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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tggtggcatcggttcaatgttcctggttgttttgatttgaattattgttattatctgcgaaggcctttgttgtcagactaattcaacatgtctgttccagGGAATATCTCAAGTCATGATTTCGAGAAAACG

Basic information

species Glycine max
transcript GLYMA13G41110.2
intron # 2
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:     CGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGG                         GGAATATCTCAAGTCATGATTTCGAGAAAACG
genomic: CGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGGgtaagcaagc ... tctgttccagGGAATATCTCAAGTCATGATTTCGAGAAAACG
EST: gi|193340204|gb|FK307825.1|FK307825
EST:     CGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGG                         GGAATATCTCAAGTCATGATTTCGAGAAA-CGTTGAAGAAG
genomic: CGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGGgtaagcaagc ... tctgttccagGGAATATCTCAAGTCATGATTTCGAGAAAACGTTGAAGAAG
EST: gi|208084810|gb|GD881064.1|GD881064
EST:     CGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGG                         GGAATATCTCAAGTCATGATTTCGAGAAAAACG
genomic: CGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGGgtaagcaagc ... tctgttccagGGAATATCTCAAGTCATGATTTCGAGAAAA-CG
EST: gi|208149896|gb|GD944218.1|GD944218
EST:     CGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGG                         GGAATATCTCAAGTCATGATTTCGAAGAAAACG
genomic: CGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGGgtaagcaagc ... tctgttccagGGAATATCTCAAGTCATGATTTCGA-GAAAACG
EST: gi|208257813|gb|GE055352.1|GE055352
EST:     CGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGG                         GGAATACCTCAAGTCATGATTTCGAGAAAACG
genomic: CGCAGCCACGCGATCAGCTGCTGAAGATACTTATCATATTATCCAAAAGGgtaagcaagc ... tctgttccagGGAATATCTCAAGTCATGATTTCGAGAAAACG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttattatctgcgaaggcctttgttgtcagactaattcaacatgtctgttccagGGAATATCTCAAGTCATGATTTCGAGAAAACG
                              gactaat  putative branch site (score: 2)
                                             tctgttcc  putative PPT
                                 taattcaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tggtggcatcggttcaatgttcctggttgttttgatttgaattattgttattatctgcgaaggcctttgttgtcagactaattcaacatgtctgttccagGGAATATCTCAAGTCATGATTTCGAGAAAACG

tggtggc
- - - - - - - caatgtt
- - - - - - - - - - - - - -tgttttg
- - - - - - - - - - - - - - - - - - - - - - - - - -tatctgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caacatg