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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATCGTGGTATAGCGTTGCACAAAATGATTAGGCTTATTACCATGGGCCTTGGTGGTGAAGGGTATTTAAATTTTATGGGGAATGAATTCGGCCATCCTGgtaatcatatttgacttgtgtcatgtcattacttacgtagagattcaataatgatatgaccagttagattttatattatcaagttaagtttagcattgctcattcattgttgctcacttcag

Basic information

species Glycine max
transcript GLYMA19G37750.2
intron # 17
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G37750.2 (Glycine max), 5'ss of exon 17
lower sequence: LOC_Os02g32660.1 (Oryza sativa), 5'ss of exon 17
GATCGTGGTATAGCGTTGCACAAAATGATTAGGCTTATTACCATGGGCCTTGGTGGTGAAGGGTATTTAAATTTTATGGGGAATGAATTCGGCCATCCTGgtaa----tcatatttgacttgtgtcatgtc-attacttacgtagag----------attcaataatgata----tgaccagttag-attttatattatcaagttaagtttagcattgctcattcattgttgctcacttcag
|||||||| ||||| ||||| ||||||||||| ||||| || |||||  | || || ||||| ||| | || |||||||| ||||| ||||| ||||||||| |    | |||     |      |||||   || ||||  |              |||  || |  ||     |   ||  ||| ||||| |   |   | ||   || |       | ||  |   ||  |   | |||
GATCGTGGAATAGCATTGCATAAAATGATTAGACTTATCACAATGGGGTTAGGAGGAGAAGGCTATCTTAACTTTATGGGAAATGAGTTCGGACATCCTGgtgagatttaataacaatcacacaccatgtttgtttcttattttatatcaacttctcatttgatgacaatggttcttgtcacctagtattttctgggaaacaattggcttaaaggccattgatctaccttttatt-ttgcag

upper sequence: GLYMA19G37750.2 (Glycine max), 5'ss of exon 17
lower sequence: GRMZM2G073054_T02 (Zea mays), 5'ss of exon 17
GATCGTGGTATAGCGTTGCACAAAATGATTAGGCTTATTACCATGGGCCTTGGTGGTGAAGGGTATTTAAATTTTATGGGGAATGAATTCGGCCATCCTGgt-aatcatatttgacttgtgtcatgtcattacttacgtagagattcaataatgatatgaccagttagattttatattatcaagttaagtttagcattgctcattcattgttgctcacttcag------------
|||||||| ||||| || || ||||||||||||||| | || |||||  | || |||||||| ||| ||||||| ||||| ||||| || || ||||||||| | || | |     || |  |||||       | | |||  |   | | || || |     ||    ||  ||   ||  ||   | || | || ||        || |  ||   ||||             
GATCGTGGGATAGCATTACATAAAATGATTAGGCTTGTCACAATGGGTTTAGGAGGTGAAGGCTATCTAAATTTCATGGGAAATGAGTTTGGGCATCCTGgttagtcttctcaattttattgcatgttgcataatgcatagttacg-agttataatgtttttggtcc--ttgcatggcatgcagcctaattcatcagtggaggaa-gttatgactagtttcattttacgtggcag

upper sequence: GLYMA19G37750.2 (Glycine max), 5'ss of exon 17
lower sequence: AT5G03650.1 (Arabidopsis thaliana), 5'ss of exon 17
GATCGTGGTATAGCGTTGCACAAAATGATTAGGCTTATTACCATGGGCCTTGGTGGTGAAGGGTATTTAAATTTTATGGGGAATGAATTCGGCCATCCTGgta----atcatatttgacttgtgtcatgtcattacttacgtagagattcaataatgatatgaccagttagattttatattatcaagttaagtttagcattgctcattcattgttgctcacttcag
||| | || ||||| ||||||||||||||||||||||| || |||||  | || |||||||| || |||||||||||||| || |||||||| ||||| ||||    |||   ||   ||||| |||| | | |   |  | | | |||   | |   ||  |    ||  || |  |  |   |  || ||                                  
GATAGAGGAATAGCTTTGCACAAAATGATTAGGCTTATAACTATGGGATTAGGCGGTGAAGGTTACTTAAATTTTATGGGAAACGAATTCGGACATCCAGgtactaaatcgatttaagcttgtttcat-ttactttctgtgcaaaaattt--tgagtgtacaatttcttc-atctactcctgcaatattcag----------------------------------

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|26057268|gb|CA800182.1|CA800182
EST:     TTCGGCCATCCTG                         AGTGGATTGATTTCCCAAGGGGTGATCAACATCTTCCTAATGGCGTAGTAG
genomic: TTCGGCCATCCTGgtaatcatat ... ctcacttcagAGTGGATTGATTTCCCAAGGGGTGATCAACATCTTCCTAATGGCGTAGTAG
EST: gi|13789383|gb|BG651974.1|BG651974
EST:     TGGTGGTGAAGGGTATTTAAATTTTATGGGGAATGAATTCGGCCATCCTG                         AGTGGATTGATTTCCCAAGGGGTGATCAACATCTTCCTAATGGCGTAGTAG
genomic: TGGTGGTGAAGGGTATTTAAATTTTATGGGGAATGAATTCGGCCATCCTGgtaatcatat ... ctcacttcagAGTGGATTGATTTCCCAAGGGGTGATCAACATCTTCCTAATGGCGTAGTAG
EST: gi|209702274|gb|BW677969.1|BW677969
EST:     TGGTGGTGAAGGGTATTTAAATTTTATGGGGAATGAATTCGGCCATCCTG                         AGTGGATTGATTTCCCAAGGGGTGATCAACATCTTCCTAATGGCGTAGTAG
genomic: TGGTGGTGAAGGGTATTTAAATTTTATGGGGAATGAATTCGGCCATCCTGgtaatcatat ... ctcacttcagAGTGGATTGATTTCCCAAGGGGTGATCAACATCTTCCTAATGGCGTAGTAG
EST: gi|7283403|gb|AW596011.1|AW596011
EST:     TGGTGGTGAAGGGTATTTAAATTTTATGGGGAATGAATTCGGCCATCCTG                         AGTGGATTGATTTCCCAAGGGGTGATCAACATCTTCCTAATGGCGTAGTAG
genomic: TGGTGGTGAAGGGTATTTAAATTTTATGGGGAATGAATTCGGCCATCCTGgtaatcatat ... ctcacttcagAGTGGATTGATTTCCCAAGGGGTGATCAACATCTTCCTAATGGCGTAGTAG
EST: gi|20498242|gb|BQ273172.1|BQ273172
EST:     TGGTGGTGAAGGGTATTTAAATTTTATGGGGAATGAATTCGGCCATCCTG                         AGTGGATTGATTTCCCAAGGGGTGATCAACATCTTCCTAATGGCGTAGTAG
genomic: TGGTGGTGAAGGGTATTTAAATTTTATGGGGAATGAATTCGGCCATCCTGgtaatcatat ... ctcacttcagAGTGGATTGATTTCCCAAGGGGTGATCAACATCTTCCTAATGGCGTAGTAG
EST: gi|15662309|gb|BI699680.1|BI699680
EST:     TGGTGGTGAAGGGTATTTAAATTTTATGGGGAATGAATTCGGCCATCCTG                         AGTGGATTGATTTCCCAAGGGGTGAT
genomic: TGGTGGTGAAGGGTATTTAAATTTTATGGGGAATGAATTCGGCCATCCTGgtaatcatat ... ctcacttcagAGTGGATTGATTTCCCAAGGGGTGAT
EST: gi|15285214|gb|BI469105.1|BI469105
EST:     TGGTGGTGAAGGGTATTTAAATTTTATGGGGAATGAATTCGGCCATCCTG                         AGTGGATTGATTTCCCAAGGGGTGATCAACATCTTCCTAATGGCGTAGTAG
genomic: TGGTGGTGAAGGGTATTTAAATTTTATGGGGAATGAATTCGGCCATCCTGgtaatcatat ... ctcacttcagAGTGGATTGATTTCCCAAGGGGTGATCAACATCTTCCTAATGGCGTAGTAG
EST: gi|19268996|gb|BM885252.1|BM885252
EST:     TGGTGGTGAAGGGTATTTAAATTTTATGGGGAATGAATTCGGCCATCCTG                         AGTGGATTGATTTCCCAAGGGGTGATCAACATCTTCCT
genomic: TGGTGGTGAAGGGTATTTAAATTTTATGGGGAATGAATTCGGCCATCCTGgtaatcatat ... ctcacttcagAGTGGATTGATTTCCCAAGGGGTGATCAACATCTTCCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GATCGTGGTATAGCGTTGCACAAAATGATTAGGCTTATTACCATGGGCCTTGGTGGTGAAGGGTATTTAAATTTTATGGGGAATGAATTCGGCCATCCTGgtaatcatatttgacttgtgtcatgtcattacttacgtagagattcaataatgatatgaccagttagattttatattatcaagttaagtttagcattgctcattcattgttgctcacttcag

- - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG