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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACAATAAAGACAAATGTGATTGGCACACTGAACATGCTTGGGCTCGCTAAGCGAGTAGGAGCAAGgttgggatattttcttaaacaataatttcaactgctgccattagttggtcttaattagtttgaattttattggcag

Basic information

species Glycine max
transcript GLYMA15G04500.2
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G04500.2 (Glycine max), 5'ss of exon 7
lower sequence: AT3G46440.1 (Arabidopsis thaliana), 5'ss of exon 5
-----------------------------------ACAATAAAGACAAATGTGATTGGCACACTGAACATGCTTGGGCTCGCTAAGCGAGTAGGAGCAAGgttgg------gatattttcttaaacaataatttcaactgctgccattagttggtcttaattagtttgaattttattgg-cag
                                   ||||| ||||| |||||||||||||||||||||||||| || ||||| ||||| || ||||||||||| |      ||||   ||||    | || || |  ||| ||   || |    | | | | | ||    || ||  || |||
CTTCTCCTATCTTCTACAAGTACAACCCTGTGAAGACAATCAAGACCAATGTGATTGGCACACTGAACATGCTAGGTCTCGCCAAGCGTGTTGGAGCAAGgtttgcaaaatgataccctctttt-tattacttacttctgttgatcttcgcctttgtgactaacttactcttctaccggacag

upper sequence: GLYMA15G04500.2 (Glycine max), 5'ss of exon 7
lower sequence: AT5G59290.2 (Arabidopsis thaliana), 5'ss of exon 5
ACAATAAAGACAAATGTGATTGGCACACTGAACATGCTTGGGCTCGCTAAGCGAGTAGGAGCAAGgtt-gggatattttct------taaacaataatttcaac-tgctgccatta-gttggtcttaattagtttgaattttattggcag---
||||| ||||| ||||||||||| ||||| |||||||| || || || ||||| || |||||||||||  ||| || ||||      ||     ||||  || | | ||  ||  | | | | |||  | | | |   || | || | |    
ACAATCAAGACCAATGTGATTGGTACACTCAACATGCTCGGTCTTGCCAAGCGTGTTGGAGCAAGgttcaggacatcttctgcttcctattttctaatcacatccttctttcaaaatgctcggctttgtaactatttgttcttttcgaaacag

upper sequence: GLYMA15G04500.2 (Glycine max), 5'ss of exon 7
lower sequence: PP1S189_118V6.1 (Physcomitrella patens), 5'ss of exon 6
ACAATAAAGACAAATGTGATTGGCACACTGAACATGCTTGGGCTCGCTAAGCGAGTAGGAGCAAGgttgggatattttcttaaacaataat-ttcaactgctgccattagttggtcttaattagtttgaattttattggcag-----------------------
|| || ||||||||||||||||| || || ||||||||||| |||||||| ||||| || |||||||    |  | ||  || |   |  | || || | ||    | |   ||        || | || ||    |  ||                        
ACCATCAAGACAAATGTGATTGGTACGCTCAACATGCTTGGACTCGCTAAACGAGTTGGTGCAAGgtgcaaaattctttgtatatcttgctctttaatttctcttgtcaccaggaaactggcagctggacttacgatttcatgttatgtatactgcaagtagctc

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|213611728|gb|DB962965.1|DB962965
EST:     GTGATTGGCACACTGAACATGCTTGGGCTCGCTAAGCGAGTAGGAGCAAG                         GATTCTGCTTACATCAACTTCAGAGGTATATGGGGATCCTCTTGTGCATCC
genomic: GTGATTGGCACACTGAACATGCTTGGGCTCGCTAAGCGAGTAGGAGCAAGgttgggatat ... ttattggcagGATTCTGCTTACATCAACTTCAGAGGTATATGGGGATCCTCTTGTGCATCC
EST: gi|8827206|gb|BE210936.1|BE210936
EST:     GTGATTGGCACACTGAACATGCTTGGGCTCGCTAAGCGAGTANGAGCAAG                         GATTCTGCTTACATCAACTTCAGAGGTATATGGGGATCCTCTTGTGCATCC
genomic: GTGATTGGCACACTGAACATGCTTGGGCTCGCTAAGCGAGTAGGAGCAAGgttgggatat ... ttattggcagGATTCTGCTTACATCAACTTCAGAGGTATATGGGGATCCTCTTGTGCATCC
EST: gi|151412093|gb|EV281905.1|EV281905
EST:     GTGATTGGCACACTGAACATGCTTGGGCTCGCTAAGCGAGTAGGAGCAAG                         GATTCTGCTTACATCAACTTCAGAGGTATATGGGGATCCTCTTGTGCATCC
genomic: GTGATTGGCACACTGAACATGCTTGGGCTCGCTAAGCGAGTAGGAGCAAGgttgggatat ... ttattggcagGATTCTGCTTACATCAACTTCAGAGGTATATGGGGATCCTCTTGTGCATCC
EST: gi|192316740|gb|FK006443.1|FK006443
EST:     GTGATTGGCACACTGAACATGCTTGGGCTCGCTAAGCGAGTAGGAGCAAG                         GATTCTGCTTACATCAACTTCAGAGGTATATGGGGATCCTCTTGTGCATCC
genomic: GTGATTGGCACACTGAACATGCTTGGGCTCGCTAAGCGAGTAGGAGCAAGgttgggatat ... ttattggcagGATTCTGCTTACATCAACTTCAGAGGTATATGGGGATCCTCTTGTGCATCC
EST: gi|213591579|gb|DB955787.1|DB955787
EST:     GTGATTGGCACACTGAACATGCTTGGGCTCGCTAAGCGAGTAGGAGCAAG                         GATTCTGCTTACATCAACTTCAGAGGTATATGGGGATCCTCTTGTGCATCC
genomic: GTGATTGGCACACTGAACATGCTTGGGCTCGCTAAGCGAGTAGGAGCAAGgttgggatat ... ttattggcagGATTCTGCTTACATCAACTTCAGAGGTATATGGGGATCCTCTTGTGCATCC
EST: gi|192316741|gb|FK006444.1|FK006444
EST:     GTGATTGGCACACTGAACATGCTTGGGCTCGCTAAGCGAGTAGGAGCAAG                         GATTCTGCTTACATCAACTTCAGAGGTATATGGGGATCCTCTTGTGCATCC
genomic: GTGATTGGCACACTGAACATGCTTGGGCTCGCTAAGCGAGTAGGAGCAAGgttgggatat ... ttattggcagGATTCTGCTTACATCAACTTCAGAGGTATATGGGGATCCTCTTGTGCATCC
EST: gi|16279667|gb|BI943554.1|BI943554
EST:     GTGATTGGCACACTGAACATGCTTGGGCTCGCTAAGCGAGTAGGAGCAAG                         GATTCTGCTTACATCAACTTCAGAGGTATATGGGGATCCTCTTGTGCATCC
genomic: GTGATTGGCACACTGAACATGCTTGGGCTCGCTAAGCGAGTAGGAGCAAGgttgggatat ... ttattggcagGATTCTGCTTACATCAACTTCAGAGGTATATGGGGATCCTCTTGTGCATCC
EST: gi|192317198|gb|FK007909.1|FK007909
EST:     GTGTTTGGCACACTGAACATGCTTGGGCTCGCTAAGCGAGTAGGAGCAAG                         GATTCTGCTTACATCAACTTCAGAGGTATATGGGGATCCTCTTGTGCATCC
genomic: GTGATTGGCACACTGAACATGCTTGGGCTCGCTAAGCGAGTAGGAGCAAGgttgggatat ... ttattggcagGATTCTGCTTACATCAACTTCAGAGGTATATGGGGATCCTCTTGTGCATCC
EST: gi|19453064|gb|BM954474.1|BM954474
EST:     GTGATTGGCACACTGAACATGCTTGGGCTCGCTAAGCGAGTAGGAGCAAG                         GATTCTGCTTACATCAACTTCAGAGGTATATGGGGATCCTCTTGTGCATCC
genomic: GTGATTGGCACACTGAACATGCTTGGGCTCGCTAAGCGAGTAGGAGCAAGgttgggatat ... ttattggcagGATTCTGCTTACATCAACTTCAGAGGTATATGGGGATCCTCTTGTGCATCC
EST: gi|192296657|gb|FG991225.1|FG991225
EST:     GTGATTGGCACACTGAACATGCTTGGGCTCGCTAAGCGAGTAGGAGCAAG                         GATTCTGCTTACATCAACTTCAGAGGTATATGGGGATCCTCTTGTGCATCC
genomic: GTGATTGGCACACTGAACATGCTTGGGCTCGCTAAGCGAGTAGGAGCAAGgttgggatat ... ttattggcagGATTCTGCTTACATCAACTTCAGAGGTATATGGGGATCCTCTTGTGCATCC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACAATAAAGACAAATGTGATTGGCACACTGAACATGCTTGGGCTCGCTAAGCGAGTAGGAGCAAGgttgggatattttcttaaacaataatttcaactgctgccattagttggtcttaattagtttgaattttattggcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG