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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGAGGCAGTTACTCCAATAAAGGAGCCCCTCAAATCTAACCTACTCGATGGAAAATGGGAGCTTATATACACTACCTCGCAGTCAATCTTACAAACCAAGgtaaacaattattctggtgataaatcaactaagatatgttagatattatgatgcatctaaatatctaatgtttgcaagcatattgcaggttctttccttc...

Basic information

species Glycine max
transcript GLYMA08G19810.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G19810.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv12s0034g01210.t01 (Vitis vinifera), 5'ss of exon 2
TGAGGCAGTTACTCCAATAAAGGAGCCCCTCAAATCTAACCTACTCGATGGAAAATGGGAGCTTATATACACTACCTCGCAGTCAATCTTACAAACCAAGgtaaacaattattctggtgataaatca-actaagatatgttagatattatgatgcatct-aaatatctaatgtttgcaagcatatt-gcaggttctttccttc
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TGAAGCAGTCAATTCAATAAAGGAGCCACTGAAATCTGATTTATTGAATGGAAAATGGGAGCTTATATACACGACTTCACAATCGATTTTACAAACCCAGgtacagtatggtcctattctttagttatacttacatgggt---atttcatattcgttctcagacatttgacatcttttaagatatttgctaacttagaatctt
















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|9204643|gb|BE330867.1|BE330867
EST:     GAAAATGGGAGCTTATATACACTACCTCGCAGTCAATCTTACAAACCAAG                         AGACCAAAGTTGTTGAGATCAGTTGCAAATTATCAAGCAATCAATGTCGAT
genomic: GAAAATGGGAGCTTATATACACTACCTCGCAGTCAATCTTACAAACCAAGgtaaacaatt ... gcaactacagAGACCAAAGTTGTTGAGATCAGTTGCAAATTATCAAGCAATCAATGTCGAT
EST: gi|7691813|gb|AW759933.1|AW759933
EST:     GAAAATGGGAGCTTATATACACTACCTCGCAGTCAATCTTACAAACCAAG                         AGACCAAAGTTGTTGAGATCAGTTGCAGATTATCAAGCAATCAATGTCGAT
genomic: GAAAATGGGAGCTTATATACACTACCTCGCAGTCAATCTTACAAACCAAGgtaaacaatt ... gcaactacagAGACCAAAGTTGTTGAGATCAGTTGCAAATTATCAAGCAATCAATGTCGAT
EST: gi|14258815|gb|BG881723.1|BG881723
EST:     GAAAATGGGAGCTTATATACACTACCTCGCAGTCAATCTTACAAACCAAG                         AGACCAAAGTTGTTGAGATCAGTTGCAAATTATCAAGCAATCAATGTCGAT
genomic: GAAAATGGGAGCTTATATACACTACCTCGCAGTCAATCTTACAAACCAAGgtaaacaatt ... gcaactacagAGACCAAAGTTGTTGAGATCAGTTGCAAATTATCAAGCAATCAATGTCGAT
EST: gi|10233924|gb|BE802812.1|BE802812
EST:     GAAAATGGGAGCTTATATACACTACCTCGCAGTCAATCTTACAAACCAAG                         AGACCAAAGTTGTTGAGATCAGTTGCAAATTATCAAGCAATCAATGTCGAT
genomic: GAAAATGGGAGCTTATATACACTACCTCGCAGTCAATCTTACAAACCAAGgtaaacaatt ... gcaactacagAGACCAAAGTTGTTGAGATCAGTTGCAAATTATCAAGCAATCAATGTCGAT
EST: gi|20449275|gb|BQ253399.1|BQ253399
EST:     GAAAATGGGAGCTTATATACACTACCTCGCAGTCAATCTTACAAACCAAG                         AGACCAAAGTTGTTGAGATCAGTTGCAAATTATCAAGCAATCAATGTCGAT
genomic: GAAAATGGGAGCTTATATACACTACCTCGCAGTCAATCTTACAAACCAAGgtaaacaatt ... gcaactacagAGACCAAAGTTGTTGAGATCAGTTGCAAATTATCAAGCAATCAATGTCGAT
EST: gi|192298088|gb|FG991368.1|FG991368
EST:     GAAAATGGGAGCTTATATACACTACCTCGCAGTCAATCTTACAAACCAAG                         AGACCAAAGTTGTTGAGATCAGTTGCAAATTATCAAGCAATCAATGTCGAT
genomic: GAAAATGGGAGCTTATATACACTACCTCGCAGTCAATCTTACAAACCAAGgtaaacaatt ... gcaactacagAGACCAAAGTTGTTGAGATCAGTTGCAAATTATCAAGCAATCAATGTCGAT
EST: gi|21889067|gb|BQ742280.1|BQ742280
EST:     GAAAATGGGAGCTTATATACACTACCTCGCAGTCAATCTTACAAACCAAG                         AGACCAAAGTTGTTGAGATCAGTTGCAAATTATCAAGCAATCAATGTCGAT
genomic: GAAAATGGGAGCTTATATACACTACCTCGCAGTCAATCTTACAAACCAAGgtaaacaatt ... gcaactacagAGACCAAAGTTGTTGAGATCAGTTGCAAATTATCAAGCAATCAATGTCGAT
EST: gi|17023832|gb|BM094866.1|BM094866
EST:     GAAAATGGGAGCTTATATACACTACCTCGCAGTCAATCTTACAAACCAAG                         AGACCAAAGTTGTTGAGATCAGTTGCAAATTATCAAGCAATCAATGTCGAT
genomic: GAAAATGGGAGCTTATATACACTACCTCGCAGTCAATCTTACAAACCAAGgtaaacaatt ... gcaactacagAGACCAAAGTTGTTGAGATCAGTTGCAAATTATCAAGCAATCAATGTCGAT
EST: gi|16348015|gb|BI973610.1|BI973610
EST:     GAAAATGGGAGCTTATATACACTACCTCGCAGTCAATCTTACAAACCAAG                         AGACCAAAGTTGTTGAGATCAGTTGCAAATTATCAAGCAATCAATGTCGAT
genomic: GAAAATGGGAGCTTATATACACTACCTCGCAGTCAATCTTACAAACCAAGgtaaacaatt ... gcaactacagAGACCAAAGTTGTTGAGATCAGTTGCAAATTATCAAGCAATCAATGTCGAT
EST: gi|7926228|gb|AW832254.1|AW832254
EST:     GAAAATGGGAGCTTATATACACTACCTCGCAGTCAATCTTACAAACCAAG                         AGACCAAAGTTGTTGAGATCAGTTGCAAATTATCAAGCAATCAATGTCGAT
genomic: GAAAATGGGAGCTTATATACACTACCTCGCAGTCAATCTTACAAACCAAGgtaaacaatt ... gcaactacagAGACCAAAGTTGTTGAGATCAGTTGCAAATTATCAAGCAATCAATGTCGAT
EST: gi|14009118|gb|BG725722.1|BG725722
EST:     GAAAATGGGAGCTTATATACACTACCTCGCAGTCAATCTTACAAACCAAG                         AGACCAAAGTTGTTGAGATCAGTTGCAAATTATCAAGCAATCAATGTCGAT
genomic: GAAAATGGGAGCTTATATACACTACCTCGCAGTCAATCTTACAAACCAAGgtaaacaatt ... gcaactacagAGACCAAAGTTGTTGAGATCAGTTGCAAATTATCAAGCAATCAATGTCGAT
EST: gi|298174011|gb|HO017347.1|HO017347
EST:     GAAAATGGGAGCTTATATACACTACCTCGCAGTCAATCTTACAAACCAAG                         AGACCAAAGTTGTTGAGATCAGTTGCAAATTATCAAGCAATCAATGTCGAT
genomic: GAAAATGGGAGCTTATATACACTACCTCGCAGTCAATCTTACAAACCAAGgtaaacaatt ... gcaactacagAGACCAAAGTTGTTGAGATCAGTTGCAAATTATCAAGCAATCAATGTCGAT
EST: gi|151393651|gb|EV263526.1|EV263526
EST:     GAAAATGGGAGCTTATATACACTACCTCGCAGTCAATCTTACAAACCAAG                         AGACCAAAGTTGTTGAGATCAGTTGCAAATTATCAAGCAATCAATGTCGAT
genomic: GAAAATGGGAGCTTATATACACTACCTCGCAGTCAATCTTACAAACCAAGgtaaacaatt ... gcaactacagAGACCAAAGTTGTTGAGATCAGTTGCAAATTATCAAGCAATCAATGTCGAT
EST: gi|26057243|gb|CA800157.1|CA800157
EST:     CACTACCTCGCAGTCAATCTTACAAACCAAG                         AGACCAAAGTTGTTGAGATCAGTTGCAAATTATCAAGCAATCAATGTCGAT
genomic: CACTACCTCGCAGTCAATCTTACAAACCAAGgtaaacaatt ... gcaactacagAGACCAAAGTTGTTGAGATCAGTTGCAAATTATCAAGCAATCAATGTCGAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGAGGCAGTTACTCCAATAAAGGAGCCCCTCAAATCTAACCTACTCGATGGAAAATGGGAGCTTATATACACTACCTCGCAGTCAATCTTACAAACCAAGgtaaacaattattctggtgataaatcaactaagatatgttagatattatgatgcatctaaatatctaatgtttgcaagcatattgcaggttctttccttc

- - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT