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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatgctaattatttgatagtaatatctttgaaattttctaatgtatgtctacctgaaaatatatatccttttgatttttcagGCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTAACTGGTTATCGTGACCCACCTGCTGGTGTTTCA

Basic information

species Glycine max
transcript GLYMA19G24620.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G24620.2 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os01g70960.1 (Oryza sativa), 3'ss of exon 4
gtaatgctaattatttgat---agtaatatctt-tgaaattttctaatgtatgtctacctgaaaatatatatccttttgat-ttttcagGCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTAACTGGTTATCGTGACCCACCTGCTGGTGTTTCA
|| |  || |  | ||| |   ||| | || |  || |||||   |      |  |   |  || | | | |  |||  || |||||||||| | |||||||| ||||||||||||||||| ||||| |||||||||||||| ||||||||||||||||| 
gtgagactcacaaattgctgtcagtcacatgtggtgcaatttctcatctctagattgtatctaactctttgttttttacatattttcagGCCAGGCACAATGGCCAGAACTATGTTTTTGCTCTTCTCACTGGTTATCGTGATCCACCTGCTGGTGTTTCG

upper sequence: GLYMA19G24620.2 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os01g70960.2 (Oryza sativa), 3'ss of exon 4
gtaatgctaattatttgat---agtaatatctt-tgaaattttctaatgtatgtctacctgaaaatatatatccttttgat-ttttcagGCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTAACTGGTTATCGTGACCCACCTGCTGGTGTTTCA----------------------------
|| |  || |  | ||| |   ||| | || |  || |||||   |      |  |   |  || | | | |  |||  || |||||||||| | |||||||| ||||||||||||||||| ||||| |||||||||||||| |||||||||||||||||                             
gtgagactcacaaattgctgtcagtcacatgtggtgcaatttctcatctctagattgtatctaactctttgttttttacatattttcagGCCAGGCACAATGGCCAGAACTATGTTTTTGCTCTTCTCACTGGTTATCGTGATCCACCTGCTGGTGTTTCGGTAACCCTCTCTCATACATATTGTTTTG

upper sequence: GLYMA19G24620.2 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os05g23620.1 (Oryza sativa), 3'ss of exon 5
gtaatgctaattatttgatagtaatatctttgaaattttctaatgtatgtctacctgaaaatatatatccttttgattt------ttcagGCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTAACTGGTTATCGTGACCCACCTGCTGGTGTTTCA
|||||| ||    ||| ||   | |  | ||| | || | |||| |    |   |      ||  |  |  ||||| |       |||||||  | |||||||| ||||||||||| ||||| ||||| |||||||| ||||| |||||||| ||||||   
gtaatgata----ttttatgccattggcgttgca-ttgtttaatcttccaccttcaagttgtaatttactgtttgactccgtatgttcagGCAAGGCACAATGGCCAGAACTATGTGTTTGCTCTTCTTACTGGTTACCGTGATCCACCTGCCGGTGTTCAG

upper sequence: GLYMA19G24620.2 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os05g23620.4 (Oryza sativa), 3'ss of exon 4
gtaatgctaattatttgatagtaatatctttgaaattttctaatgtatgtctacctgaaaatatatatccttttgattt------ttcagGCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTAACTGGTTATCGTGACCCACCTGCTGGTGTTTCA----------------------------
|||||| ||    ||| ||   | |  | ||| | || | |||| |    |   |      ||  |  |  ||||| |       |||||||  | |||||||| ||||||||||| ||||| ||||| |||||||| ||||| |||||||| ||||||                               
gtaatgata----ttttatgccattggcgttgca-ttgtttaatcttccaccttcaagttgtaatttactgtttgactccgtatgttcagGCAAGGCACAATGGCCAGAACTATGTGTTTGCTCTTCTTACTGGTTACCGTGATCCACCTGCCGGTGTTCAGGTAAATCTCATTCTCTGTCAGTTATACC

upper sequence: GLYMA19G24620.2 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G032367_T01 (Zea mays), 3'ss of exon 4
gtaatgctaattatttgatagtaatatctttgaaattttctaatgtatgtctacctgaaaatatatatccttttgatttttcagGCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTAACTGGTTATCGTGACCCACCTGCTGGTGTTTCA
|||||   | ||| | |      ||  ||||||  |   ||      ||  ||      | | | |  | ||    |  | |||||  | ||||||||||||||||||||||| || ||||| ||||| || ||||| |||||||||||||||   
gtaattgcagttaatggtgttgcattgctttgatgtggcctttcac-tgattatggcttactgtttg-cattgcattcatccagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATACCGTGATCCACCTGCTGGTGTTCAG

upper sequence: GLYMA19G24620.2 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G158479_T04 (Zea mays), 3'ss of exon 4
gtaatgctaattatttgatagtaat-atct-ttgaaattttctaatgtatgtctacctgaaaatatatatccttttgatttttcagGCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTAACTGGTTATCGTGACCCACCTGCTGGTGTTTCA
|||||   |  || ||  | | | | |||| |||  || ||| | ||  | |    || |   |  | |    |   ||  |||||||  | ||||||||||||||||||||||| || ||||| ||||| |||| ||| |||||||||||||||   
gtaattacagctaattttttgcagtgatctgttgtgatcttccattgcgtat--ggcttactgttcacaa---tgcaatcattcagGCAAGGCACAATGGTCAGAACTATGTTTTCGCTCTTCTTACTGGATATCATGATCCACCTGCTGGTGTTCAG

upper sequence: GLYMA19G24620.2 (Glycine max), 3'ss of exon 4
lower sequence: AT3G27240.1 (Arabidopsis thaliana), 3'ss of exon 4
-----gtaatgctaatt-atttgatagtaatatctttga-aattttctaatgtatgtctacctgaaaatatatatccttttgatttttcagGCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTAACTGGTTATCGTGACCCACCTGCTGGTGTTTCA
      |  ||||| || | || |    || |||| |   ||  || |  | | ||| |   | || |  | ||   || ||   || ||||| |||||||||||||  |||||||| ||||| ||||| |||||||| ||||| || ||||||||  | || 
gtctgctgctgctactttactttaactgaacatctgtagcaaacttgtgttttgtgttt---taaatagttttaatgttctg-ccttccagGCACGTCACAATGGTCCAAACTATGTCTTTGCGCTTCTGACTGGTTACCGTGATCCCCCTGCTGGCATATCG

upper sequence: GLYMA19G24620.2 (Glycine max), 3'ss of exon 4
lower sequence: Vv14s0171g00330.t01 (Vitis vinifera), 3'ss of exon 4
gtaatgctaattatttgatagtaatatctttgaaattttctaatgtatgtctacctgaaaatatatatccttttgatttttcagGCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTAACTGGTTATCGTGACCCACCTGCTGGTGTTTCA
|||||    ||  | || |     |   | || |  ||     | |||||   ||     |||| |  | |||    ||||||||| || ||||||||||| |||||||| ||||| || ||||||||||| ||||| |||||||||||  |||| 
gtaatttctatgttctggtttggcttcttatggagattat--gtctatgttatccaagtgatatcttgcttttgttcttttcagGCTCGCCACAATGGTCAAAACTATGTATTTGCACTGCTAACTGGTTACCGTGATCCACCTGCTGGCATTTCG

upper sequence: GLYMA19G24620.2 (Glycine max), 3'ss of exon 4
lower sequence: Vv09s0002g05950.t01 (Vitis vinifera), 3'ss of exon 3
gtaatgctaattatttgatagtaatatctttgaaattttctaatgtatgtctacctgaa-aatatatatccttttgatttttcagGCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTAACTGGTTATCGTGACCCACCTGCTGGTGTTTCA
       || | ||||  |  ||    | |||| |      ||||  |||| |||   | ||||  |  |  ||||   | ||||||||| |||||||||||||| ||||| ||||| ||| |||||||||| ||||| || || ||||||||||||
------gtattaattttgttatagatcccttgatagaagtgaatggctgtccacccctacaataactgactctttgtcctctcagGCCCGCCACAATGGTCAGAATTATGTATTTGCTCTTTTAACTGGTTACCGTGATCCTCCAGCTGGTGTTTCA

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|298178076|gb|HO027459.1|HO027459
EST:     GGTTTGCTAATGGAGGAGCTTATCCTCCAGATCTAAGTCTTATTACCAAA                         GCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTAACTGGTTATCGT
genomic: GGTTTGCTAATGGAGGAGCTTATCCTCCAGATCTAAGTCTTATTACCAAAgtaatgctaa ... gatttttcagGCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTAACTGGTTATCGT
EST: gi|192326431|gb|FK017703.1|FK017703
EST:     GGTTTGCTAATGGAGGAGCTTATCCTCCAGATCTAAGTCTTATTACCAAA                         GCCCGTCACAACGGTCAGAACTATGTTTTTGCCCTTCTAACTGGTTATCGT
genomic: GGTTTGCTAATGGAGGAGCTTATCCTCCAGATCTAAGTCTTATTACCAAAgtaatgctaa ... gatttttcagGCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTAACTGGTTATCGT
EST: gi|151405823|gb|EV275638.1|EV275638
EST:     GGTTTGCTAATGGAGGAGCTTATCCTCCAGATCTAAGTCTTATTACCAAA                         GCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTAACTGGTTATCGT
genomic: GGTTTGCTAATGGAGGAGCTTATCCTCCAGATCTAAGTCTTATTACCAAAgtaatgctaa ... gatttttcagGCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTAACTGGTTATCGT
EST: gi|13240163|gb|BG359472.1|BG359472
EST:     GGTTTGCTAATGGAGGAGCTTATCCTCCAGATCTAAGTCTTATTACCAAA                         GCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTAACTGGTTATCGT
genomic: GGTTTGCTAATGGAGGAGCTTATCCTCCAGATCTAAGTCTTATTACCAAAgtaatgctaa ... gatttttcagGCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTAACTGGTTATCGT
EST: gi|254330991|gb|GR842256.1|GR842256
EST:     GGTTTGCTAATGGAGGAGCTTATCCTCCAGATCTAAGTCTTGTTACCAAA                         GCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTGACTGGTTATCGT
genomic: GGTTTGCTAATGGAGGAGCTTATCCTCCAGATCTAAGTCTTATTACCAAAgtaatgctaa ... gatttttcagGCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTAACTGGTTATCGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgaaattttctaatgtatgtctacctgaaaatatatatccttttgatttttcagGCCCGTCACAATGGTCAGAACTATGTTTTTGCCCTTCTAACTGGTTATCGTGACCCACCTGCTGGTGTTTCA
                                      tccttttgatttttc  CT-rich tract
                            aaaatatatatccttt  TA-rich tract