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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGCAATCCTTGCCAAGGAGCAAGGGAAAAACAATGTTGCATTCCTTTGCTTATTTATGTTGGGTAAATTAGAAGACTGCCTTCAACTGTTGGTAGAAAGgtaattttctaaagttgggctgttttccttcctgacattactgatagggaggattgattagaaatttagaatgcagtttacatttatagctgaagtatgccttttgcag

Basic information

species Glycine max
transcript GLYMA13G43680.1
intron # 20
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G43680.1 (Glycine max), 5'ss of exon 20
lower sequence: GRMZM2G443953_T01 (Zea mays), 5'ss of exon 21
TTGCAATCCTTGCCAAGGAGCAAGGGAAAAACAATGTTGCATTCCTTTGCTTATTTATGTTGGGTAAATTAGAAGACTGCCTTCAACTGTTGGTAGAAAGgtaattttctaaagttgggctgttttccttcctgacattactgatagggaggattgattagaaatttagaatgcagtttacatt-tatagctgaagtatgccttttgcag
| |||  | |  | || || | ||| || ||||||||||| ||||||||||| |||||||| || ||||| ||||| || |||||| ||||||| || |||||   ||||  | |||      | |    |    || ||       | |      |||  |  || | |||      |    | || ||                    
TGGCATCCATGTCTAAAGAACTAGGAAAGAACAATGTTGCTTTCCTTTGCTTGTTTATGTTAGGCAAATTGGAAGAATGTCTTCAATTGTTGGTTGATAGgtaggcttctgcaattgaatgcatcttgccctactcagtaacatcttgtatcggacattgtatgttgacaattggtcctttgctgtacag--------------------

upper sequence: GLYMA13G43680.1 (Glycine max), 5'ss of exon 20
lower sequence: AT1G79990.1 (Arabidopsis thaliana), 5'ss of exon 24
TTGCAATCCTTGCCAAGGAGCAAGGGAAAAACAATGTTGCATTCCTTTGCTTATTTATGTTGGGTAAATTAGAAGACTGCCTTCAACTGTTGGTAGAAAGgtaattttctaaagttgggctgttttccttcctgacattactgatagggaggattgattagaaatttagaatgcagtttacat--ttatagctgaagtatgccttttgcag
| |||   ||||| || |||||||| || |||||||| || || |||||||| || ||||||||| || ||||||||||||| || |||||||| ||||||||  ||  | |       || |||           |  |   ||       | | ||||    | ||   ||   || | ||  ||| ||                    
TGGCAGCACTTGCAAAAGAGCAAGGAAAGAACAATGTCGCTTTTCTTTGCTTGTTCATGTTGGGTCAAGTAGAAGACTGCCTGCATCTGTTGGTGGAAAGgtacattgttta-------ctatttcttacatgtggaacatatattcccgcaactaattacg--tctatgctgatattaatatggttacag--------------------

upper sequence: GLYMA13G43680.1 (Glycine max), 5'ss of exon 20
lower sequence: AT3G15980.3 (Arabidopsis thaliana), 5'ss of exon 20
TTGCAATCCTTGCCAAGGAGCAAGGGAAAAACAATGTTGCATTCCTTTGCTTATTTATGTTGGGTAAATTAGAAGACTGCCTTCAACTGTTGGTAGAAAGgtaattttctaaagttgggctgttttccttcctgacattactgatagggaggattgattagaaatttagaatgcagtttacatttatagctgaagtatgccttttgcag
|||||  |||||| ||||| || ||||| ||||||||||| || ||||||||||||| | |||||| ||| ||||| || || ||  | ||||| || ||||| ||   ||  |||    ||    || |   || |   |  ||| |     ||  |||    | |   | | |  |||  || | ||                    
TTGCATGCCTTGCTAAGGAACAGGGGAAGAACAATGTTGCCTTTCTTTGCTTATTTACGCTGGGTAGATTGGAAGATTGTCTGCAGTTATTGGTGGAGAGgtatttcattactgttcacttgg---ccgtttggaaaaatcaaatatgtgtcttttgttatctttatgacaag-aaattatcttgacag--------------------

upper sequence: GLYMA13G43680.1 (Glycine max), 5'ss of exon 20
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 5'ss of exon 20
TTGCAATCCTTGCCAAGGAGCAAGGGAAAAACAATGTTGCATTCCTTTGCTTATTTATGTTGGGTAAATTAGAAGACTGCCTTCAACTGTTGGTAGAAAGgtaattttctaaagttgggctgttttccttcctgacattactgatagggaggattgattagaaatttagaatgcagtttacatttatagctgaagtatgccttttgcag
|||||  |||||| || || || ||||| ||||| ||||| |||||||| || || |||||||||||||| ||||| || || || |||||||| || ||||||||            | |||| |   | |  ||||     | |  ||   |||   ||| |||       || |||     |    |||||| || |  |||||||
TTGCATCCCTTGCTAAAGAACAGGGGAAGAACAACGTTGCCTTCCTTTGTTTGTTCATGTTGGGTAAATTGGAAGAGTGTCTGCAGCTGTTGGTGGACAGgtaatt------------gttgttgttactgcaaacat-gggaacaaagatagttgtggagatattc------cacttttgggatgatactgaagcattctctttgcag

upper sequence: GLYMA13G43680.1 (Glycine max), 5'ss of exon 20
lower sequence: Vv11s0016g04180.t01 (Vitis vinifera), 5'ss of exon 20
TTGCAATCCTTGCCAAGGAGCAAGGGAAAAACAATGTTGCATTCCTTTGCTTATTTATGTTGGGTAAATTAGAAGACTGCCTTCAACTGTTGGTAGAAAGgtaattttctaaagttgggctgttttccttcctgacatta-ctgatagggaggattgattagaaatttag--aatgcagtttacatt---tatagctgaagtatgccttttgcag-------------------------------------------------
|||     || || ||  |||| ||||| || ||||| ||||||||||| ||||| | | |||||||||| ||||| |||||||| |||||||| || |||||||  | |         |  | |  |      | || | ||| |       ||| |||| | |||||   | | || || |||     ||| |  | ||| |   |    |||                                                 
TTGTTTCACTGGCTAAAAAGCAGGGGAAGAATAATGTCGCATTCCTTTGTTTATTCACGCTGGGTAAATTGGAAGAGTGCCTTCAGCTGTTGGTGGAGAGgtaatcattt---tccttaccatataaccatagaaaatcaactgctgatactaatttattacacatttacttatttcatttaacagacaatatggtggtagtttatatgacccaggaagttgagattgagtttactgattagactctgatatggtctgttgcag

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|26269606|gb|CA820669.1|CA820669
EST:     TTATTTATGTTGGGTAAATTAGAAGACTGCCTTCAACTGTTGGTAGAAAG                         CAATCGAATTCCAGAGGCAGCTTTAATGGCTCGATCTTATCTCCCAAGTAA
genomic: TTATTTATGTTGGGTAAATTAGAAGACTGCCTTCAACTGTTGGTAGAAAGgtaattttct ... ccttttgcagCAATCGAATTCCAGAGGCAGCTTTAATGGCTCGATCTTATCTCCCAAGTAA
EST: gi|151398221|gb|EV268099.1|EV268099
EST:     TTATTTATGTTGGGTAAATTAGAAGACTGCCTTCAACTGTTGGTAGAAAG                         CAATCGAATTCCAGAGGCAGCTTTAATGGCTCGATCTTATCTCCCAAGTAA
genomic: TTATTTATGTTGGGTAAATTAGAAGACTGCCTTCAACTGTTGGTAGAAAGgtaattttct ... ccttttgcagCAATCGAATTCCAGAGGCAGCTTTAATGGCTCGATCTTATCTCCCAAGTAA