tract
                        tttttatttgtttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagttttttttcttcttctttctttcttaattaattgccctttttatttgttttttcatttccaatttcagGTCGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA