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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTTGCATGTTGTGGTTACCATGTTTACTGGCTATCTTCTCGGATATGCAGCATTTAGAGCATTGTTCAATCACAGTCCTGCCATGgtactgcctaaaatatatttttcttattcatttatcctcaaatagttgtttagttatgagctctcatctcttcgtttccttccttgtctctatttccag

Basic information

species Glycine max
transcript GLYMA20G31840.3
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G31840.3 (Glycine max), 5'ss of exon 3
lower sequence: Vv02s0012g01580.t01 (Vitis vinifera), 5'ss of exon 3
GTTTGCATGTTGTGGTTACCATGTTTACTGGCTATCTTCTCGGATATGCAGCATTTAGAGCATTGTTCAATCACAGTCCTGCCATGgtactgcctaaaatatatttttcttattca---tttatcctcaaatagttgtttagttatgagctctcatctct---------tcgtttccttccttgtctctatttccag------------------------------------------------
|||| |||||||||||||| |||||| |||||||| |  | |||||||| ||||| ||||||||||| | |||||  |||| ||||||||    | |   |  ||    ||||  |   | |||      | |  |||| |   | |    |  ||  ||         |  ||| |||  |    |   ||  |                                                  
GTTTACATGTTGTGGTTACAATGTTTTCTGGCTATTTGGTTGGATATGCTGCATTCAGAGCATTGTTTAGTCACAACCCTGTCATGgtaccctttcagtgaccttgaatttatataagttctatttcttgaaaaatgttaaaacacgtttccctattcctcatgggagattattttctttgtaagtttggttctctttaattatagtgttattgaaattgatggttctctaatcctaaatttcag
















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|9985471|gb|BE659579.1|BE659579
EST:     CTCGGATATGCAGCATTTAGAGCATTGTTCAATCACAGTCCTGCCATG                         AATGCTGCTGGAGGAATTCTGGGGTTGGTTGGTGCCATGTTTGTGGAAACT
genomic: CTCGGATATGCAGCATTTAGAGCATTGTTCAATCACAGTCCTGCCATGgtactgccta ... ctatttccagAATGCTGCTGGAGGAATTCTGGGGTTGGTTGGTGCCATGTTTGTGGAAACT
EST: gi|298187634|gb|HO034783.1|HO034783
EST:     TTCTCGGATATGCAGCATTTAGAGCATTGTTCAATCACAGTCCTGCCATG                         AATGCTGCTGGA
genomic: TTCTCGGATATGCAGCATTTAGAGCATTGTTCAATCACAGTCCTGCCATGgtactgccta ... ctatttccagAATGCTGCTGGA
EST: gi|192327525|gb|FK018201.1|FK018201
EST:     TTCTCGGATATGCAGCATTTAGAGCATTGTTCAATCACAGTCCTGCCATG                         AATGCTGCTGGAGGAATTCTGGGGTTGGTTGGTGCCATGTTTGTGGAAACT
genomic: TTCTCGGATATGCAGCATTTAGAGCATTGTTCAATCACAGTCCTGCCATGgtactgccta ... ctatttccagAATGCTGCTGGAGGAATTCTGGGGTTGGTTGGTGCCATGTTTGTGGAAACT
EST: gi|13787967|gb|BG650559.1|BG650559
EST:     TTCTCGGATATGCAGCATTTAGAGCATTGTTCAATCACAGTCCTGCCATG                         AATGCTGCTGGAGGAATTCTGGGGTTGGTTGGTGCCATGTTTGTGGAAACT
genomic: TTCTCGGATATGCAGCATTTAGAGCATTGTTCAATCACAGTCCTGCCATGgtactgccta ... ctatttccagAATGCTGCTGGAGGAATTCTGGGGTTGGTTGGTGCCATGTTTGTGGAAACT
EST: gi|298184735|gb|HO029948.1|HO029948
EST:     TTCTCGGATATGCAGCATTTAGAGCATTGTTCAATCACAGTCCTGCCATG                         AATGCTGCTGGAGGAATTCTGGGGTTGGTTGGTGCCATGTTTGTGGAAACT
genomic: TTCTCGGATATGCAGCATTTAGAGCATTGTTCAATCACAGTCCTGCCATGgtactgccta ... ctatttccagAATGCTGCTGGAGGAATTCTGGGGTTGGTTGGTGCCATGTTTGTGGAAACT
EST: gi|6069374|gb|AW099062.1|AW099062
EST:     CTCGGATATGCAGCATTTAGAGCATTGTTCAATCACAGTCCTGCCATG                         AATGCTGCTGGAGGAATTCTGGGGTTGGTTGGTGCCATGTTTGTGGAAACT
genomic: CTCGGATATGCAGCATTTAGAGCATTGTTCAATCACAGTCCTGCCATGgtactgccta ... ctatttccagAATGCTGCTGGAGGAATTCTGGGGTTGGTTGGTGCCATGTTTGTGGAAACT
EST: gi|16996305|gb|BM085677.1|BM085677
EST:     TTCTCGGATATGCAGCATTTAGAGCATTGTTCAATCACAGTCCTGCCATG                         AATGCTGCTGGAGGAATTCTGGGGTTGGTTGGTGCCATGTTTGTGGAAACT
genomic: TTCTCGGATATGCAGCATTTAGAGCATTGTTCAATCACAGTCCTGCCATGgtactgccta ... ctatttccagAATGCTGCTGGAGGAATTCTGGGGTTGGTTGGTGCCATGTTTGTGGAAACT
EST: gi|208050722|gb|GD848577.1|GD848577
EST:     TTCTCGGATATGCAGCATTTAGAGCATTGTTCAATCACAGTCCTGCCATG                         AATGCTGCTGGAGGAATTCTGGGGTTGGTTGGTGCCATGTTTGTGGAAACT
genomic: TTCTCGGATATGCAGCATTTAGAGCATTGTTCAATCACAGTCCTGCCATGgtactgccta ... ctatttccagAATGCTGCTGGAGGAATTCTGGGGTTGGTTGGTGCCATGTTTGTGGAAACT
EST: gi|298193968|gb|HO040616.1|HO040616
EST:     TTCTCGGATATGCAGCATTTAGAGCATTGTCCAATCACAGTCCTGCCATG                         AATGCTACTGGA
genomic: TTCTCGGATATGCAGCATTTAGAGCATTGTTCAATCACAGTCCTGCCATGgtactgccta ... ctatttccagAATGCTGCTGGA
EST: gi|192329381|gb|FK021835.1|FK021835
EST:     TTTTCGGATATGCAGCATTTAGAGCATTGTTCAATCACAGTCCTGCCATG                         AATGCTGCTGGAGGAATTCTGGGGTTGGTTGGTGCCATGTTTGTGGAAACT
genomic: TTCTCGGATATGCAGCATTTAGAGCATTGTTCAATCACAGTCCTGCCATGgtactgccta ... ctatttccagAATGCTGCTGGAGGAATTCTGGGGTTGGTTGGTGCCATGTTTGTGGAAACT
EST: gi|192329380|gb|FK021834.1|FK021834
EST:     TTCTCGGATATGCAGCATTTAGAGCATTGTTCAATCACAGTCCTGCCATG                         AATGCTGCTGGAGGAATTCTGGGGTTGGTTGGTGCCATGTTTGTGGAAACT
genomic: TTCTCGGATATGCAGCATTTAGAGCATTGTTCAATCACAGTCCTGCCATGgtactgccta ... ctatttccagAATGCTGCTGGAGGAATTCTGGGGTTGGTTGGTGCCATGTTTGTGGAAACT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTTGCATGTTGTGGTTACCATGTTTACTGGCTATCTTCTCGGATATGCAGCATTTAGAGCATTGTTCAATCACAGTCCTGCCATGgtactgcctaaaatatatttttcttattcatttatcctcaaatagttgtttagttatgagctctcatctcttcgtttccttccttgtctctatttccag

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