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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TAATCCGAGTATGTATGCAAGTCAATGGTTCATCACCGTCTTCTCATACTCATTTCCTTTCCCTTTGGCTCTACGGATATGGGATGTGTTTCTCTCCGAGgtaactaaatgcgcatccttaaaatctctttaacgtttgttgtgatcaaagtttcattctgttatcttctatggtcattgtttcttaag

Basic information

species Arabidopsis thaliana
transcript AT3G02460.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G02460.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G047223_T02 (Zea mays), 5'ss of exon 6
TAATCCGAGTATGTATGCAAGTCAATGGTTCATCACCGTCTTCTCATACTCATTTCCTTTCCCTTTGGCTCTACGGATATGGGATGTGTTTCTCTCCGAGgtaactaaatgcgcatccttaaaatctctttaacgtttgttgtgatcaaagtttcattctgttatcttctatg-gtcattgtttcttaag----------
 || || || |||||||||||||||||||| ||||| || |||||||| || || || || | | |  ||||  |  | |||||||||||||| |  ||||| |  |  |   | | |   |  |   |||   ||||    ||  |   |  | |||    | |  | ||||    |||| ||| |||           
AAACCCAAGCATGTATGCAAGTCAATGGTTTATCACAGTTTTCTCATATTCCTTCCCATTTCATCTAACTCTTAGAGTTTGGGATGTGTTTCTTTATGAGgttagaatcttatcctgccatatgtgcattttgtgtttagattgcaccttgggttatttgacttttctttatgcactattgcttcataaatggtatagtc

upper sequence: AT3G02460.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv14s0083g00540.t01 (Vitis vinifera), 5'ss of exon 6
TAATCCGAGTATGTATGCAAGTCAATGGTTCATCACCGTCTTCTCATACTCATTTCCTTTCCCTTTGGCTCTACGGATATGGGATGTGTTTCTCTCCGAGgtaactaaatgcgcatccttaaaatctctttaacgtttgttgtgatcaaagtttcattctgttatcttctatggtcattgtttcttaag---
 |  || || |||||||||||||| |||||||| || || ||||||||||| || || |||| ||||||||| || || |||||||| ||||| |  ||||| | |             ||||| ||| ||||  | |    |   ||   ||  ||| ||||   |   |   |  || || |||  |   
AAGCCCTAGCATGTATGCAAGTCAGTGGTTCATAACTGTTTTCTCATACTCTTTCCCATTCCATTTGGCTCTTCGAATTTGGGATGTCTTTCTTTATGAGgttagtgg---------tctaaaagctcattaaattctccaataggcaccatt--attttgtt--ttaggaacatttttattccttgggcag

upper sequence: AT3G02460.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: PP1S15_13V6.1 (Physcomitrella patens), 5'ss of exon 5
TAATCCGAGTATGTATGCAAGTCAATGGTTCATCACCGTCTTCTCATACTCATTTCCTTTCCCTTTGGCTCTACGGATATGGGATGTGTTTCTCTCCGAGgtaactaaatgcgcatccttaaaatctcttt-aacgtttgttgtgatcaaagtttcattctgttatcttctatggtcattgtttcttaag--------------
 ||||| || |||||||| ||||||||||||||||||||||| |||||||| || |||||| | || ||||| ||||| |||||||||||  |   ||||||  ||   |||  |  |||    || |||| | |   | ||   |       | |||  |   |   || | | ||||   || |  ||              
AAATCCAAGCATGTATGCTAGTCAATGGTTCATCACCGTCTTTTCATACTCCTTCCCTTTCTCCTTAGCTCTGCGGATTTGGGATGTGTTCTTACACGAGgtttct---tgcttactcttcctctccctttcagcagctctttacacgtgttatgcatctttgcaatgtcca-gttcatgtcttgtagagaagtctggataatc

upper sequence: AT3G02460.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: PP1S263_22V6.1 (Physcomitrella patens), 5'ss of exon 6
TAATCCGAGTATGTATGCAAGTCAATGGTTCATCACCGTCTTCTCATACTCATTTCCTTTCCCTTTGGCTCTACGGATATGGGATGTGTTTCTCTCCGAGgtaa---ctaaatgcgcatccttaaaatctctttaacgtttgt-tgtgatcaaagtttcattctgttatcttctatggtcattgtttcttaag---------
||||||||| ||||| || ||||||||||||||||| ||||| || ||||| || || ||| |  ||||  | ||||| |||||||| || || | ||||||     || ||| |     ||     | |  |    |  |   ||||| |||  | ||||   ||| |    |  |    || ||    ||          
TAATCCGAGCATGTACGCTAGTCAATGGTTCATCACAGTCTTTTCTTACTCCTTCCCCTTCTCGCTGGCCTTGCGGATTTGGGATGTATTCCTGTTCGAGgttttttctcaattcctcctctcttgtttttatagctgcgtacatgtga-caagctctcatgaagtt-tgcagttcgacttttattcaggaaagctttagta

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|86080576|gb|DR376333.1|DR376333
EST:     GATGTGTTTCTCTCCGAG                         GGTGTTAAAATCGTGTTCAAAGTGGGCTTAGCATTGCTCAAGTATTGCCAA
genomic: GATGTGTTTCTCTCCGAGgtaactaaat ... gtttcttaagGGTGTTAAAATCGTGTTCAAAGTGGGCTTAGCATTGCTCAAGTATTGCCAA
EST: gi|125229890|gb|EL243975.1|EL243975
EST:     CATTTCCTTTCCCTTTGGCTCTACGGATATGGGATGTGTTTCTCTCCGAG                         GGTGTTAAAATCGTGTTCAAAGTGGG
genomic: CATTTCCTTTCCCTTTGGCTCTACGGATATGGGATGTGTTTCTCTCCGAGgtaactaaat ... gtttcttaagGGTGTTAAAATCGTGTTCAAAGTGGG