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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGAGCTGCAATCATCAAGGCGAGGAAGTTGTCTAGTGCGCTCTCTGCTGCTAGCTCTGCTTGTGACCACATCCGTGACTGGGTCCTTGGAACTCCAGAGgttcataataaaactcttccccgttatttgcagtgctgtttttttgtaacagttaatctaatatgagttctttctttgattcaaattgtcag

Basic information

species Arabidopsis thaliana
transcript AT1G04410.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G04410.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os10g33800.3 (Oryza sativa), 5'ss of exon 4
TGGAGCTGCAATCATCAAGGCGAGGAAGTTGTCTAGTGCGCTCTCTGCTGCTAGCTCTGCTTGTGACCACATCCGTGACTGGGTCCTTGGAACTCCAGAGgttcataataaaactc----ttccccgttatttgcagtgctgtttttttgtaacagttaatctaatatgagttctttctttgattcaaattgtcag-------------
||| || || ||||||||||||||||||   || ||||| || |||||||| |||||||| || || ||||| ||||||||||| ||||| ||||| |||||   |        |     ||||  ||  ||| |       |||  ||   ||| ||     |||  |       |  || ||  | |   |||              
TGGTGCCGCCATCATCAAGGCGAGGAAGCAATCCAGTGCCCTATCTGCTGCCAGCTCTGCATGCGATCACATTCGTGACTGGGTTCTTGGCACTCCTGAGgtctgtttggccttttgacattccatgtcttttcctcctaattttactttagacatttccctcaattcggtcctaattattcatcaacacgttcaacttttcaccacag

upper sequence: AT1G04410.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G415359_T03 (Zea mays), 5'ss of exon 2
TGGAGCTGCAATCATCAAGGCGAGGAAGTTGTCTAGTGCGCTCTCTGCTGCTAGCTCTGCTTGTGACCACATCCGTGACTGGGTCCTTGGAACTCCAGAGgttcataataaaactcttccccgtt-atttgcagtgctgtttttttgtaacagttaatctaatatgagttctttctttgattcaaattgtcag
||| ||||||||||| || ||||| ||||| || ||||| ||||| |||||||||||||||||||||||||| ||||| ||||| |||||||| || |||||       |   || | | || ||   ||    |  | ||   || |||  || ||  |  ||| |     |||  |  ||   |||||   
TGGTGCTGCAATCATTAAAGCGAGAAAGTTCTCCAGTGCTCTCTCGGCTGCTAGCTCTGCTTGTGACCACATTCGTGATTGGGTTCTTGGAACACCTGAGgtcagcttcagttctttgctccttttgattcttttagttttaacttttaaatgtgaacttg-tatcaacatcttcagttctttttattgtag-

upper sequence: AT1G04410.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G415359_T01 (Zea mays), 5'ss of exon 5
TGGAGCTGCAATCATCAAGGCGAGGAAGTTGTCTAGTGCGCTCTCTGCTGCTAGCTCTGCTTGTGACCACATCCGTGACTGGGTCCTTGGAACTCCAGAGgttcataataaaactcttccccgtt-atttgcagtgctgtttttttgtaacagttaatctaatatgagttctttctttgattcaaattgtcag---------------------
||| ||||||||||| || ||||| ||||| || ||||| ||||| |||||||||||||||||||||||||| ||||| ||||| |||||||| || |||||       |   || | | || ||   ||    |  | ||   || |||  || ||  |  ||| |     |||  |  ||   |||||  |                     
TGGTGCTGCAATCATTAAAGCGAGAAAGTTCTCCAGTGCTCTCTCGGCTGCTAGCTCTGCTTGTGACCACATTCGTGATTGGGTTCTTGGAACACCTGAGgtcagcttcagttctttgctccttttgattcttttagttttaacttttaaatgtgaacttg-tatcaacatcttcagttctttttattgtagggtacatttgtttccatgggtg

upper sequence: AT1G04410.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv07s0005g03360.t01 (Vitis vinifera), 5'ss of exon 5
TGGAGCTGCAATCATCAAGGCGAGGAAGTTGTCTAGTGCGCTCTCTGCTGCTAGCTCTGCTTGTGACCACATCCGTGACTGGGTCCTTGGAACTCCAGAGgtt----cataataaaactcttcc--ccgt-tatttgcagtgctgtttttttgtaacagttaatctaatatgagttctttctttgattcaaattgtcag
||| |||||||| ||||| ||  | ||| | || |||||  | |||||||| ||  |||| |||||||| |||||||| ||||| ||||||||||||||||||      |  ||   || || |  | || || || ||||  |   || | ||    ||  |||| ||     |  |||  |   | ||| ||  |||
TGGTGCTGCAATTATCAAAGCACGAAAGCTCTCGAGTGCTTTATCTGCTGCAAGTGCTGCATGTGACCATATCCGTGATTGGGTGCTTGGAACTCCAGAGgttgttttctgttagtgcttttacatctgtatacttccagtaatagattgt-gtg-tggtgtatctgatgcatttgattttctccttgcaactt--cag

upper sequence: AT1G04410.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv07s0005g03350.t01 (Vitis vinifera), 5'ss of exon 6
TGGAGCTGCAATCATCAAGGCGAGGAAGTTGTCTAGTGCGCTCTCTGCTGCTAGCTCTGCTTGTGACCACATCCGTGACTGGGTCCTTGGAACTCCAGAGgtt----cataataaaactcttcc--ccgt-tatttgcagtgctgtttttttgtaacagttaatctaatatgagttctttctttgattcaaattgtcag
||| |||||||| ||||| ||  | ||| | || |||||  | |||||||| ||  |||| |||||||| |||||||| ||||| ||||||||||||||||||    | |  ||   || || |  | || |  || ||||  |   || | ||    ||  |||| ||     |  |||  |   | | | ||   ||
TGGTGCTGCAATTATCAAAGCACGAAAGCTCTCGAGTGCTTTATCTGCTGCAAGTGCTGCATGTGACCATATCCGTGATTGGGTGCTTGGAACTCCAGAGgttgtttcttgttagtgcttttacatctgtatgcttccagtaatagattgt-gtg-tggtgtatctgatgcatttgattttctccttgcgactt--tag

upper sequence: AT1G04410.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: PP1S235_81V6.1 (Physcomitrella patens), 5'ss of exon 5
TGGAGCTGCAATCATCAAGGCGAGGAAGTTGTCTAGTGCGCTCTCTGCTGCTAGCTCTGCTTGTGACCACATCCGTGACTGGGTCCTTGGAACTCCAGAGgt-tcat---------aataaaactcttccc---cgttatttgcagtgctgtttttttgtaacagttaatctaata----tgagttctttctttgattcaaattgtcag-----------------------------------------------
 || || || |||||||||||  | ||| | || ||||| || ||||| || |||||||||||||||||||||||||||||||| || || |||||  |||| |||          |  | | | ||||     |   |     |  |    | |    ||   |||    |  |     ||  || |  | ||  ||   ||                                                     
AGGTGCAGCTATCATCAAGGCTCGCAAGCTTTCAAGTGCCCTTTCTGCGGCCAGCTCTGCTTGTGACCACATCCGTGACTGGGTTCTAGGCACTCCCAAGgtatcactttttgaagagaacagcgcttctgaaacaaaaaagaaaaaggaaatctgacttatgggttggcttggtgcagttggcttataaccttcttttcgatcacggcactgttgattttgcttttggattctaatagattttgccgtgtttcag

upper sequence: AT1G04410.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: EFJ07542 (Selaginella moellendorffii), 5'ss of exon 5
TGGAGCTGCAATCATCAAGGCGAGGAAGTTGTCTAGTGCGCTCTCTGCTGCTAGCTCTGCTTGTGACCACATCCGTGACTGGGTCCTTGGAACTCCAGAGgttcataataaaactcttccccgttatttgcagtgctgtttttttgtaacagttaatctaatatgagttctttctttgattcaaattgtcag
||| |||||||| |||||||| |||||| | || ||||| || |||||||| || ||||| |||||||| |||||||||||||| || ||||||||  |||||   | | |||  ||||||   |   |  | ||||   |  ||   | | |  |                                    
TGGTGCTGCAATTATCAAGGCAAGGAAGCTCTCCAGTGCACTGTCTGCTGCAAGTTCTGCGTGTGACCATATCCGTGACTGGGTGCTGGGAACTCCCAAGgtttgaagtcaaaaacttccct-ctggctctattgctaactccttcggaaattgcag-----------------------------------

upper sequence: AT1G04410.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: EFJ10745 (Selaginella moellendorffii), 5'ss of exon 5
TGGAGCTGCAATCATCAAGGCGAGGAAGTTGTCTAGTGCGCTCTCTGCTGCTAGCTCTGCTTGTGACCACATCCGTGACTGGGTCCTTGGAACTCCAGAGgttcataataaaactcttccccgttatttgcagtgctgtttttttgtaacagttaatctaatatgagttctttctttgattcaaattgtcag
||| |||||||| |||||||| |||||| | || ||||| || |||||||| || ||||| |||||||| |||||||||||||| || ||||||||  |||||   | | |||  ||||||   |   |  | ||||   |  |||  | | |  |                                    
TGGTGCTGCAATTATCAAGGCAAGGAAGCTCTCCAGTGCACTGTCTGCTGCAAGTTCTGCGTGTGACCATATCCGTGACTGGGTGCTGGGAACTCCCAAGgtttgaagtcaaaaacttccct-ctggctctattgctaactccttgggaaattgcag-----------------------------------

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|124944980|gb|EL021030.1|EL021030
EST:     CTAGCCCTGCTTGTGACCACATCCGTGACTGGGTCCTTGGAACTCCAGAG                         GGTACGTTCGTTTCC
genomic: CTAGCTCTGCTTGTGACCACATCCGTGACTGGGTCCTTGGAACTCCAGAGgttcataata ... aaattgtcagGGTACGTTCGTTTCC
EST: gi|124799956|gb|EH889621.1|EH889621
EST:     CCTTGGAACTCCAGAG                         GGTACGTTCGTTTCCATGGGAGTATACTCCGATGGCTCTTACAGCGTTCCA
genomic: CCTTGGAACTCCAGAGgttcataata ... aaattgtcagGGTACGTTCGTTTCCATGGGAGTATACTCCGATGGCTCTTACAGCGTTCCA
EST: gi|124735972|gb|EH827374.1|EH827374
EST:     CTGCTTGTGACCACATCCGTGACTGGGTCCTTGGAACTCCAGAG                         GGTACGTTCGTTTCCATGGGAGTATACTCCGATGGCTCTTACAGCGTTCCA
genomic: CTGCTTGTGACCACATCCGTGACTGGGTCCTTGGAACTCCAGAGgttcataata ... aaattgtcagGGTACGTTCGTTTCCATGGGAGTATACTCCGATGGCTCTTACAGCGTTCCA
EST: gi|125271053|gb|EL285138.1|EL285138
EST:     CTAGCTCTGCTTGTGACCACATCCGTGACTGGGTCCTTGGAACTCCAGAG                         GGTACGTTCGTTTCCATGGGAGTATACTCCGATGGCT
genomic: CTAGCTCTGCTTGTGACCACATCCGTGACTGGGTCCTTGGAACTCCAGAGgttcataata ... aaattgtcagGGTACGTTCGTTTCCATGGGAGTATACTCCGATGGCT
EST: gi|125202375|gb|EL217329.1|EL217329
EST:     CTAGCTCTGCTTGTGACCACATCCGTGACTGGGTCCTTGGAACTCCAGAG                         GGTACGTTCGTTTCCATGGGAGTATACTCCGATGGCTCTTACAG
genomic: CTAGCTCTGCTTGTGACCACATCCGTGACTGGGTCCTTGGAACTCCAGAGgttcataata ... aaattgtcagGGTACGTTCGTTTCCATGGGAGTATACTCCGATGGCTCTTACAG
EST: gi|125299579|gb|EL313664.1|EL313664
EST:     CTAGCTCTGCTCGTGACCACATCCGTGACTGGGTCCTTGGAACTCCAGAG                         GGTACGTTCGTTTCCA
genomic: CTAGCTCTGCTTGTGACCACATCCGTGACTGGGTCCTTGGAACTCCAGAGgttcataata ... aaattgtcagGGTACGTTCGTTTCCA
EST: gi|116378554|gb|EG421146.1|EG421146
EST:     CTAGCTCTGCTTGTGACCACATCCGTGACTGGGTCCTTGGAACTCCAGAG                         GGTACGTTCGTTTCCATGGGAGTATACTCCGATGGCTCTTACAGCGTTCCA
genomic: CTAGCTCTGCTTGTGACCACATCCGTGACTGGGTCCTTGGAACTCCAGAGgttcataata ... aaattgtcagGGTACGTTCGTTTCCATGGGAGTATACTCCGATGGCTCTTACAGCGTTCCA
EST: gi|164153100|gb|EL993290.1|EL993290
EST:     TCCGTGACTGGGTCCTTGGAACTCCAGAG                         GGTACGTTCGTTTCCATGGGAGTATACTCCGATGGCTCTTACAGCGTTCCA
genomic: TCCGTGACTGGGTCCTTGGAACTCCAGAGgttcataata ... aaattgtcagGGTACGTTCGTTTCCATGGGAGTATACTCCGATGGCTCTTACAGCGTTCCA
EST: gi|116378552|gb|EG421144.1|EG421144
EST:     CTAGCTCTGCTTGTGACCACATCCGTGACTGGGTCCTTGGAACTCCAGAG                         GGTACGTTCGTTTCCATGGGAGTATACTCCGATGGCTCTTACAGCGTTCCA
genomic: CTAGCTCTGCTTGTGACCACATCCGTGACTGGGTCCTTGGAACTCCAGAGgttcataata ... aaattgtcagGGTACGTTCGTTTCCATGGGAGTATACTCCGATGGCTCTTACAGCGTTCCA
EST: gi|125019218|gb|EL091487.1|EL091487
EST:     TGACTGGGTCCTTGGAACTCCAGAG                         GGTACGTTCGTTTCCATGGGAAGTATACTCCGATGGCTCTTACAGCGTTCC
genomic: TGACTGGGTCCTTGGAACTCCAGAGgttcataata ... aaattgtcagGGTACGTTCGTTTCCATGGGA-GTATACTCCGATGGCTCTTACAGCGTTCC
EST: gi|124902534|gb|EH976614.1|EH976614
EST:     CTTGTGACCACATCCGTGACTGGGTCCTTGGAACTCCAGAG                         GGTACGTTCGTTTCCATGGGAGTATACTCCGATGGCTCTTAC
genomic: CTTGTGACCACATCCGTGACTGGGTCCTTGGAACTCCAGAGgttcataata ... aaattgtcagGGTACGTTCGTTTCCATGGGAGTATACTCCGATGGCTCTTAC
EST: gi|86081490|gb|DR377247.1|DR377247
EST:     CTAGCTCTGCTTGTGACCACATCCGTGACTGGGTCCTTGGAACTCCAGAG                         GGTACGTTCGTTTCCATGGGAGTATACTCCGATGGCTCTTACAGCGTTCCA
genomic: CTAGCTCTGCTTGTGACCACATCCGTGACTGGGTCCTTGGAACTCCAGAGgttcataata ... aaattgtcagGGTACGTTCGTTTCCATGGGAGTATACTCCGATGGCTCTTACAGCGTTCCA
EST: gi|116469998|gb|EG512590.1|EG512590
EST:     CTAGCTCTGCTTGTGACCACATCCGTGACTGGGTCCTTGGAACTCCAGAG                         GGTACGTTCGTTTCCATGGGAGTATACTCCGATGGCTCTTACAGCGTTCCA
genomic: CTAGCTCTGCTTGTGACCACATCCGTGACTGGGTCCTTGGAACTCCAGAGgttcataata ... aaattgtcagGGTACGTTCGTTTCCATGGGAGTATACTCCGATGGCTCTTACAGCGTTCCA
EST: gi|86080897|gb|DR376654.1|DR376654
EST:     CTAGCTCTGCTTGTGACCACATCCGTGACTGGGTCCTTGGAACTCCAGAG                         GGTACGTTCGTTTCCATGGGAGTATACTCCGATGGCTCTTACAGCGTTCCA
genomic: CTAGCTCTGCTTGTGACCACATCCGTGACTGGGTCCTTGGAACTCCAGAGgttcataata ... aaattgtcagGGTACGTTCGTTTCCATGGGAGTATACTCCGATGGCTCTTACAGCGTTCCA
EST: gi|125299265|gb|EL313350.1|EL313350
EST:     CTAGCTCTGCTTGTGACCACANCCGTGACTGGGTCCTTGGAACTCCAGAG                         GGTACGTTCGTTTCCATGGGAGTATACTCCGATGGCTCTTACAGCGTTCCA
genomic: CTAGCTCTGCTTGTGACCACATCCGTGACTGGGTCCTTGGAACTCCAGAGgttcataata ... aaattgtcagGGTACGTTCGTTTCCATGGGAGTATACTCCGATGGCTCTTACAGCGTTCCA
EST: gi|116376802|gb|EG419394.1|EG419394
EST:     CTAGCTCTGCTTGTGACCACATCCGTGACTGGGTCCTTGGAACTCCAGAG                         GGTACGTTCGTTTCCATGGGAGTATACTCCGATGGCTCTTACAGCGTTCCA
genomic: CTAGCTCTGCTTGTGACCACATCCGTGACTGGGTCCTTGGAACTCCAGAGgttcataata ... aaattgtcagGGTACGTTCGTTTCCATGGGAGTATACTCCGATGGCTCTTACAGCGTTCCA