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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CACACTTAATTCCCGAAAAAACTCCTCGATCCATCTTCGTTTATTTCAGAGGATTGTTTTATGATGTGGGAAATGACCCTGAGGGTGGTTATTATGCGAGgtaatttttttcttatgaaagttcttagctattgttcataataaatttcataaatctcctaaaacagttcataattgctttatcggtttggaattttggacataaaactcaaaaaaggaaaatttatcagactgtttttagagccatggattgttcttataatcagtgatgatgtttgtttgtcaaactggcacag

Basic information

species Arabidopsis thaliana
transcript AT5G61840.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G61840.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os02g32110.1 (Oryza sativa), 5'ss of exon 3
CACACTTAATTCCCGAAAAAACTCCTCGATCCATCTTCGTTTATTTCAGAGGATTGTTTTATGATGTGGGAAATGACCCTGAGGGTGGTTATTATGCGAGgtaatttttttcttatgaaagttcttagctattgttcataataaatttcataaatctcctaaaacagttcataattgctttatcggtttggaattttggacataaaactcaaaaaaggaaaatttatcagactgtttttagagccatggattgttcttataatcagtgatgatgtttgtttgtcaaactggcacag
| ||||| |||||     | ||||| || || ||||| ||||| ||||||||  |||| |||||    || ||||||||||||||||| |||||||| ||||||            ||| |||   ||  |   || | |         ||| |||||||     | ||  |   |||||||| |  |  |    ||| || |   |  ||                                                                                     
CTCACTTGATTCCTCCTGATACTCCCCGTTCAATCTTTGTTTACTTCAGAGGCCTGTTCTATGACAATGGGAATGACCCTGAGGGTGGGTATTATGCAAGgtaa------------gaatgtttgcag--aaccttgaaag--------atacatctcctgtggtacttggtc-ctgctttattgactctg----ttgaacttgttatacag------------------------------------------------------------------------------------

upper sequence: AT5G61840.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA04G37920.1 (Glycine max), 5'ss of exon 3
CACACTTAATTCCCGAAAAAACTCCTCGATCCATCTTCGTTTATTTCAGAGGATTGTTTTATGATGTGGGAAATGACCCTGAGGGTGGTTATTATGCGAGgtaatttttttcttatgaaagttcttagctattgttcataataaatttcataaatctcctaaaacagttcataattgctttatcggtttggaattttggacataaaactcaaaaaaggaaaatttatcagactgtttttagagccatggattgttcttataatcagtgatgatgtttgtttgtcaaactggcacag
||||| ||||||| ||||| |||||  | ||||| || ||||| ||| ||||| ||||||||||||| |||||||||||||| ||||| || ||||| ||||| | | ||  |||| | |  ||  |  | |     |            | |  ||  | |     || ||  ||||   ||  || |||   ||  |||    ||||                                                                                       
CACACCTAATTCCTGAAAAGACTCCCAGGTCCATTTTTGTTTACTTCCGAGGACTGTTTTATGATGTTGGAAATGACCCTGAAGGTGGATACTATGCAAGgta-tgtcttatttattacaactcacaaatgtaaaggaggggtggacatgtgaggcttttca-----tttatttttgcagcat--gtctgg---ttaagaccactaacttg-------------------------------------------------------------------------------------

upper sequence: AT5G61840.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA06G17140.1 (Glycine max), 5'ss of exon 3
CACACTTAATTCCCGAAAAAACTCCTCGATCCATCTTCGTTTATTTCAGAGGATTGTTTTATGATGTGGGAAATGACCCTGAGGGTGGTTATTATGCGAGgtaatttttttcttatgaaagttcttagctattgttcataataaatttcataaatctcctaaaacagttcataattgctttatcggtttggaattttggacataaaactcaaaaaaggaaaatttatcagactgtttttagagccatggattgttcttataatcagtgatgatgtttgtttgtcaaactggcacag
||||| ||||||| ||||| |||||  | ||||| || ||||| ||  ||||| ||||||||||||| ||||||||||| || ||||| || ||||| ||||| | | ||  |||| | |   |  |  | |         |  || |  | |  ||  |       || ||  ||||   ||  |  ||    ||  |||    ||||                                                                                       
CACACCTAATTCCTGAAAAGACTCCCAGGTCCATTTTTGTTTACTTTCGAGGACTGTTTTATGATGTTGGAAATGACCCCGAAGGTGGATACTATGCAAGgta-tgtcttatttattacaacccacaaatttaaagaggggtggatat-gtgaggcttttcc-----tttatttttgcagcat--gcctg---cttcagaccactaacttgc------------------------------------------------------------------------------------

upper sequence: AT5G61840.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA05G33420.1 (Glycine max), 5'ss of exon 3
CACACTTAATTCCCGAAAAAACTCCTCGATCCATCTTCGTTTATTTCAGAGGATTGTTTTATGATGTGGGAAATGACCCTGAGGGTGGTTATTATGCGAGgtaatttttttcttatgaaagttcttagctattgttcataata---aatttcataaatctcctaaaacagttcataattgctttatcggtttggaattttggacataaaactcaaaaaaggaaaatttatcagactgtttttagagccatggattgttcttataatcagtgatgatgtttgtttgtcaaactggcacag
| ||| ||||||| || || |||||  | ||||| || || || ||| ||||| | ||||||||||| || ||||||||||| |||||||| ||||| |||||  | || |    |  |||||   ||     | ||  | |      | |  ||  | |   | |  | ||| | ||         |  ||| |   |   ||                                                                                               
CCCACCTAATTCCTGACAAGACTCCCAGGTCCATTTTTGTATACTTCCGAGGACTCTTTTATGATGTTGGCAATGACCCTGAAGGTGGTTACTATGCAAGgtaggtcttat----tacaagtttaaaggagggggtctgagtgtgtggtcttttatttatttcatattatttcttcataagaaagctgacttgcatcctattac-----------------------------------------------------------------------------------------------

upper sequence: AT5G61840.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv17s0000g00120.t01 (Vitis vinifera), 5'ss of exon 3
CACACTTAATTCCCGAAAAAACTCCTCGATCCATCTTCGTTTATTTCAGAGGATTGTTTTATGATGTGGGAAATGACCCTGAGGGTGGTTATTATGCGAGgtaatttttttcttatgaaagttcttagctattgttcataataaatttcataaatctcctaaaacagttcataattgctttatcggtttggaattttggacataaaactcaaaaaaggaaaatttatcagactgtttttagagccatggattgttcttataatcagtgatgatgtttgtttgtcaaactggcacag
| ||||| || ||   | | |||||| | || ||||| || || ||| |||||||||| |||||||| ||||||||||| || |||||||||||||| |||||     || || |    | || |||  | |||   | | |    |   || |  ||   ||    |    |||   ||||  |           || | | |    |  ||   |  | |                                                                          
CCCACTTGATCCCGCCAGACACTCCTAGGTCTATCTTTGTCTACTTCCGAGGATTGTTCTATGATGTAGGAAATGACCCAGAAGGTGGTTATTATGCAAGgta-----ttcctcac---aatttttatatgttg---acattggggtgtttagacatc--gaagtgatatgaaatatttttaatg---------catgtataaatcctttcaatgggagaga--------------------------------------------------------------------------

upper sequence: AT5G61840.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv01s0150g00180.t01 (Vitis vinifera), 5'ss of exon 3
CACACTTAATTCCCGAAAAAACTCCTCGATCCATCTTCGTTTATTTCAGAGGATTGTTTTATGATGTGGGAAATGACCCTGAGGGTGGTTATTATGCGAGgtaatttttttcttatgaaagttcttagctattgttcataataaatttcataaatctcctaaaacagttcataattgctttatcggtttggaattttggacataaaactcaaaaaaggaaaatttatcagactgtttttagagccatggattgttcttataatcagtgatgatgtttgtttgtcaaactggcacag
| ||| |||||||| || |||| ||||| |||||||||||||| ||| | || |||||||||||||||   ||||||||||| |||||||| ||||| |||||  |   ||      |  ||| ||     || ||| |      |||  |    ||| ||      || | |||||| ||     ||||  |   ||| ||    | |||| ||  |    |   |                                                                     
CCCACCTAATTCCCCAAGAAACCCCTCGGTCCATCTTCGTTTACTTCCGTGGTTTGTTTTATGATGTGAATAATGACCCTGAAGGTGGTTACTATGCAAGgtatgtgggtt------agtgttttt-----tttttcct------ttttcttttcctctta------ttgagaattgcattga-aatttgataccatgggca----attcaataataggggttaggtt--------------------------------------------------------------------

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|86040267|gb|DR336022.1|DR336022
EST:     GGATTGTTTTATGATGTGGGAAATGACCCTGAGGGTGGGTATTATGCGAG                         GGGTGCAAGAGCAGCTGTATGGGAAAAACTTCAAAGACAATCCGCTGGTTG
genomic: GGATTGTTTTATGATGTGGGAAATGACCCTGAGGGTGGTTATTATGCGAGgtaatttttt ... actggcacagGGGTGCAAGAGCAGCTGTATGGGAAAA-CTTCAAAGACAATCCGCTGTTTG
EST: gi|86040269|gb|DR336024.1|DR336024
EST:     GATTGTTTTATGATGTGGGAAATGACCCCTGAGGGTGGTTATTATGCGAG                         GGGTGCAAGAGCAGCTGTATGGGAAAACTTCAA-GACAATCCGCTGTTTGA
genomic: GATTGTTTTATGATGTGGGAAATGACCC-TGAGGGTGGTTATTATGCGAGgtaatttttt ... actggcacagGGGTGCAAGAGCAGCTGTATGGGAAAACTTCAAAGACAATCCGCTGTTTGA