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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATAGACAAAGTCCAACACAAGTTATCACAGAAATATGTGGGTTTGTGACCATTCTATCAGGAACTTTTCTTCTTCACAAAACTAAGGATATGGCTGATGgtatgatctagtgatcctacagtagcaatttcatgtaactttagattacactctcgtgctcacatgcactttcttcagacatgactttgttaatattttcttcatgtgcag

Basic information

species Glycine max
transcript GLYMA12G28940.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G28940.1 (Glycine max), 5'ss of exon 8
lower sequence: Vv12s0035g00720.t01 (Vitis vinifera), 5'ss of exon 8
GATAGACAAAGTCCAACACAAGTTATCACAGAAATATGTGGGTTTGTGACCATTCTATCAGGAACTTTTCTTCTTCACAAAACTAAGGATATGGCTGATGgtatgatctagtgatcctacagtagcaatttcatgtaactttagattacactctcgtgctcacatgcactttcttcagacatgactttgttaatattttcttcatgtgcag-----------------------------------------------------------------------------------------
|||||||| | |||||||||  || |||| ||||| ||||| ||||| |||||||| || ||||||||||||||||||||||| |||||  || ||||||||||| | |  |   | ||  ||     ||| ||     |   | |   |||      |||||  | |  || ||    ||||  |    | ||| ||| ||  |||| |                                                                                          
GATAGACAGAATCCAACACAGATTGTCACTGAAATGTGTGGATTTGTAACCATTCTTTCTGGAACTTTTCTTCTTCACAAAACAAAGGACTTGTCTGATGgtatgctttc-tacacttatggtgatctttttatt--gttgatgctgttactaggccactcaccaggaacttgtt-gctcatggatc---ttatactttatttttgtgaaaaatgaaaactaaaggaagagaaaatcttcggggtttactatccatttgttatttaatttttggctttctaaaatgtggatcatttacag
















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|207830752|gb|GD801534.1|GD801534
EST:     AGGAACTTTTCTTCTTCACAAAACTAAGGATATGGCTGATG                         GTTTACAACCATCTTTATCTGTTAGACTTCCTAAGCATTCAGAAGAGGATG
genomic: AGGAACTTTTCTTCTTCACAAAACTAAGGATATGGCTGATGgtatgatcta ... tcatgtgcagGTTTACAACCATCTTTATCTGTTAGACTTCCTAAGCATTCAGAAGAGGATG
EST: gi|208130657|gb|GD932896.1|GD932896
EST:     CATTCTATCAGGAACGTTTCTTCTTCACAAAACTAAGGATATGGCTGATG                         GTTTACAACCATCTTTATCTGT
genomic: CATTCTATCAGGAACTTTTCTTCTTCACAAAACTAAGGATATGGCTGATGgtatgatcta ... tcatgtgcagGTTTACAACCATCTTTATCTGT
EST: gi|192320940|gb|FK013134.1|FK013134
EST:     AAGGATATGGCTGATG                         GTTTACAACCATCTTTATCTGTTAGACTTCCTAAGCATTCAGAAGAGGGTG
genomic: AAGGATATGGCTGATGgtatgatcta ... tcatgtgcagGTTTACAACCATCTTTATCTGTTAGACTTCCTAAGCATTCAGAAGAGGATG
EST: gi|193686146|gb|FK625497.1|FK625497
EST:     TATGGCTGATG                         GTTTACAACCATCTTTATCTGTTAGACTTCCTAAGCATTCAGAAGAGGATG
genomic: TATGGCTGATGgtatgatcta ... tcatgtgcagGTTTACAACCATCTTTATCTGTTAGACTTCCTAAGCATTCAGAAGAGGATG
EST: gi|209705250|gb|BW673790.1|BW673790
EST:     ACAAAACTAAGGATATGGCTGATG                         GTTTACAACCATCTTTATCTGTTAGACTTCCTAAGCATTCAGAAGAGGATG
genomic: ACAAAACTAAGGATATGGCTGATGgtatgatcta ... tcatgtgcagGTTTACAACCATCTTTATCTGTTAGACTTCCTAAGCATTCAGAAGAGGATG
EST: gi|192308273|gb|FK001315.1|FK001315
EST:     CATTCTATCAGGAACTTTTCTTCTTCACAAAACTAAGGATATGGCTGATG                         GTTTACAACCATCTTTATCTGTTAGACTTCCTAAGCATTCAGAAGAGGATG
genomic: CATTCTATCAGGAACTTTTCTTCTTCACAAAACTAAGGATATGGCTGATGgtatgatcta ... tcatgtgcagGTTTACAACCATCTTTATCTGTTAGACTTCCTAAGCATTCAGAAGAGGATG
EST: gi|208110822|gb|GD910920.1|GD910920
EST:     CATTCTATCAGGAACTTTTCTTCTTCACAAAACTAAGGATATGGCTGATG                         GTTTACAACCATCTTTATCTGTTAGACTTCCTAAGCATTCAGAAGAGGATG
genomic: CATTCTATCAGGAACTTTTCTTCTTCACAAAACTAAGGATATGGCTGATGgtatgatcta ... tcatgtgcagGTTTACAACCATCTTTATCTGTTAGACTTCCTAAGCATTCAGAAGAGGATG
EST: gi|192333049|gb|FK024698.1|FK024698
EST:     CATTCTATCAGGAACTTTTCTTCTTCACAAAACTAAGGATATGGCTGATG                         GTTTACAACCATCTTTATCTGTTAGACTTCCTAAGCATTCAGAAGAGGATG
genomic: CATTCTATCAGGAACTTTTCTTCTTCACAAAACTAAGGATATGGCTGATGgtatgatcta ... tcatgtgcagGTTTACAACCATCTTTATCTGTTAGACTTCCTAAGCATTCAGAAGAGGATG
EST: gi|192320941|gb|FK013135.1|FK013135
EST:     AAGGATATGGCTGATG                         GTTTACAACCATCTTTATCTGTTAGACTTCCTAAGCATTCAGAAGAGGGTG
genomic: AAGGATATGGCTGATGgtatgatcta ... tcatgtgcagGTTTACAACCATCTTTATCTGTTAGACTTCCTAAGCATTCAGAAGAGGATG
EST: gi|27426858|gb|CA938378.1|CA938378
EST:     CTATCAGGAACTTTTCTTCTTCACAAAACTAAGGATATGGCTGATG                         GTTTACAACCATCTTTATCTGTTAGACTTCCTAAGCATTCAGAAGAGGATG
genomic: CTATCAGGAACTTTTCTTCTTCACAAAACTAAGGATATGGCTGATGgtatgatcta ... tcatgtgcagGTTTACAACCATCTTTATCTGTTAGACTTCCTAAGCATTCAGAAGAGGATG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GATAGACAAAGTCCAACACAAGTTATCACAGAAATATGTGGGTTTGTGACCATTCTATCAGGAACTTTTCTTCTTCACAAAACTAAGGATATGGCTGATGgtatgatctagtgatcctacagtagcaatttcatgtaactttagattacactctcgtgctcacatgcactttcttcagacatgactttgttaatattttcttcatgtgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT