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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtactcaactgcatttttttattgctcaaatttctttgggagataataatttatttcttatgacgtgaatgctttctgcatcttagTTTACCCCACACCCTCATGCTGGAGACAAATGGTGTATCTATCCAAGTTATGATTATGCACACTGCATTGTGGATTCTCTAGAGAATATCACACATTCA

Basic information

species Glycine max
transcript GLYMA20G25120.2
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G25120.2 (Glycine max), 3'ss of exon 13
lower sequence: LOC_Os01g09000.1 (Oryza sativa), 3'ss of exon 12
gtaagtact-caactgcatttttttattgctcaaat-ttctttgggagata-ataatttat-ttcttatgacgtgaatgctttctgcatcttagTTTACCCCACACCCTCATGCTGGAGACAAATGGTGTATCTATCCAAGTTATGATTATGCACACTGCATTGTGGATTCTCTAGAGAATATCACACATTCA
||||| | | |||||| ||| | || |||||    | ||   ||  | ||| | || | |   ||| |||||    || |            |||| || || || || |||||||| || || ||||| ||||||||||| ||||| ||||| |||||||| ||||||||||| ||||| || |||||||| 
gtaagcaatgcaactgaattgtgtt-ttgcttgtctatttcctgataaatacacaactcacactctgatgacc---atac------------agTTCACTCCTCATCCACATGCTGGTGATAAGTGGTGCATCTATCCAAGCTATGACTATGCTCACTGCATGGTGGATTCTCTTGAGAACATTACACATTCG

upper sequence: GLYMA20G25120.2 (Glycine max), 3'ss of exon 13
lower sequence: LOC_Os05g08990.1 (Oryza sativa), 3'ss of exon 12
gtaagtactcaactgcatttttttattgctcaaatttctttgggagataataatttatttcttatgacgtgaatgctttctgcatcttagTTTACCCCACACCCTCATGCTGGAGACAAATGGTGTATCTATCCAAGTTATGATTATGCACACTGCATTGTGGATTCTCTAGAGAATATCACACATTCA
||||  | |   |  |||| |    || ||    ||||| ||     ||  | || || | ||   |  |        ||| ||    ||||||| || || || |||||||| ||||| |||| |||||||||||| ||||| ||||| || ||  | || || ||||| || || || || ||||| 
gtaaacaatt--cgacattatggagttact--gttttctgtgaagtgtagaatttaatatatttctatata-------tctacac---agTTTACACCTCATCCCCATGCTGGCGACAAGTGGTTTATCTATCCAAGCTATGACTATGCTCATTGTTTGGTTGACTCTCTTGAAAACATTACCCATTCG

upper sequence: GLYMA20G25120.2 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM2G048012_T01 (Zea mays), 3'ss of exon 11
gtaagtactcaactgcatttttttattgctcaaatttctttgggagataataatttatttcttatgacgtgaatgctttctgcatct-tagTTTACCCCACACCCTCATGCTGGAGACAAATGGTGTATCTATCCAAGTTATGATTATGCACACTGCATTGTGGATTCTCTAGAGAATATCACACATTCA
              | |  |    ||||||||| |   | |      | | ||| |||  | |  ||  | | || ||| ||||  |  |||| ||||| || || |||||||| || || |||||||||||||| || ||||| ||||| || ||||| ||||||||||| || || ||||| ||||| 
--------------gtaagtgac-attgctcaactgattattaattttcacaatatataacatcagaactaattg-tttatgcacatacagTTCACCCCTCATCCACATGCTGGTGATAATTGGTGTATCTATCCGAGCTATGACTATGCTCATTGCATGGTGGATTCTCTTGAAAACATCACGCATTCG

upper sequence: GLYMA20G25120.2 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM2G032049_T01 (Zea mays), 3'ss of exon 12
gtaagtactcaactgcatttttttattgctcaaatttctttgggagataataatttatttcttatgacgtgaatgctttctgcatct-tagTTTACCCCACACCCTCATGCTGGAGACAAATGGTGTATCTATCCAAGTTATGATTATGCACACTGCATTGTGGATTCTCTAGAGAATATCACACATTCA
    |||    || |   |    |  |  || ||||||           || || |||  | |  ||  | | || ||| | ||  |  |||| ||||| || || |||||||| ||||| |||||| ||||||| || ||||| || || || ||||| ||||||||||| || || ||||||||||| 
----gtaagtgacagtgctcaactgataatctaatttc-----------atgatatataacatcagaactaattg-tttatacacatacagTTCACCCCCCATCCACATGCTGGCGACAAGTGGTGTGTCTATCCGAGCTATGACTACGCTCATTGCATGGTGGATTCTCTTGAAAACATCACACATTCG

upper sequence: GLYMA20G25120.2 (Glycine max), 3'ss of exon 13
lower sequence: AT1G25350.2 (Arabidopsis thaliana), 3'ss of exon 13
gtaagtactcaactgcatttttttattgctcaaatttctttgggagataataatttatttcttatgacgtgaatgctt--tctgcatcttagTTTACCCCACACCCTCATGCTGGAGACAAATGGTGTATCTATCCAAGTTATGATTATGCACACTGCATTGTGGATTCTCTAGAGAATATCACACATTCA
| ||||    ||||  | |  | |  |  | | || |     | ||    |   |  | | ||      ||| |  ||  | ||| |   ||||  | || || ||| | ||||| ||||| |||||||||||||| |||||||||||||| ||||||| ||| |||||||| |||||||| || ||||| 
gcaagtga--aactaaaatcctct-ctagttacatataaaaagtaggctctctctcttcttttcctgtctgacttgttaatatgctttgcagTTCGCACCTCATCCTAAGGCTGGTGACAAGTGGTGTATCTATCCGAGTTATGATTATGCCCACTGCACTGTTGATTCTCTTGAGAATATAACGCATTCG

upper sequence: GLYMA20G25120.2 (Glycine max), 3'ss of exon 13
lower sequence: Vv15s0021g01230.t01 (Vitis vinifera), 3'ss of exon 13
--------------gtaagta-ctcaactgcattttttta-----ttgctcaaatttctttgggagataataatttat---ttcttatgacgtgaatgc-tttctgcatcttagTTTACCCCACACCCTCATGCTGGAGACAAATGGTGTATCTATCCAAGTTATGATTATGCACACTGCATTGTGGATTCTCTAGAGAATATCACACATTCA
               ||   | || ||||   |     |      || || || |  || |   | | || ||   ||   |  |||  |  ||| | |  ||||       ||||||| || ||||| |||||||||||||| |||||| | ||||||||||| |||||||| || |||||||| |||||||| ||||| ||||| ||||||
gcaagtctgtactcatagacatcttaactatttcaacatgagtagttactaaattacctatcaaaaaaaaaaaaacatgagtagttactaattgatttcacttcttttgtccagTTTACTCCTCACCCACATGCTGGAGACAAGTGGTGTGTTTATCCAAGTTACGATTATGCTCATTGCATTGTAGATTCTCTTGAGAACATCACTCATTCA

upper sequence: GLYMA20G25120.2 (Glycine max), 3'ss of exon 13
lower sequence: Vv01s0011g03740.t01 (Vitis vinifera), 3'ss of exon 13
gtaagtactcaactgc-atttttttattgctcaaatttctttgggagataataatttatttcttatgacgtgaatgctttctgcatctt--agTTTACCCCACACCCTCATGCTGGAGACAAATGGTGTATCTATCCAAGTTATGATTATGCACACTGCATTGTGGATTCTCTAGAGAATATCACACATTCA
| |||| || | ||   |   | || | ||||| |||        || || || | | | |   | |   |||    ||| |   || |  |||||||||| || || ||| | || ||||| |||||||| |||||||||||||||||| | || ||||||||||||||||| || ||||| |||||||| 
gcaagtgctaacctttgaacatgttgtagctcacattc------aaggtactactctttattcaagggtttgacatttttgttattcgtccagTTTACCCCTCATCCACATTCAGGGGACAAGTGGTGTATTTATCCAAGTTATGATTATTCTCATTGCATTGTGGATTCTCTTGAAAATATTACACATTCG

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|193727138|gb|FK660296.1|FK660296
EST:     TGCAGAGTGATAACTACAATATGTATGACCTTATTGCATATAGAATTAAG                         TTTACCCCACACCCTCATGCTGGAGACAAATGGTGTATCTATCCAAGTTAT
genomic: TGCAGAGTGATAACTACAATATGTATGACCTTATTGCATATAGAATTAAGgtaagtactc ... tgcatcttagTTTACCCCACACCCTCATGCTGGAGACAAATGGTGTATCTATCCAAGTTAT
EST: gi|151409608|gb|EV279416.1|EV279416
EST:     TGCAGAGTGATAACTACAATATGTATGACCTTATTGCATATAGAATTAAG                         TTTACCCCACACCCTCATGCTGGAGACAAATGGTGTATCTATCCAAGTTAT
genomic: TGCAGAGTGATAACTACAATATGTATGACCTTATTGCATATAGAATTAAGgtaagtactc ... tgcatcttagTTTACCCCACACCCTCATGCTGGAGACAAATGGTGTATCTATCCAAGTTAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctttgggagataataatttatttcttatgacgtgaatgctttctgcatcttagTTTACCCCACACCCTCATGCTGGAGACAAATGGTGTATCTATCCAAGTTATGATTATGCACACTGCATTGTGGATTCTCTAGAGAATATCACACATTCA
                                      tgctttct  CT-rich tract
         agataataatttattt  TA-rich tract