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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGATGTTTATTCGTATGGGGTAATACTGTTGGAGCTTATAACTGGCCGTAAACCCGTAGATACGTCTCAACCACTTGGTGATGAGAGCCTTGTTGAATGGgtaagtgcagctctagttttaccatatttcttgaacttccatgattcaacaagtgtcttctaaccccctttggttacataacttttattag

Basic information

species Arabidopsis thaliana
transcript AT5G38560.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G38560.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os01g02040.1 (Oryza sativa), 5'ss of exon 6
AGATGTTTATTCGTATGGGGTAATACTGTTGGAGCTTATAACTGGCCGTAAACCCGTAGATACGTCTCAACCACTTGGTGATGAGAGCCTTGTTGAATGGgtaag-tgcagctctagttttaccatatttcttgaacttccatgattcaacaagtgtcttctaaccccctttggttacataacttttattag-----------
 ||||| |  || | ||| ||  | || || |||||||| || ||  | || || || ||  | ||  ||||| | |||||||||||||||||||| |||||||| |  | |  ||  |  |    |||| ||    ||  || ||  || | | || |  | |      |  |||  ||||  ||| |              
TGATGTATTCTCTTTTGGCGTTGTTCTCTTAGAGCTTATTACCGGTAGAAAGCCTGTTGACGCATCAAAACCATTGGGTGATGAGAGCCTTGTTGAGTGGgtaagctatatcagtaactagaaatcatttttt---tttagataatggaagatgagtatattgaaattagtatgttcaataagatttttgcccctgtatgatc

upper sequence: AT5G38560.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA18G51520.1 (Glycine max), 5'ss of exon 7
AGATGTTTATTCGTATGGGGTAATACTGTTGGAGCTTATAACTGGCCGTAAACCCGTAGATACGTCTCAACCACTTGGTGATGAGAGCCTTGTTGAATGGgtaagt-gcagctcta-gttttacc--atatttcttgaacttccatgatt-caacaagtgtcttctaaccccctttggttacataa-cttttattag---
 ||||| ||||| | ||||||  | || |||||||| || || || || || || |||||| | ||||||||| |||||||||||||||| ||||||||||| ||| |||     |  |||  |   | |||| ||  | |   || |||   |  |||              ||  || |   |  | | |||||    
TGATGTATATTCTTTTGGGGTTGTGCTTTTGGAGCTAATTACAGGTCGGAAGCCTGTAGATGCATCTCAACCAATTGGTGATGAGAGCCTGGTTGAATGGgtgagtcgcactcgcatatttcgcttaacatttgtttgattatgattattattattagtagtagtagtagtagttcagtgaaggattcctatattattat

upper sequence: AT5G38560.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA20G20300.1 (Glycine max), 5'ss of exon 10
AGATGTTTATTCGTATGGGGTAATACTGTTGGAGCTTATAACTGGCCGTAAACCCGTAGATACGTCTCAACCACTTGGTGATGAGAGCCTTGTTGAATGGgtaagt-gcagctctagttttaccatatttcttgaacttccatgatt--caacaagtgtcttctaac--------cccctttggttacataacttttattag-
 ||||| ||||| | ||||||  | || |||||||| || || || || || ||  ||||| | ||||||||| |||||||||||||||| ||||||||||| ||| |||  | | | || ||   |||| ||  | |   || |||   |  | | ||  |  |          ||  | |  |||  |||| |   || | 
TGATGTATATTCTTTTGGGGTTGTGCTTTTGGAGCTAATTACAGGTCGGAAGCCTATAGATGCATCTCAACCAATTGGTGATGAGAGCCTGGTTGAATGGgtgagtcgcatatttcgcttaac---atttgtttgattattattattattaggaggagtagttcagtgaaggattcctatattattatttaacatggctttgt

upper sequence: AT5G38560.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA08G28600.1 (Glycine max), 5'ss of exon 7
AGATGTTTATTCGTATGGGGTAATACTGTTGGAGCTTATAACTGGCCGTAAACCCGTAGATACGTCTCAACCACTTGGTGATGAGAGCCTTGTTGAATGGgtaagtgcagctctagttttaccatatttcttgaacttccatgattcaacaag-------tgtcttctaaccccctttggttacataacttttattag---
 ||||| ||||| | ||||||  | |||||||| || || || || || || || |||||| | ||||||||| | |||||||||||||| ||||||||||| |||       |     || ||||| | ||||       |  || |   |        ||| || | |       ||| |   ||  ||    ||    
TGATGTATATTCTTTTGGGGTTGTGCTGTTGGAACTAATTACAGGTCGGAAGCCGGTAGATGCATCTCAACCAATCGGTGATGAGAGCCTGGTTGAATGGgtgagtcacaaatttcccctaacatatgt-ttgattagtagtagtttagtgaaggattcctgtattattatttgacgtggcttagtaggttcagatattgt

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|116453654|gb|EG496246.1|EG496246
EST:     AACCCGTAGATACGTCTCAACCACTTGGTGATGAGAGCCTTGTTGAATGG                         GCAAGACCCTTGCTGGGTCAAGCAATCGAGAACGAAGAATTCGACGAGCTA
genomic: AACCCGTAGATACGTCTCAACCACTTGGTGATGAGAGCCTTGTTGAATGGgtaagtgcag ... cttttattagGCAAGACCCTTGCTGGGTCAAGCAATCGAGAACGAAGAATTCGACGAGCTA
EST: gi|116453643|gb|EG496235.1|EG496235
EST:     TACGTCTCAACCACTTGGTGATGAGAGCCTTGTTGAATGG                         GCAAGACCCTTGCTGGGTCAAGCAATCGAGAACGAAGAATTCGACGAGCTA
genomic: TACGTCTCAACCACTTGGTGATGAGAGCCTTGTTGAATGGgtaagtgcag ... cttttattagGCAAGACCCTTGCTGGGTCAAGCAATCGAGAACGAAGAATTCGACGAGCTA
EST: gi|116453662|gb|EG496254.1|EG496254
EST:     AACCCGTAGATACGTCTCAACCACTTGGTGATGAGAGCCTTGTTGAATGG                         GCAAGACCCTTGCTGGGTCAAGCAATCGAGAACGAAGAATTCGACGAGCTA
genomic: AACCCGTAGATACGTCTCAACCACTTGGTGATGAGAGCCTTGTTGAATGGgtaagtgcag ... cttttattagGCAAGACCCTTGCTGGGTCAAGCAATCGAGAACGAAGAATTCGACGAGCTA