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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTAAGACCATTCAACTGGATTGGACCTAGGATGGATTTCATCCCTGGCATTGATGGTCCTAGCGAGGGTGTCCCACGGGTTCTAGCGTGCTTTAGTAACgtaagtatacaggcttagtccaatgacctgagttcttctcatggctgcagcttaacttttttgtttaactttttggtgggtattttcag

Basic information

species Arabidopsis thaliana
transcript AT1G08200.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G08200.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os01g73790.1 (Oryza sativa), 5'ss of exon 5
TGTAAGACCATTCAACTGGATTGGACCTAGGATGGATTTCATCCCTGGCATTGATGGTCCTAGCGAGGGTGTCCCACGGGTTCTAGCGTGCTTTAGTAACgtaagtatacaggcttagtcc----aatgacctgagttcttctcatggctgcagcttaacttttttg-tttaactttttggtgggtattttcag
||| ||||| ||||| ||||||||||| || ||||| || || |||||  ||||||||||||| |||||||| || |||||| | || || || ||||||||| ||  ||  |     | |    ||| |  |   | | | || |    |  | ||  ||  |  | | ||  |      ||   |||| |||
TGTGAGACCTTTCAATTGGATTGGACCAAGAATGGACTTTATTCCTGGTGTTGATGGTCCTAGTGAGGGTGTTCCTCGGGTTTTGGCATGTTTCAGTAACgtatgtcaaccagtccctttctgagaataatatacctccatttcgttatggtcgtttttctcataagatgtatgtcgccaatga--atttgcag

upper sequence: AT1G08200.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G063949_T01 (Zea mays), 5'ss of exon 5
TGTAAGACCATTCAACTGGATTGGACCTAGGATGGATTTCATCCCTGGCATTGATGGTCCTAGCGAGGGTGTCCCACGGGTTCTAGCGTGCTTTAGTAACgtaagtatacaggcttagtc-caatgacctgagttcttctcatggctgcagc---ttaacttttttgtttaactttttggtg--ggtattttcag--
 || ||||| ||||| ||||||||||| |||||||| ||||| |||||  ||||||||||||| || ||||| || |||||| | || ||||| |||||||||||| | |  | ||  |    | || |    |  |  | ||   |||| |   || | | || |    |  |    |||     |  |||     
CGTGAGACCTTTCAATTGGATTGGACCAAGGATGGACTTCATTCCTGGTGTTGATGGTCCTAGTGAAGGTGTGCCTCGGGTTTTGGCTTGCTTCAGTAACgtaagtgttcttgtttcttggtgaggatcattatcttaattatttatgcaccatgttcagtcttctcagaagatgcacggtaccaatggttttgcag

upper sequence: AT1G08200.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G167872_T02 (Zea mays), 5'ss of exon 3
TGTAAGACCATTCAACTGGATTGGACCTAGGATGGATTTCATCCCTGGCATTGATGGTCCTAGCGAGGGTGTCCCACGGGTTCTAGCGTGCTTTAGTAACgtaagtatacaggcttagtccaatgacctgagttcttctcatggctgcagcttaacttttttgtttaactttttggtgggtattttcag----------
 || ||||| || || |||||||| || |||||||||||||| |||||  | ||||||||||| |||||||| || ||||| || || ||||| ||||||||| ||  ||  | ||  |      |  |   ||||    |||| ||  |||||| |||      || | || |  || | |  | ||           
CGTGAGACCTTTTAATTGGATTGGGCCAAGGATGGATTTCATTCCTGGTGTCGATGGTCCTAGTGAGGGTGTACCCCGGGTGCTGGCTTGCTTCAGTAACgtatgtgcacttgttttttt-----atttattttctgagtatggttg--gcttaattttgcaccatagcattcttctgagaagatgcatggttttgcag

upper sequence: AT1G08200.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA11G19550.1 (Glycine max), 5'ss of exon 5
TGTAAGACCATTCAACTGGATTGGACCTAGGATGGATTTCATCCCTGGCATTGATGGTCCTAGCGAGGGTGTCCCACGGGTTCTAGCGTGCTTTAGTAACgtaagtatacaggcttagtccaatgacct------gagttcttc----tcatggctgcagcttaacttttttgtttaactttttggtgggtattt-tcag---
|||||| ||||| ||||||||||||||| | ||||||||||| ||||| ||||||||||| || |||||||| || |||||||| || |||||||| || || ||| |||   |||   | | ||   |       ||||  |     |  | || | || ||      |||||| || ||||  ||     ||| || |   
TGTAAGGCCATTTAACTGGATTGGACCTCGAATGGATTTCATTCCTGGGATTGATGGTCCAAGTGAGGGTGTTCCTCGGGTTCTTGCTTGCTTTAGCAATgtcagt-tacttacttttgctattgctttttgttgaagtttgttgatattttagccggagttttgaaaatttgttcaaattttctgttttcctttgtctgcag

upper sequence: AT1G08200.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA12G08930.1 (Glycine max), 5'ss of exon 5
TGTAAGACCATTCAACTGGATTGGACCTAGGATGGATTTCATCCCTGGCATTGATGGTCCTAGCGAGGGTGTCCCACGGGTTCTAGCGTGCTTTAGTAACgtaagtatacaggcttagtccaatgacctgagttcttctcatggctgcagcttaactttt------ttgttta--actttttggtgggtattttcag---
||| || || || ||||||||||||||| | ||||||||||| ||||||||||||||||| || |||||||| || |||||||| || |||||||| || || ||| |||   |||  | | |||   |||  | ||   |||  |  |||   | ||||      ||||| |  | ||| || |     || || |   
TGTGAGGCCTTTTAACTGGATTGGACCTCGAATGGATTTCATTCCTGGCATTGATGGTCCAAGTGAGGGTGTTCCTCGGGTTCTTGCATGCTTTAGCAATgtcagt-tacttacttt-tgctatg--ttgaagtttttagatgattttagccagagttttgaaaatttgttcaaaattttctgttttcctttgtctgcag

upper sequence: AT1G08200.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA17G05440.1 (Glycine max), 5'ss of exon 3
TGTAAGACCATTCAACTGGATTGGACCTAGGATGGATTTCATCCCTGGCATTGATGGTCCTAGCGAGGGTGTCCCACGGGTTCTAGCGTGCTTTAGTAACgtaagtatacaggcttagtccaa--tgacctgagttcttct-catggctgcagcttaacttttttgtttaactttttggtgggtattttcag----------------
||| ||||| || || |||||||||||  | ||||||||||| || |||||||||||||| || |||||||| || |||||||| || |||||||| || || ||| ||||   | | |   |  |    | || |  | |  || | ||    | ||  |||||   |||   ||   |   |||||||                  
TGTGAGACCTTTTAATTGGATTGGACCACGAATGGATTTCATTCCCGGCATTGATGGTCCAAGTGAGGGTGTTCCTCGGGTTCTGGCATGCTTTAGCAATgtgagtttacattttgatttagactttgtttaagcttgtatatattgttgttagtcaatatttttaaataatgattc--taaatattttcttcatttcttttctgtag

upper sequence: AT1G08200.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA12G30490.2 (Glycine max), 5'ss of exon 5
TGTAAGACCATTCAACTGGATTGGACCTAGGATGGATTTCATCCCTGGCATTGATGGTCCTAGCGAGGGTGTCCCACGGGTTCTAGCGTGCTTTAGTAACgtaagtatacaggcttagtccaatgacctgagttcttctcatggctgcagcttaacttttttgtttaactttttggtgggtattttcag--------------
||| || || || || |||||||||||  | ||||||||||| || ||||||||||| || || |||||||| || |||||||| || |||||||| || || ||| ||||   | | |   |     |     ||| | ||   ||   ||  |  ||||||  |||   ||       | || ||                
TGTGAGGCCTTTTAATTGGATTGGACCACGAATGGATTTCATTCCCGGCATTGATGGCCCAAGTGAGGGTGTTCCTCGGGTTCTGGCATGCTTTAGCAATgtgagtttacattttgatttagactttgtttaagcttgt-atatatgttactcgatatttttggataatgattctaaatattttctccattccttttctgtag

upper sequence: AT1G08200.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv06s0061g01120.t01 (Vitis vinifera), 5'ss of exon 5
TGTAAGACCATTCAACTGGATTGGACCTAGGATGGATTTCATCCCTGGCATTGATGGTCCTAGCGAGGGTGTCCCACGGGTTCTAGCGTGCTTTAGTAACgtaagtatacaggcttagtccaatgacctgagttcttctcatggctgcagcttaacttttttgtttaactttttggtgggtattttcag
||| || || || ||||||||||| || || |||||||| || |||||||||||||||||||||||||| || ||| ||||||| || ||||| ||||| || ||| | ||   |  |||  |  |  |       | |  |  ||    ||||    |  | ||   ||||||       | |     
TGTGAGGCCCTTTAACTGGATTGGGCCCAGAATGGATTTTATTCCTGGCATTGATGGTCCTAGCGAGGGCGTTCCAAGGGTTCTGGCATGCTTCAGTAATgttagttt-caacatctgtcataacatttagtagtattttttttctttttcttactactgatcttgctctttttctcccacaatag---

upper sequence: AT1G08200.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv03s0017g00680.t01 (Vitis vinifera), 5'ss of exon 5
TGTAAGACCATTCAACTGGATTGGACCTAGGATGGATTTCATCCCTGGCATTGATGGTCCTAGCGAGGGTGTCCCACGGGTTCTAGCGTGCTTTAGTAACgtaagtatacaggcttagtccaatgacctgagttcttctcatggctgcagcttaacttttttgtttaactttttggtgggtattttcag------
||| || || || ||||||||||| ||||| ||||||||||| |||||||||||||||||||| || ||||| ||| ||||||| || ||||| || || || ||| | ||   |  |||  || || ||  || ||     |  |     | |  |||||||| |    | ||| |   | | | |        
TGTGAGGCCTTTTAACTGGATTGGGCCTAGAATGGATTTCATTCCTGGCATTGATGGTCCTAGTGAAGGTGTTCCAAGGGTTCTGGCATGCTTCAGCAATgttagttt-caacatctgtc--ataacatggcttgtttggtagtatttttttcattttttttgtctctgatcttgctctttttctcccaccgtag

upper sequence: AT1G08200.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: PP1S379_19V6.1 (Physcomitrella patens), 5'ss of exon 3
TGTAAGACCATTCAACTGGATTGGACCTAGGATGGATTTCATCCCTGGCATTGATGGTCCTAGCGAGGGTGTCCCACGGGTTCTAGCGTGCTTTAGTAACgtaagtatacaggcttagtccaatgacctgagttcttctcatggctgcagcttaactttt--ttgtttaactttttggtgggtattttcag--------------------------------------------------------
 ||  ||||||||||||||||||| ||  | ||||||||||| || |||||||| || || || ||     | || || || || || ||||| || || |||| |   |||   |  |     |       ||| |       |  | | || | ||||  || |||   |||    |    |||| |                                                          
AGTTCGACCATTCAACTGGATTGGCCCACGCATGGATTTCATACCAGGCATTGACGGACCAAGTGACTCAATTCCTCGTGTCCTGGCATGCTTCAGCAATgtaattcgccagcacttctttggcgcttcctcttcctgcttgcccatctgttttatttttaattatttttatttcaatttctcatttccgatcaaaattatgattggtgtggaggttatccacttgatctgatggcaaaaactgcag

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|116471821|gb|EG514413.1|EG514413
EST:     TTGATGGTCCTAGCGAGGGTGTCCCACGGGTTCTAGCGTGCTTTAGTAAC                         AATCTTCTGCGACGGGAGCCTCTCAAGCTTGTGGATGGTGGAGAATCACAG
genomic: TTGATGGTCCTAGCGAGGGTGTCCCACGGGTTCTAGCGTGCTTTAGTAACgtaagtatac ... gtattttcagAATCTTCTGCGACGGGAGCCTCTCAAGCTTGTGGATGGTGGAGAATCACAG
EST: gi|125215097|gb|EL229287.1|EL229287
EST:     TTGATGGTCCTAGCGAGGGTGTCCCACGGGTTCTAGCGTGCTTTAGTAAC                         AATCTTCTGCGACGGGAGCCTCTCAAG
genomic: TTGATGGTCCTAGCGAGGGTGTCCCACGGGTTCTAGCGTGCTTTAGTAACgtaagtatac ... gtattttcagAATCTTCTGCGACGGGAGCCTCTCAAG
EST: gi|124831662|gb|EH916101.1|EH916101
EST:     TTGATGGTCCTAGCGAGGGTGTCCCACGGGTTCTAGCGTGCTTTAGTAAC                         AATCTTCTGCGAAACGGGAGCCTCTCAAGCTTGTGGATGGT
genomic: TTGATGGTCCTAGCGAGGGTGTCCCACGGGTTCTAGCGTGCTTTAGTAACgtaagtatac ... gtattttcagAATCTTCTGCGA--CGGGAGCCTCTCAAGCTTGTGGATGGT
EST: gi|124910914|gb|EH984994.1|EH984994
EST:     TTGATGGTCCTAGCGAGGGTGTCCCACGGGTTCTAGCGTGCTTTAGTAAC                         AATCTTCTGCGACGGGAG
genomic: TTGATGGTCCTAGCGAGGGTGTCCCACGGGTTCTAGCGTGCTTTAGTAACgtaagtatac ... gtattttcagAATCTTCTGCGACGGGAG
EST: gi|164158197|gb|ES022170.1|ES022170
EST:     TTGATGGTCCCAGCGAGGGTGTCCCACGGGTTCTAGCGTGCTTTAGTAAC                         AACCTTCTGCGACGGGAGCCTC
genomic: TTGATGGTCCTAGCGAGGGTGTCCCACGGGTTCTAGCGTGCTTTAGTAACgtaagtatac ... gtattttcagAATCTTCTGCGACGGGAGCCTC
EST: gi|124888220|gb|EH967122.1|EH967122
EST:     TTGATGGTCCTAGCGAGGGTGTCCCACGGGTTCTAGCGTGCTTTAGTAAC                         AATCTTCTGCGACGGGAGCCTCTCAAGCTTGTGGATGGTG
genomic: TTGATGGTCCTAGCGAGGGTGTCCCACGGGTTCTAGCGTGCTTTAGTAACgtaagtatac ... gtattttcagAATCTTCTGCGACGGGAGCCTCTCAAGCTTGTGGATGGTG