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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGGATTTCAGATCTCTGCAAGAATGCTGGCTCTTGGCTTGTTGTTGATAATACATACGAgtaagacttttaacttgctatgctaatagaaaaaatatattattctttaattatgaaaagaaacaaaaacaaattttttagtctgtttcaattatattgt...

Basic information

species Glycine max
transcript GLYMA13G43830.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G43830.1 (Glycine max), 5'ss of exon 7
lower sequence: GRMZM2G107639_T01 (Zea mays), 5'ss of exon 7
AGGATTTCAGATCTCTGCAAGAATGCTGGCTCTTGGCTTGTTGTTGATAATACATACGAgtaagac----ttttaacttgcta---tgctaatagaaaaaatatattattcttt---aattatgaaaagaaacaaaaacaaattttttagtctgtttcaattatattgt
|||||||||||||| ||||| ||||||||  | |||||||| ||||| ||||| || ||||||| |     | ||| ||||||   |   |  || || || ||| |||| | |   |  | | | |   |  | |  ||    || | ||     |||          
AGGATTTCAGATCTGTGCAAAAATGCTGGTGCATGGCTTGTGGTTGACAATACCTATGAgtaagtcaacactgtaaattgctaacttttcacaagcaacaacataatattttgttgtatctgttagagagagaagagccatgaattatggttgtagtca----------

upper sequence: GLYMA13G43830.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv09s0002g05250.t01 (Vitis vinifera), 5'ss of exon 7
AGGATTTCAGATCTCTGCAAGAATGCTGGCTCTTGGCTTGTTGTTGATAATACATACGAgtaagacttttaacttgctatgctaatagaaaaaatatattattctttaattatgaaaagaaaca--aaaacaaattttttagtctgtttcaattatattgt-----
||| || ||||||||||||  |||||||| |||||||||||||| ||||||||||| |||||||  | ||  |||  | ||    |        |   |||| | ||   ||||| || ||     | |  ||  | |||| | |     |||| |  ||      
AGGTTTGCAGATCTCTGCAGAAATGCTGGATCTTGGCTTGTTGTAGATAATACATATGAgtaagtatattgtcttattttgactttc-------tcctttatgcatttgatatgacaataattctcatattaatctctttactgtaaagaaattctcatgatcatt
















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|51335541|gb|CO979407.1|CO979407
EST:     GGCTTGTTGTTGATAATACATACGA                         GTATTTTATGTATGATGGCCTGAAACACTCTTGTGTTGAGGGAAATCATAT
genomic: GGCTTGTTGTTGATAATACATACGAgtaagacttt ... ttttgtgcagGTATTTTATGTATGATGGCCTGAAACACTCTTGTGTTGAGGGAAATCATAT
EST: gi|20812966|gb|BQ297444.1|BQ297444
EST:     GATCTCTGCAAGAATGTTGGCTCTTGGCTTGTTGTTGATAATACATACGA                         GTATTTTATGTATGATGGCCTGAAACACTCTTGTGTTGAGGGAAATCATAT
genomic: GATCTCTGCAAGAATGCTGGCTCTTGGCTTGTTGTTGATAATACATACGAgtaagacttt ... ttttgtgcagGTATTTTATGTATGATGGCCTGAAACACTCTTGTGTTGAGGGAAATCATAT
EST: gi|16347479|gb|BI973074.1|BI973074
EST:     GATCTCTGCAAGAATGCTGGCTCTTGGCTTGTTGTTGATAATACATACGA                         GTATTTTATGTATGATGGCCTGAAACACTCTTGTGTTGAGGGAAATCATAT
genomic: GATCTCTGCAAGAATGCTGGCTCTTGGCTTGTTGTTGATAATACATACGAgtaagacttt ... ttttgtgcagGTATTTTATGTATGATGGCCTGAAACACTCTTGTGTTGAGGGAAATCATAT
EST: gi|58015307|gb|CX702049.1|CX702049
EST:     GATCTCTGCAAGAATGCTGGCTCTTGGCTTGTTGTTGATAATACATACGA                         GTATTTTATGTATGATGGCNTGAAACACTCTTGTGTTGAGGGAAATCATAT
genomic: GATCTCTGCAAGAATGCTGGCTCTTGGCTTGTTGTTGATAATACATACGAgtaagacttt ... ttttgtgcagGTATTTTATGTATGATGGCCTGAAACACTCTTGTGTTGAGGGAAATCATAT
EST: gi|151403049|gb|EV272862.1|EV272862
EST:     GATCTCTGCAAGAATGCTGGCTCTTGGCTTGTTGTTGATAATACATACGA                         GTATTTTATGTATGATGGCCTGAA-CACTCTTGTGTTGAGGGAA-TCATAT
genomic: GATCTCTGCAAGAATGCTGGCTCTTGGCTTGTTGTTGATAATACATACGAgtaagacttt ... ttttgtgcagGTATTTTATGTATGATGGCCTGAAACACTCTTGTGTTGAGGGAAATCATAT
EST: gi|26048873|gb|CA785326.1|CA785326
EST:     GATCTCTGCAAGAATGCTGGCTCTTGGCTTGTTGTTGATAATACATACGA                         GTATTTTATGTATGATGGCCTGAAACACTCTTGTGTTGAGGGAAATCATAT
genomic: GATCTCTGCAAGAATGCTGGCTCTTGGCTTGTTGTTGATAATACATACGAgtaagacttt ... ttttgtgcagGTATTTTATGTATGATGGCCTGAAACACTCTTGTGTTGAGGGAAATCATAT
EST: gi|7588129|gb|AW703931.1|AW703931
EST:     GATCTCTGCAAGAATGCTGGCTCTTGGCTTGGTGGTGATAATTCATACGA                         GTGTTTTATGTCTGATGGCCTGGAACACTCTTGTGTTGAGGGAAATCATAT
genomic: GATCTCTGCAAGAATGCTGGCTCTTGGCTTGTTGTTGATAATACATACGAgtaagacttt ... ttttgtgcagGTATTTTATGTATGATGGCCTGAAACACTCTTGTGTTGAGGGAAATCATAT
EST: gi|4283061|gb|AI440609.1|AI440609
EST:     GATCTCTGCAAGAATGCTGGCTCTTGGCTTGTTGTTGATAATACATACGA                         GTATTTTATGTATGATGGCCTGAAACACTTCT-GTGTTGAGGGAAATCATA
genomic: GATCTCTGCAAGAATGCTGGCTCTTGGCTTGTTGTTGATAATACATACGAgtaagacttt ... ttttgtgcagGTATTTTATGTATGATGGCCTGAAACACT-CTTGTGTTGAGGGAAATCATA
EST: gi|9565685|gb|BE475194.1|BE475194
EST:     GCAAGAATGCTGGCTCTTGGCTTGTTGTTGATAATACATACGA                         GTATTTTATGTATGATGGCCTGAAACACTCTTGTGTTGAGGGAAATCATAT
genomic: GCAAGAATGCTGGCTCTTGGCTTGTTGTTGATAATACATACGAgtaagacttt ... ttttgtgcagGTATTTTATGTATGATGGCCTGAAACACTCTTGTGTTGAGGGAAATCATAT
EST: gi|6070812|gb|AW100199.1|AW100199
EST:     GCAAGAGTGCTGGCTCTTGGCTTGTTGTTGATAATACATACGA                         GTATTTTATGTATGATGGCCTGAAACACTCTTGTGTTGAGGGAAATCATAT
genomic: GCAAGAATGCTGGCTCTTGGCTTGTTGTTGATAATACATACGAgtaagacttt ... ttttgtgcagGTATTTTATGTATGATGGCCTGAAACACTCTTGTGTTGAGGGAAATCATAT
EST: gi|151394458|gb|EV264329.1|EV264329
EST:     GATCTCTGCAAGAATGCTGGCTCTTGGCTTGTTGTTGATAATACATACGA                         GTATTTTATGTATGATGGCCTGAAACACTCTTGTGTTGAGGGAAATCATAT
genomic: GATCTCTGCAAGAATGCTGGCTCTTGGCTTGTTGTTGATAATACATACGAgtaagacttt ... ttttgtgcagGTATTTTATGTATGATGGCCTGAAACACTCTTGTGTTGAGGGAAATCATAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGGATTTCAGATCTCTGCAAGAATGCTGGCTCTTGGCTTGTTGTTGATAATACATACGAgtaagacttttaacttgctatgctaatagaaaaaatatattattctttaattatgaaaagaaacaaaaacaaattttttagtctgtttcaattatattgt

- - - - - - - - GCAAGA
- - - - - - - - - - - ATGCTG