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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGTACGACCTTTTAACTGGATTGGACCTAGGATGGATTTCATCCCCGGCATTGATGGTCCTAGCGAAGGTGTCCCACGTGTCCTTGCCTGCTTTAGTAACgtaagtgttcaaatccaagtatataacccaatgctagtctgtgtatatatgcaagcttttagttaatgcatctctatctatctttcag

Basic information

species Arabidopsis thaliana
transcript AT2G27860.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G27860.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G063949_T01 (Zea mays), 5'ss of exon 5
CGTACGACCTTTTAACTGGATTGGACCTAGGATGGATTTCATCCCCGGCATTGATGGTCCTAGCGAAGGTGTCCCACGTGTCCTTGCCTGCTTTAGTAACgtaagtgttcaaat--ccaagtatataacccaatgctagt---ctgtgtat-atatgcaagctt-ttagttaatgcat--ctctatctatctttcag
|||  ||||||| || ||||||||||| |||||||| ||||| || ||  ||||||||||||| |||||||| || || ||  | || ||||| ||||||||||||||||   |  |   ||    | |   ||  || |    | || |  || | ||  ||| | ||   |||||     | |    | || |||
CGTGAGACCTTTCAATTGGATTGGACCAAGGATGGACTTCATTCCTGGTGTTGATGGTCCTAGTGAAGGTGTGCCTCGGGTTTTGGCTTGCTTCAGTAACgtaagtgttcttgtttcttggtgaggatcattatcttaattatttatgcaccatgttcagtcttctcagaagatgcacggtaccaatggttttgcag

upper sequence: AT2G27860.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G167872_T02 (Zea mays), 5'ss of exon 3
CGTACGACCTTTTAACTGGATTGGACCTAGGATGGATTTCATCCCCGGCATTGATGGTCCTAGCGAAGGTGTCCCACGTGTCCTTGCCTGCTTTAGTAACgtaagtgt--tcaaatccaagtatataacccaatgctagtctgtgtatatatgca----agcttttagttaatgcatctctatctatctttcag
|||  |||||||||| |||||||| || |||||||||||||| || ||  | ||||||||||| || ||||| || || || || || ||||| ||||||||| |||   |    |     | |||   |  |   | ||  |  ||  | ||||    ||| ||    | | | |  |  ||   | || |||
CGTGAGACCTTTTAATTGGATTGGGCCAAGGATGGATTTCATTCCTGGTGTCGATGGTCCTAGTGAGGGTGTACCCCGGGTGCTGGCTTGCTTCAGTAACgtatgtgcacttgtttttttatttattttctgagtatggttggcttaattttgcaccatagcattcttctga-gaagatgcatg-gttttgcag

upper sequence: AT2G27860.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA12G08930.1 (Glycine max), 5'ss of exon 5
CGTACGACCTTTTAACTGGATTGGACCTAGGATGGATTTCATCCCCGGCATTGATGGTCCTAGCGAAGGTGTCCCACGTGTCCTTGCCTGCTTTAGTAACgtaagtgttcaaatccaagtatataacccaatgctagtctgtgtatatatgcaagctttt---agttaatgcatctctatctatctttcag---------
 ||  | ||||||||||||||||||||| | ||||||||||| || |||||||||||||| || || ||||| || || || ||||| |||||||| || || |||     | |     ||| |      | | |  |   ||  | ||  ||   ||||   | ||  | ||    | ||| | || |           
TGTGAGGCCTTTTAACTGGATTGGACCTCGAATGGATTTCATTCCTGGCATTGATGGTCCAAGTGAGGGTGTTCCTCGGGTTCTTGCATGCTTTAGCAATgtcagttacttacttttgctatgt----tgaagtttttagatgattttagccagagttttgaaaatttgttcaaaattttctgttttcctttgtctgcag

upper sequence: AT2G27860.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA17G05440.1 (Glycine max), 5'ss of exon 3
CGTACGACCTTTTAACTGGATTGGACCTAGGATGGATTTCATCCCCGGCATTGATGGTCCTAGCGAAGGTGTCCCACGTGTCCTTGCCTGCTTTAGTAACgtaagtgttcaaatccaagtatataacccaatgctagtctgtgtatat--------atgcaagcttttagttaatgcatctctatctatctttcag-------------
 ||  |||||||||| |||||||||||  | ||||||||||| ||||||||||||||||| || || ||||| || || || || || |||||||| || || |||  | | ||     | ||  ||    |   ||  ||| |||||         |  |   |||||  |||||  |||  || | |  ||||              
TGTGAGACCTTTTAATTGGATTGGACCACGAATGGATTTCATTCCCGGCATTGATGGTCCAAGTGAGGGTGTTCCTCGGGTTCTGGCATGCTTTAGCAATgtgagt--ttacattttgattta-gactttgtttaagcttgtatatattgttgttagtcaatatttttaaataatgattctaaatattttcttcatttcttttctgtag

upper sequence: AT2G27860.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA11G19550.1 (Glycine max), 5'ss of exon 5
CGTACGACCTTTTAACTGGATTGGACCTAGGATGGATTTCATCCCCGGCATTGATGGTCCTAGCGAAGGTGTCCCACGTGTCCTTGCCTGCTTTAGTAACgtaagtgttcaaatccaagtatataacccaatgctagtctgtgtatatat--gcaagcttttagttaatgcatct---ctatctatctttcag---------
 ||| | || |||||||||||||||||| | ||||||||||| || || ||||||||||| || || ||||| || || || ||||| |||||||| || || |||     | |     |||         |   ||| |||  |||| |  ||  |  ||| |  |||   |      | ||| | || |           
TGTAAGGCCATTTAACTGGATTGGACCTCGAATGGATTTCATTCCTGGGATTGATGGTCCAAGTGAGGGTGTTCCTCGGGTTCTTGCTTGCTTTAGCAATgtcagttacttacttttgctattgctttttgttgaagtttgttgatattttagccggagttttgaaaatttgttcaaattttctgttttcctttgtctgcag

upper sequence: AT2G27860.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA12G30490.2 (Glycine max), 5'ss of exon 5
CGTACGACCTTTTAACTGGATTGGACCTAGGATGGATTTCATCCCCGGCATTGATGGTCCTAGCGAAGGTGTCCCACGTGTCCTTGCCTGCTTTAGTAACgtaagtgttcaaatccaagtata-taacccaatgctagtctgtgtatatatgcaagcttttagttaatgcatctctatctatctttcag-------------
 ||  | |||||||| |||||||||||  | ||||||||||| |||||||||||||| || || || ||||| || || || || || |||||||| || || ||| | ||  |  |  || | |      | ||| || | | | |   |  |   |||| | |||||  |||  || | |  | ||              
TGTGAGGCCTTTTAATTGGATTGGACCACGAATGGATTTCATTCCCGGCATTGATGGCCCAAGTGAGGGTGTTCCTCGGGTTCTGGCATGCTTTAGCAATgtgagtttacattttgatttagactttgtttaagcttgtatatatgttactcgatatttttggataatgattctaaatattttctccattccttttctgtag

upper sequence: AT2G27860.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv06s0061g01120.t01 (Vitis vinifera), 5'ss of exon 5
CGTACGACCTTTTAACTGGATTGGACCTAGGATGGATTTCATCCCCGGCATTGATGGTCCTAGCGAAGGTGTCCCACGTGTCCTTGCCTGCTTTAGTAACgtaagtgttcaaatccaagtatataacccaatgctagtctgtgtatatatgcaagcttttagttaatgcatctctatctatctttcag---
 ||  | || |||||||||||||| || || |||||||| || || |||||||||||||||||||| || || ||| | || || || ||||| ||||| || ||| |||||   |    |||  |   | |  || | | | | | | |     |||     | ||    |||| | | ||   ||    
TGTGAGGCCCTTTAACTGGATTGGGCCCAGAATGGATTTTATTCCTGGCATTGATGGTCCTAGCGAGGGCGTTCCAAGGGTTCTGGCATGCTTCAGTAATgttagt-ttcaacatctgtcataacatttagtagtattttttttcttttt-----cttactactgatcttgctctttttctcccacaatag

upper sequence: AT2G27860.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv03s0017g00680.t01 (Vitis vinifera), 5'ss of exon 5
CGTACGACCTTTTAACTGGATTGGACCTAGGATGGATTTCATCCCCGGCATTGATGGTCCTAGCGAAGGTGTCCCACGTGTCCTTGCCTGCTTTAGTAACgtaagtgttcaaatccaagtatataacccaatgctagtctgtgtatatatgcaagcttttagttaatgcatctctatctatctttcag-------
 ||  | ||||||||||||||||| ||||| ||||||||||| || ||||||||||||||||| |||||||| ||| | || || || ||||| || || || ||| |||||   |    |||  |     || | |   || | | | | ||   |||| ||   || ||||   ||| | | ||         
TGTGAGGCCTTTTAACTGGATTGGGCCTAGAATGGATTTCATTCCTGGCATTGATGGTCCTAGTGAAGGTGTTCCAAGGGTTCTGGCATGCTTCAGCAATgttagt-ttcaacatctgtcataacatggcttgtttggtagtattt-ttttcattttttttgtctctg-atcttgctctttttctcccaccgtag

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|116380179|gb|EG422771.1|EG422771
EST:     TTGATGGTCCTAGCGAAGGTGTCCCACGTGTCCTTGCCTGCTTTAGTAAC                         AATCTTCTACGTCGTGAGCCCCTCAAGCTTGTAGATGGTGGAGAATCACAG
genomic: TTGATGGTCCTAGCGAAGGTGTCCCACGTGTCCTTGCCTGCTTTAGTAACgtaagtgttc ... tatctttcagAATCTTCTACGTCGTGAGCCTCTCAAGCTTGTAGATGGTGGAGAATCACAG
EST: gi|116422972|gb|EG465564.1|EG465564
EST:     TTGATGGTCCTAGAGAAGGTGTCCCACGTGTCCTTGCCTGCTTTAGTAAC                         AATCTTCTACGTCGTGAGCCTCTCAAGCTTGTAGATGGTGGAGAATCACAG
genomic: TTGATGGTCCTAGCGAAGGTGTCCCACGTGTCCTTGCCTGCTTTAGTAACgtaagtgttc ... tatctttcagAATCTTCTACGTCGTGAGCCTCTCAAGCTTGTAGATGGTGGAGAATCACAG
EST: gi|125264093|gb|EL278178.1|EL278178
EST:     TTGATGGTCCTAGCGAAGGTGTCCCACGTGTCCTTGCCTGCTTTAGTAAC                         AATCTTCTACG
genomic: TTGATGGTCCTAGCGAAGGTGTCCCACGTGTCCTTGCCTGCTTTAGTAACgtaagtgttc ... tatctttcagAATCTTCTACG
EST: gi|125209151|gb|EL224105.1|EL224105
EST:     TTGATGGTCCTAGCGAAGGTGTCCCACGTGTCCTTGCCTGCTTTAGTAAC                         AATCTTCTACGTCGTGAGCCTCTCAAGCTTGTAGATGGTGGAGAATCACAG
genomic: TTGATGGTCCTAGCGAAGGTGTCCCACGTGTCCTTGCCTGCTTTAGTAACgtaagtgttc ... tatctttcagAATCTTCTACGTCGTGAGCCTCTCAAGCTTGTAGATGGTGGAGAATCACAG
EST: gi|125265866|gb|EL279951.1|EL279951
EST:     CCTGCTTTAGTAAC                         AATCTTCTACGTCGTGAGCCTCTCAAGCTTGTAGATGGTGGAGAATCACAG
genomic: CCTGCTTTAGTAACgtaagtgttc ... tatctttcagAATCTTCTACGTCGTGAGCCTCTCAAGCTTGTAGATGGTGGAGAATCACAG
EST: gi|124804521|gb|EH892276.1|EH892276
EST:     GATGGTCCTAGCGAAGGTGTCCCACGTGTCCTTGCCTGCTTTAGTAAC                         AATCTTCTACGTCGTGAGCCTCTCAAG
genomic: GATGGTCCTAGCGAAGGTGTCCCACGTGTCCTTGCCTGCTTTAGTAACgtaagtgttc ... tatctttcagAATCTTCTACGTCGTGAGCCTCTCAAG
EST: gi|116380174|gb|EG422766.1|EG422766
EST:     TTGATGGTCCTAGCGAAGGTGTCCCACGTGTCCTTGCCTGCTTTAGTAAC                         AATCTTCTACGTCGTGAGCCTCTCAAGCTTGTAGATGGTGGAGAATCACAG
genomic: TTGATGGTCCTAGCGAAGGTGTCCCACGTGTCCTTGCCTGCTTTAGTAACgtaagtgttc ... tatctttcagAATCTTCTACGTCGTGAGCCTCTCAAGCTTGTAGATGGTGGAGAATCACAG
EST: gi|125062039|gb|EL130536.1|EL130536
EST:     TTGATGGTCCTAGCGAAGGTGTCCCACGTGTCCTTGCCTGCTTTAGTAAC                         AATCTTCTACGTCGTGAGCCTCT
genomic: TTGATGGTCCTAGCGAAGGTGTCCCACGTGTCCTTGCCTGCTTTAGTAACgtaagtgttc ... tatctttcagAATCTTCTACGTCGTGAGCCTCT