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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcatcaacttgtggaatatgttactgatccttatggtagatgatgtggtcaactaaattgcgtcctattttttttattatttcagGCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATTTTCAAAGCCATTCCAGCATAGAAGGGTAGAAATTATACAAGAAGAGAGA

Basic information

species Glycine max
transcript GLYMA20G16100.1
intron # 4
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|13181387|gb|BG352657.1|BG352657
EST:     AAGTTCCGTCTTGAACTGAGTGTGCCTGAG                         GCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
genomic: AAGTTCCGTCTTGAACTGAGTGTGCCTGAGgtatgcatca ... attatttcagGCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
EST: gi|192309118|gb|FG999065.1|FG999065
EST:     TTCACCATTATGATGGCCCTAAGTTCCGTCTTGAACTGAGTGTGCCTGAG                         GCGCTGTTTTTTCTGGATATTTTTGCAAACCAGAACAGTTTGGATGACATT
genomic: TTCACCATTATGATGGCCCTAAGTTCCGTCTTGAACTGAGTGTGCCTGAGgtatgcatca ... attatttcagGCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
EST: gi|209722281|gb|BW675075.1|BW675075
EST:     TTCACCATTATGATGGCCCTAAGTTCCGTCTTGAACTGAGTGTGCCTGAG                         GCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
genomic: TTCACCATTATGATGGCCCTAAGTTCCGTCTTGAACTGAGTGTGCCTGAGgtatgcatca ... attatttcagGCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
EST: gi|14205657|gb|BG839335.1|BG839335
EST:     TTCACCATTATGATGGCCCTAAGTTCCGTCTTGAACTGAGTGTGCCTGAG                         GCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
genomic: TTCACCATTATGATGGCCCTAAGTTCCGTCTTGAACTGAGTGTGCCTGAGgtatgcatca ... attatttcagGCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
EST: gi|208302833|gb|GE100038.1|GE100038
EST:     TTCACCATTATGATGGCCCTAAGTTCCGTCTTGAACTGAGTGTGCCTGAG                         GCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
genomic: TTCACCATTATGATGGCCCTAAGTTCCGTCTTGAACTGAGTGTGCCTGAGgtatgcatca ... attatttcagGCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
EST: gi|192313456|gb|FK005522.1|FK005522
EST:     TTCACCATTATGATGGCCCTAAGTTCCGTCTTGAACTGAGTGTGCCTGAG                         GCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
genomic: TTCACCATTATGATGGCCCTAAGTTCCGTCTTGAACTGAGTGTGCCTGAGgtatgcatca ... attatttcagGCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
EST: gi|58019242|gb|CX705984.1|CX705984
EST:     TTCACCATTATGATGGCCCTAAGTTCCGTCTTGAACTGAGTGTGCCTGAG                         GCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
genomic: TTCACCATTATGATGGCCCTAAGTTCCGTCTTGAACTGAGTGTGCCTGAGgtatgcatca ... attatttcagGCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
EST: gi|209721490|gb|BW672241.1|BW672241
EST:     TTCACCATTATGATGGCCCTAAGTTCCGTCTTGAACTGAGTGTGCCTGAG                         GCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
genomic: TTCACCATTATGATGGCCCTAAGTTCCGTCTTGAACTGAGTGTGCCTGAGgtatgcatca ... attatttcagGCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
EST: gi|58018944|gb|CX705686.1|CX705686
EST:     TTCACCATTATGATGGCCCTAAGTTCCGTCTTGAACTGAGTGTGCCTGAG                         GCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
genomic: TTCACCATTATGATGGCCCTAAGTTCCGTCTTGAACTGAGTGTGCCTGAGgtatgcatca ... attatttcagGCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
EST: gi|11274562|gb|BF324905.1|BF324905
EST:     TTCACCATTATGATGGCCCTAAGTTCCGTCTTGAACTGAGTGTTCCTGAG                         GCACTGTCTCTTCTGGATATT
genomic: TTCACCATTATGATGGCCCTAAGTTCCGTCTTGAACTGAGTGTGCCTGAGgtatgcatca ... attatttcagGCACTGTCTCTTCTGGATATT
EST: gi|21602164|gb|BQ612495.1|BQ612495
EST:     TTCACCATTATGATGGCCCTAAGTTCCGTCTTGAACTGAGTGTGCCTGAG                         GCACTGTCTCTTCTGGATATTTTTGCAAAC
genomic: TTCACCATTATGATGGCCCTAAGTTCCGTCTTGAACTGAGTGTGCCTGAGgtatgcatca ... attatttcagGCACTGTCTCTTCTGGATATTTTTGCAAAC
EST: gi|192313455|gb|FK005521.1|FK005521
EST:     TTCACCATTATGATGGCCCTAAGTTCCGTCTTGAACTGAGTGTGCCTGAG                         GCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
genomic: TTCACCATTATGATGGCCCTAAGTTCCGTCTTGAACTGAGTGTGCCTGAGgtatgcatca ... attatttcagGCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
EST: gi|23735151|gb|BU765842.1|BU765842
EST:     TTCACCATTATGATGGCCCTAAGTTCCGTCTTGAACTGAGTGTGCCTGAG                         GCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
genomic: TTCACCATTATGATGGCCCTAAGTTCCGTCTTGAACTGAGTGTGCCTGAGgtatgcatca ... attatttcagGCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
EST: gi|254346210|gb|GR859823.1|GR859823
EST:     TTCACCATTATGATGGCCCTAAGTTCCGTCTTGAACTGAGTGTGCCTGAG                         GCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
genomic: TTCACCATTATGATGGCCCTAAGTTCCGTCTTGAACTGAGTGTGCCTGAGgtatgcatca ... attatttcagGCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatggtagatgatgtggtcaactaaattgcgtcctattttttttattatttcagGCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATTTTCAAAGCCATTCCAGCATAGAAGGGTAGAAATTATACAAGAAGAGAGA
                    aactaaa  putative branch site (score: 2)
                                tcctattttttttatt  putative PPT
                                tcctattttttttatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgcatcaacttgtggaatatgttactgatccttatggtagatgatgtggtcaactaaattgcgtcctattttttttattatttcagGCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATTTTCAAAGCCATTCCAGCATAGAAGGGTAGAAATTATACAAGAAGAGAGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA