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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCAGAGCCCTTGAGAGCAATGGTGATGGGAGCTCCATTGGAGGATGCCCGGCATCTTGCTCAACGTTATGACAGAATGCGGCAGGAAGCCGAAGCACAGgtatctggaattttattgtacttttttcatttgtcacctgcttacattttgggaaatgtctgaatgagtatctgtttcatcaacgatttttttttcctatgtactttttaattacactgtcttttaaacctagacag

Basic information

species Glycine max
transcript GLYMA04G01100.2
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G01100.2 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os10g36870.1 (Oryza sativa), 5'ss of exon 5
TGCAGAGCCCTTGAGAGCAATGGTGATGGGAGCTCCATTGGAGGATGCCCGGCATCTTGCTCAACGTTATGACAGAATGCGGCAGGAAGCCGAAGCACAGgt-atctggaattttattgtacttttttcatttgtcacctgcttacattttgggaaatgtctgaatgagtatctgtttcatcaacgatttttttttcctatgtactttttaattacactgtcttttaaacctagacag
 ||||| || ||||| || ||||||||||||||||| ||||| ||||| || |||||||| ||| | || ||||| ||||| |||||||||||||||||||| ||||     |  |   |||| | || | |    |||   | | || |||   | |||    |||   || | | | |   |   | | |||  ||| | ||  |                               
GGCAGAACCGTTGAGGGCTATGGTGATGGGAGCTCCTTTGGAAGATGCTCGCCATCTTGCCCAAAGATACGACAGGATGCGTCAGGAAGCCGAAGCACAGgttatctcactatgaaacatactgtctttact----accc-ttcatatgttgcctattgtt---atggtgatttctattaaacatactgtctttaccctttttatctg------------------------------

upper sequence: GLYMA04G01100.2 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G123624_T01 (Zea mays), 5'ss of exon 5
TGCAGAGCCCTTGAGAGCAATGGTGATGGGAGCTCCATTGGAGGATGCCCGGCATCTTGCTCAACGTTATGACAGAATGCGGCAGGAAGCCGAAGCACAGgtatctggaattttattgtacttttttcatttgtcacctgcttacattttgggaaatgtctgaatgagtatctgtttcatcaacgatttttt-tttcctatgtactttttaattacactgtcttttaaacctagacag
|||||| ||  ||||||| ||||| ||||||||||| |||||||||||||| || || || ||| | || ||||||||||| || ||||| ||||| |||||   |   || |    ||| ||   |  |   | |   | ||||||||      |  | |   |  |||||| ||| |||||| |    |  | |||  |||   ||||                            
TGCAGAACCACTGAGAGCTATGGTTATGGGAGCTCCTTTGGAGGATGCCCGCCACCTCGCCCAAAGGTACGACAGAATGCGTCAAGAAGCTGAAGCGCAGgtgatttcgatat----gtatttcactattgcataataagtttacattt------accttttgttttgtatctcttt-atcaacaagagatggtatccattgtcacttttg---------------------------

upper sequence: GLYMA04G01100.2 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G002859_T02 (Zea mays), 5'ss of exon 5
TGCAGAGCCCTTGAGAGCAATGGTGATGGGAGCTCCATTGGAGGATGCCCGGCATCTTGCTCAACGTTATGACAGAATGCGGCAGGAAGCCGAAGCACAGgt-atctggaattttattgtacttttttcatttgtcacctgcttacattttgggaaatgtctgaatgagtatctgtttcatcaacgatttttttttcctatgtactttttaattacactgtcttttaaacctagacag
|||||| ||  |||| || ||||| ||||||||||| ||||||||||| || || ||||||||| | || ||||||||||| || ||||| ||||| ||||| || |     | ||||  ||| ||  |||        | | |  |  ||      |||||   ||  | ||| | | | ||| |     | ||   | |  ||||||                             
TGCAGAACCTCTGAGGGCTATGGTTATGGGAGCTCCTTTGGAGGATGCTCGCCACCTTGCTCAAAGGTACGACAGAATGCGTCAAGAAGCTGAAGCGCAGgtgatttcactatgtattacactattg-cataatgagtttacctttaccttt-----tgtctt--tgtatctctttattaacaagggggcatattcattgt-cactttt-----------------------------

upper sequence: GLYMA04G01100.2 (Glycine max), 5'ss of exon 5
lower sequence: AT4G34660.2 (Arabidopsis thaliana), 5'ss of exon 5
TGCAGAGCCCTTGAGAGCAATGGTGATGGGAGCTCCATTGGAGGATGCCCGGCATCTTGCTCAACGTTATGACAGAATGCGGCAGGAAGCCGAAGCACAGgtatctggaattttattgtacttttttcatttgtcacctgcttacattttgggaaatgtctgaatgagtatctgtttcatcaacga-----tttttttttcctatgt--actttttaattacactgtcttttaaacctagacag
||| ||||| ||  | ||||||||  ||||||||||||||||||||||  | |||||||||||||| |||||||||||||| || ||||| ||||| ||||||    |||    ||  |||  |        |  |  |  ||||  || |   |||   ||  |   |  || || ||  ||| |     ||| || |||  |||       |||| |||  |      || || | | ||||
TGCTGAGCCATTACGGGCAATGGTTTTGGGAGCTCCATTGGAGGATGCTAGACATCTTGCTCAACGCTATGACAGAATGCGCCAAGAAGCTGAAGCTCAGgtacggtgaaag--ataataccatgaa-----gctatttaattaccgttagtagaata--tgggttttttcctcttccaagaactagtcattttattattcgcatgatagaactttacttatgcgcctgctttaatccaaacag

upper sequence: GLYMA04G01100.2 (Glycine max), 5'ss of exon 5
lower sequence: Vv03s0038g00460.t01 (Vitis vinifera), 5'ss of exon 5
TGCAGAGCCCTTGAGAGCAATGGTGATGGGAGCTCCATTGGAGGATGCCCGGCATCTTGCTCAACGTTATGACAGAATGCGGCAGGAAGCCGAAGCACAGgtatctggaattttattgtacttttttcatttgtcacctgcttacattttgggaaatgtctgaatgagtatctgtttcatcaacgatttttttttcctatgtactttttaattacactgtcttttaaacctagacag
||||||||| || ||||| ||||| ||||||||||||||||||||||| || |||||||||||||| ||||| |||||||| || ||||| ||||| |||||||       || |      || |||  ||| |||  ||  | || |||        |||    | || |  ||   ||     ||||| ||||  |    | |||||  ||                        
TGCAGAGCCATTAAGAGCGATGGTAATGGGAGCTCCATTGGAGGATGCTCGACATCTTGCTCAACGCTATGAAAGAATGCGACAAGAAGCTGAAGCTCAGgtatt-----cttaaacaattttatttagtttttcaaatgtatgcacttt--------tctcctagggtttgagtcatatttgatattttcttttattgctgagtttttgttt------------------------

upper sequence: GLYMA04G01100.2 (Glycine max), 5'ss of exon 5
lower sequence: Vv18s0001g13530.t01 (Vitis vinifera), 5'ss of exon 5
TGCAGAGCCCTTGAGAGCAATGGTGATGGGAGCTCCATTGGAGGATGCCCGGCATCTTGCTCAACGTTATGACAGAATGCGGCAGGAAGCCGAAGCACAGgtatctggaattttattgtactttttt-catttgtcacctgcttacattttgggaaatgtctgaatgagtatctgtttcatcaacgatttttttttcctatgtactttttaattacactgtcttttaaacctagacag
|| ||| ||||| ||||||||||| ||||||||||| ||||||||||| || |||||||||||||| ||||| ||||||||   |||||| ||||| |||||| |   |  | |     | || |||  || ||    |||||       |     || ||| |   |  || ||       | |||||  |||        || |                                
TGGAGAACCCTTAAGAGCAATGGTAATGGGAGCTCCCTTGGAGGATGCTCGACATCTTGCTCAACGATATGAGAGAATGCGAATGGAAGCTGAAGCTCAGgtaacgttagatatgagacatttctttatatctgcagtctgctggatgcatcttccatttcttaccaaa-atttg-------agcgattcatttcattgtcatattcc------------------------------

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|193592437|gb|FK547853.1|FK547853
EST:     GGCATCTTGCTCAACGTTATGACAGAATGCGGCAGGAAGCCGAAGCCCAG                         GCTATTGAAGTTTCCAAACGCCAGGCAAAAGTAAGAGAAACAC
genomic: GGCATCTTGCTCAACGTTATGACAGAATGCGGCAGGAAGCCGAAGCACAGgtatctggaa ... acctagacagGCTATTGAAGTTTCCAAACGCCAGGCAAAAGTAAGAGAAACAC