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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCTACCAAAGCAACTGCAAGGCAATGCTAACTGCTGTTGATGGCGCTGTTGAGCTTGCAGTTGATCGCCCGTATAAAGCCGGGGACCCAATTGTTGTGTGgtatgatacgtacttcatttgattgcatgtaatttggaaaaaaagacatggtttggcaatgactttgtttctttattacgagcttcattataagatttacagttggtcattgtcag

Basic information

species Glycine max
transcript GLYMA19G22520.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G22520.1 (Glycine max), 5'ss of exon 6
lower sequence: AT5G14260.2 (Arabidopsis thaliana), 5'ss of exon 6
CCTACCAAAGCAACTGCAAGGCAATGCTAACTGCTGTTGATGGCGCTGTTGAGCTTGCAGTTGATCGCCCGTATAAAGCCGGGGACCCAATTGTTGTGTGgtatgatacgtacttcatttgattgcatgtaatttggaaaaaaagacatggtttggcaatgactttgtttctttattacgagcttcattataagatttacagttggtcattgtcag
||||      |||||||||||||||||| |||||||||||||| |||||||| || |  || ||| | || ||||| |||||||| || || ||||| ||||  | |  |||   ||  |   | | |  |  | |       |  | || | |     | |   |  || |  ||| |   ||| |||  |||                      
CCTATTGTTCCAACTGCAAGGCAATGCTTACTGCTGTTGATGGTGCTGTTGAACTCGTGGTAGATAGGCCATATAAGGCCGGGGATCCTATAGTTGTCTGgtgcg-tctgtaagccaaattgcttcctacagctagctttttcattc-tgatctatttttca---tacttttgcatttcctcctttatttgaag----------------------

upper sequence: GLYMA19G22520.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv14s0171g00310.t01 (Vitis vinifera), 5'ss of exon 6
CCTACCAAAGCAACTGCAAGGCAATGCTAACTGCTGTTGATGGCGCTGTTGAGCTTGCAGTTGATCGCCCGTATAAAGCCGGGGACCCAATTGTTGTGTGgtatgatacgtacttcatttgattgcatgtaatttggaaaaaaagacatggtttggcaatgactttgtttctttattacgagcttcattataagatttacagttggtcattgtcag
| ||   |||||||||||| || ||| || |||||||||||||| ||||  | || |  |||||||| || |||||||| |||||  | |||||||| ||||||  ||  | ||  || ||       |   |||  ||   |  |||  ||   ||     ||||  |   |  |   |   |||   |||                        
CTTATAGAAGCAACTGCAAAGCGATGTTAGCTGCTGTTGATGGCTCTGTACAACTAGTGGTTGATCGGCCCTATAAAGCTGGGGAATCTATTGTTGTCTGgtatagtattttctatatatg-------gggttttttaactgatcacaatgtcaagctgctcctttact--atcgtcctggtattctacatag-----------------------
















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|15287126|gb|BI471017.1|BI471017
EST:     GAGCTTGCAGTTGATCGCCCGTATAAAGCCGGGGACCCAATTGTTGTGTG                         GTGTGGCCCTCAACCTAACTCAAAGTTGCTTATAAACTATGGTTTTGTTGA
genomic: GAGCTTGCAGTTGATCGCCCGTATAAAGCCGGGGACCCAATTGTTGTGTGgtatgatacg ... tcattgtcagGTGTGGCCCTCAACCTAACTCAAAGTTGCTTATAAACTATGGTTTTGTTGA
EST: gi|8282740|gb|BE020301.1|BE020301
EST:     GAGCTTGCAGTTGATCGCCCGTATAAAGCCGGGGACCCAATTGTTGTGTG                         GTGTGGCCCTCAACCTAACTCAAAGTTGCTTATAAACTATGGTTTTGTTGA
genomic: GAGCTTGCAGTTGATCGCCCGTATAAAGCCGGGGACCCAATTGTTGTGTGgtatgatacg ... tcattgtcagGTGTGGCCCTCAACCTAACTCAAAGTTGCTTATAAACTATGGTTTTGTTGA
EST: gi|8283385|gb|BE020946.1|BE020946
EST:     AGTTGATCGCCCGTATAAAGCCGGGGACCCAATTGTTGTGTG                         GTGTGGCCCTCAACCTAACTCAAAGTTGCTTATAAACTATGGTTTTGTTGA
genomic: AGTTGATCGCCCGTATAAAGCCGGGGACCCAATTGTTGTGTGgtatgatacg ... tcattgtcagGTGTGGCCCTCAACCTAACTCAAAGTTGCTTATAAACTATGGTTTTGTTGA
EST: gi|197661912|gb|FD480321.1|FD480321
EST:     GAGCTTGCAGTTGATCGCCCGTATAAAGCCGGGGACCCAATTGTTGTGTG                         GTGTGGCCCTCAACCTAACTCAAAGTTGCTTATAAACTATGGTTTTGTTGA
genomic: GAGCTTGCAGTTGATCGCCCGTATAAAGCCGGGGACCCAATTGTTGTGTGgtatgatacg ... tcattgtcagGTGTGGCCCTCAACCTAACTCAAAGTTGCTTATAAACTATGGTTTTGTTGA
EST: gi|20815055|gb|BQ299533.1|BQ299533
EST:     GAGCTTGCAGTTGATCGCCCGTATAAAGCCGGGGACCCAATTGTTGTGTG                         GTGTGGCCCTCAACCTAACTCAAAGTTGCTTATAAACTATGGTTTTGTTGA
genomic: GAGCTTGCAGTTGATCGCCCGTATAAAGCCGGGGACCCAATTGTTGTGTGgtatgatacg ... tcattgtcagGTGTGGCCCTCAACCTAACTCAAAGTTGCTTATAAACTATGGTTTTGTTGA
EST: gi|21994328|gb|BQ785856.1|BQ785856
EST:     GAGCTTGCAGTTGATCGCCCGTATAAAGCCGGGGACCCAATTGTTGTGTG                         GTGTGGCCCTCAACCTAACTCAAAGTTGCTTATAAACTATGGTTTTGTTGA
genomic: GAGCTTGCAGTTGATCGCCCGTATAAAGCCGGGGACCCAATTGTTGTGTGgtatgatacg ... tcattgtcagGTGTGGCCCTCAACCTAACTCAAAGTTGCTTATAAACTATGGTTTTGTTGA
EST: gi|19348347|gb|BM892879.1|BM892879
EST:     GAGCTTGCAGTTGATCGCCCGTATAAAGCCGGGGACCCAATTGTTGTGTG                         GTGTGGCCCTCAACCTAACTCAAAGTTGCTTATAAACTATGGTTTTGTTGA
genomic: GAGCTTGCAGTTGATCGCCCGTATAAAGCCGGGGACCCAATTGTTGTGTGgtatgatacg ... tcattgtcagGTGTGGCCCTCAACCTAACTCAAAGTTGCTTATAAACTATGGTTTTGTTGA
EST: gi|26058132|gb|CA801046.1|CA801046
EST:     GAGCTTGCAGTTGATCCCCCGTATAAAGCCGGGGACCCAATTGGTGTGTG                         GTGGTG-CCCTCAACCCAACTCCAAGTTGGTTATAAACTATGGTTTTGTT
genomic: GAGCTTGCAGTTGATCGCCCGTATAAAGCCGGGGACCCAATTGTTGTGTGgtatgatacg ... tcattgtcagGTG-TGGCCCTCAACCTAACTCAAAGTTGCTTATAAACTATGGTTTTGTT
EST: gi|20814963|gb|BQ299441.1|BQ299441
EST:     GAGCTTGCAGTTGATCGCCCGTATAAAGCCGGGGACCCAATTGTTGTGTG                         GTGTGGCCCTCAACCTAACTCAAAGTTGCTTATAAACTATGGTTTTGTTGA
genomic: GAGCTTGCAGTTGATCGCCCGTATAAAGCCGGGGACCCAATTGTTGTGTGgtatgatacg ... tcattgtcagGTGTGGCCCTCAACCTAACTCAAAGTTGCTTATAAACTATGGTTTTGTTGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CCTACCAAAGCAACTGCAAGGCAATGCTAACTGCTGTTGATGGCGCTGTTGAGCTTGCAGTTGATCGCCCGTATAAAGCCGGGGACCCAATTGTTGTGTGgtatgatacgtacttcatttgattgcatgtaatttggaaaaaaagacatggtttggcaatgactttgtttctttattacgagcttcattataagatttacagttggtcattgtcag

- - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT