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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGTCACGACCGTGACAGAGGAAGAGTAAGTCTCTCCACAAAGAAGCTGGAGCCAACACCTGGTGATATGATTCGTAACCCAAAACTTGTGTTCGAGAAGgtaactctatttccattcaaaaaaactttccctattttcttttatgtctcaatcatttgctactttctgctgtctcaag

Basic information

species Arabidopsis thaliana
transcript AT5G30510.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G30510.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os03g20100.1 (Oryza sativa), 5'ss of exon 5
GAGTCACGACCGTGACAGAGGAAGAGTAAGTCTCTCCACAAAGAAGCTGGAGCCAACACCTGGTGATATGATTCGTAACCCAAAACTTGTGTTCGAGAAGgtaactctatttccattcaaaaaaactttccctattttcttt----tatgtctcaatc-atttgctactttctgctgtctcaag----
 || || |||||||| |||||  | || ||||| || || || ||||| ||||| ||||||||||| |||||||| || ||||| ||||| || ||||||||||     |||  |  ||| |   |||   ||  |   | |    | | |   ||   |  | ||  ||||| |||||||||     
AAGCCATGACCGTGAAAGAGGCCGTGTTAGTCTTTCTACTAAAAAGCTTGAGCCGACACCTGGTGACATGATTCGCAATCCAAAGCTTGTTTTTGAGAAGgtaa----gtttgaaagcaatattccttgatctggtccatctggaatgtatacaaactgacatactgttttct-ctgtctcaaaacag

upper sequence: AT5G30510.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM5G862107_T01 (Zea mays), 5'ss of exon 5
GAGTCACGACCGTGACAGAGGAAGAGTAAGTCTCTCCACAAAGAAGCTGGAGCCAACACCTGGTGATATGATTCGTAACCCAAAACTTGTGTTCGAGAAGgtaactctatttccattcaaaaaaactt----tccctattttcttttatgtct-caatcatttgctactttctgctgtctcaag----
||| || |||||||| |||||  |||| || || || || |||||||| ||||||||||||||||| ||||| || || || || |||||||| ||||||||||   ||     |  ||| |     |    | |  | | |  |||| ||   |||        |  |||||  || |||||     
GAGCCATGACCGTGAAAGAGGCCGAGTCAGCCTTTCTACTAAGAAGCTTGAGCCAACACCTGGTGACATGATCCGCAATCCCAAGCTTGTGTTTGAGAAGgtaagaataaacaaaagcaacattttctcatgtgctgaatatgctttaggtaagcaactgacatatggtttcttttg-ctcaaattag

upper sequence: AT5G30510.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA09G03660.1 (Glycine max), 5'ss of exon 5
GAGTCACGACCGTGACAGAGGAAGAGTAAGTCTCTCCACAAAGAAGCTGGAGCCAACACCTGGTGATATGATTCGTAACCCAAAACTTGTGTTCGAGAAGgtaactctatttccattcaaaaaaactttccctattttctttta--tgtctcaatcat--ttgctactttctgctgtctcaag---------------------
 ||||| ||||| || |||||||| |||||||| |||||||||||| |||| || ||||||||||| |||||||| || ||||| ||||| || |||||||||    || ||| |   ||  | |     ||| ||  ||  ||  | | | ||| ||  |||   | |     |  ||  |                      
AAGTCATGACCGAGAGAGAGGAAGGGTAAGTCTTTCCACAAAGAAGTTGGAACCCACACCTGGTGACATGATTCGCAATCCAAAGCTTGTCTTTGAGAAGgta----taattcaaagaaaggatatcaagccttttgcctactacctatgtaaattatgattgtagcatagaagtagcttcatttatcatggtttatttccagt

upper sequence: AT5G30510.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA15G14550.1 (Glycine max), 5'ss of exon 5
GAGTCACGACCGTGACAGAGGAAGAGTAAGTCTCTCCACAAAGAAGCTGGAGCCAACACCTGGTGATATGATTCGTAACCCAAAACTTGTGTTCGAGAAGgta--actctatttccattcaaaaaaactttc-cctattttct-tttatgtctcaatcatttgctactttctgctgtctcaag-----------------
 ||||| ||||| || |||||| |||||||||| |||||||||||| |||| || || |||||||| |||||||| || ||||| ||||| || |||||||||  |  | |         |  ||  ||||  |||| |   | | ||  |  | ||    | |||      |||   |  |                  
AAGTCATGACCGAGAGAGAGGACGAGTAAGTCTTTCCACAAAGAAGTTGGAACCCACGCCTGGTGACATGATTCGCAATCCAAAGCTTGTCTTTGAGAAGgtataatacaaagaaaggatatcaagccttttgcctactacttatgtaaattacgattgcatcctagaagtagcttcatttatcatggtttatttcctgt

upper sequence: AT5G30510.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv05s0077g00450.t01 (Vitis vinifera), 5'ss of exon 5
GAGTCACGACCGTGACAGAGGAAGAGTAAGTCTCTCCACAAAGAAGCTGGAGCCAACACCTGGTGATATGATTCGTAACCCAAAACTTGTGTTCGAGAAGgtaactctatttcca-----ttcaaaaaaactttccctattttcttttat--gtctcaatcatttgctactttctgctgtctcaag--------------
||| ||||||||||| |||||  | ||||||||||| || |||||| | || || || ||||| || |||||||| || ||||| ||||| || |||||||||| ||| ||   |     ||  ||| |  | |    ||||| | | |   |    |    || |  || |   | ||| | |                
GAGCCACGACCGTGAGAGAGGCCGTGTAAGTCTCTCAACTAAGAAGTTAGAACCTACCCCTGGAGACATGATTCGCAATCCAAAGCTTGTTTTTGAGAAGgtaattcttttagaaaaacctttcaaatagttgtaatcattttttatgaatagaaatagaggttggtaacctctggttgtattagttatatatatatatt

upper sequence: AT5G30510.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: PP1S40_14V6.1 (Physcomitrella patens), 5'ss of exon 5
GAGTCACGACCGTGACAGAGGAAGAGTAAGTCTCTCCACAAAGAAGCTGGAGCCAACACCTGGTGATATGATTCGTAACCCAAAACTTGTGTTCGAGAAGgtaactctatttccattcaaaaaaactttccctattttcttt-tatgtctcaatcatttgctactttctgctgtctcaag---------------------------
|||||| |||   ||||||||  || | ||| | ||||| |||||||| ||||||||||||||||| ||| | ||||||||| || | || |  |||||||| | || |||| | |||||||       || ||| |||||| ||   | |   ||||| |   |||  | |||  | |                            
GAGTCAGGACAAGGACAGAGGCCGAATCAGTTTGTCCACCAAGAAGCTTGAGCCAACACCTGGTGACATGTTGCGTAACCCACAATTGGTTTATGAGAAGgttaatc-atttacgttcaaaag------ccttatcttctttgtaatgcactgacattttcgcattttggttgtaccgaaaatgaaccacaaagtaacgaattcaag

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|125249089|gb|EL263174.1|EL263174
EST:     GCCAACACCTGGTGATATGATTCGTAACCCAAAAACTTGTGTTCGAGAAG                         GCTGAGGAGATGG
genomic: GCCAACACCTGGTGATATGATTCGTAACCCAAAA-CTTGTGTTCGAGAAGgtaactctat ... ctgtctcaagGCTGAGGAGATGG
EST: gi|164149448|gb|EL988213.1|EL988213
EST:     CCTGGTGATATGATTCGTAACCCAAAACTTGTGTTTCGAGAAG                         GCTGAGGAGATGGCTCAGACATTCAGACAGAGAATTGCGCAAGCAGAAGC
genomic: CCTGGTGATATGATTCGTAACCCAAAACTTGTG-TTCGAGAAGgtaactctat ... ctgtctcaagGCTGAGGAGATGGCTCAGACATTCAGACAGAGAATTGCGCAAGCAGAAGC
EST: gi|125279320|gb|EL293405.1|EL293405
EST:     CGTAACCCAAAACTTGTGTTCGAGAAG                         GCTGAGGAGATGGCTCAGACATTCAGACAGAGAATTGCGCAAGCAGAAGCC
genomic: CGTAACCCAAAACTTGTGTTCGAGAAGgtaactctat ... ctgtctcaagGCTGAGGAGATGGCTCAGACATTCAGACAGAGAATTGCGCAAGCAGAAGCC
EST: gi|125308295|gb|EL322380.1|EL322380
EST:     TGTGTTCGAGAAG                         GCTGAGGAGATGGCTCAGACATTCAGACAGAGAATTGCGCAAGCAGAAGCC
genomic: TGTGTTCGAGAAGgtaactctat ... ctgtctcaagGCTGAGGAGATGGCTCAGACATTCAGACAGAGAATTGCGCAAGCAGAAGCC
EST: gi|125044858|gb|EL117127.1|EL117127
EST:     GCCAACACCTGGTGATATGATTCGTAACCCAAAAACTTGTGTTCGAGAAG                         GCTGAGGAGATGG
genomic: GCCAACACCTGGTGATATGATTCGTAACCCAAAA-CTTGTGTTCGAGAAGgtaactctat ... ctgtctcaagGCTGAGGAGATGG
EST: gi|86074980|gb|DR370737.1|DR370737
EST:     AGCCAACACCTGGTGATATGATTCGTAACCCAAAACTTGTGTTCGAGAAG                         GCTGAGGAGATGGCTCAGACATTCAGACAGAGAATTGCGCAAGCAGAAGCC
genomic: AGCCAACACCTGGTGATATGATTCGTAACCCAAAACTTGTGTTCGAGAAGgtaactctat ... ctgtctcaagGCTGAGGAGATGGCTCAGACATTCAGACAGAGAATTGCGCAAGCAGAAGCC
EST: gi|125050784|gb|EL123053.1|EL123053
EST:     AGCCAACACCTGGTGATATGATTCGTAACCCAAAACTTGTGTTCGAGAAG                         GCTGAGGAGATGG
genomic: AGCCAACACCTGGTGATATGATTCGTAACCCAAAACTTGTGTTCGAGAAGgtaactctat ... ctgtctcaagGCTGAGGAGATGG
EST: gi|125176717|gb|EL196018.1|EL196018
EST:     AGCCAACACCTGGTGATATGATTCGTAACCCAAAACTTGTGTTCGAGAAG                         GCTGAGGAGATGGCTCA
genomic: AGCCAACACCTGGTGATATGATTCGTAACCCAAAACTTGTGTTCGAGAAGgtaactctat ... ctgtctcaagGCTGAGGAGATGGCTCA
EST: gi|125229112|gb|EL243197.1|EL243197
EST:     GTAACCCAAAACTTGTGTTCGAGAAG                         GCTGAGGAGATGGCTCAGACATTCAGACAGAGAATTGCGCAAGCAGAAGCC
genomic: GTAACCCAAAACTTGTGTTCGAGAAGgtaactctat ... ctgtctcaagGCTGAGGAGATGGCTCAGACATTCAGACAGAGAATTGCGCAAGCAGAAGCC
EST: gi|124812181|gb|EH897047.1|EH897047
EST:     ATTCGTAACCCAAAACTTGTGTTCGAGAAG                         GCTGAGGAGATGGCTCAGACATTCAGACAGAGAATTGCGCAAGCAGAAGCC
genomic: ATTCGTAACCCAAAACTTGTGTTCGAGAAGgtaactctat ... ctgtctcaagGCTGAGGAGATGGCTCAGACATTCAGACAGAGAATTGCGCAAGCAGAAGCC
EST: gi|124766480|gb|EH856610.1|EH856610
EST:     AGCCAACACCTGGTGATATGATTCGTAACCCAAAACTTGTGTTCGAGAAG                         GCTGAGGAGAT
genomic: AGCCAACACCTGGTGATATGATTCGTAACCCAAAACTTGTGTTCGAGAAGgtaactctat ... ctgtctcaagGCTGAGGAGAT