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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAGCTTGTATCCACCCTTTCTTTGATGAGCTAAGAGACCCAAATGCTCGTCTGCCAAACGGCCGGCCACTTCCTCCGCTATTCAATTTTAAACCACAAGgtaaggttctgttatttgcttcttcttttttccgtgttaaattctttataagggaagaaaattagtatgtgttattgataagcgtgtgtcctacag

Basic information

species Arabidopsis thaliana
transcript AT1G57870.1
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G57870.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: GRMZM2G138676_T05 (Zea mays), 5'ss of exon 11
GAAGCTTGTATCCACCCTTTCTTTGATGAGCTAAGAGACCCAAATGCTCGTCTGCCAAACGGCCGGCCACTTCCTCCGCTATTCAATTTTAAACCACAAGgtaag------gttctgttatttgcttcttcttttttccgtgttaaattctttataagggaagaaaattagtatgtgtta--ttgata-agcgtgtgtcctacag------------------------------------------
|| || ||||| ||||||||||| |||||||| |||||||||||  ||||||| || || || ||||| || || || || ||||| || | | | |||||||        || |||  |  |   | ||  | ||       |||||  | | | |    |  |      ||  ||  |  || |   |||  || ||  |  |                                          
GAGGCCTGTATGCACCCTTTCTTCGATGAGCTGAGAGACCCAAACACTCGTCTACCCAATGGTCGGCCTCTGCCGCCTCTCTTCAACTTCAGATCTCAAGgtagcataattgtactgagacatcagtgttgctattctgtcagtaaatcttctgttaccttaacatgggcatacttgagaatttaacctagctagtttcaaattggattctcagctaaaactgatcagatgtttgcaatactgacag

upper sequence: AT1G57870.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: Vv12s0035g01060.t01 (Vitis vinifera), 5'ss of exon 11
GAAGCTTGTATCCACCCTTTCTTTGATGAGCTAAGAGACCCAAATGCTCGTCTGCCAAACGGCCGGCCACTTCCTCCGCTATTCAATTTTAAACCACAAGgtaaggttc-tgttatttgcttcttcttttttccgtgttaa--attctttataagggaagaaaattagtatgtgttattgataagcgtgtg-tcctacag
|||||||| ||||||||||||||||||||| | || ||||| |   ||||||| || || ||||| || |||||||| || || ||||| ||||| ||||||||| ||  | | || ||  ||  | || |    | || |  |    | |||  |      |  |  |     || |    ||    ||  |  ||   
GAAGCTTGCATCCACCCTTTCTTTGATGAGTTGAGGGACCCTAGCACTCGTCTTCCTAATGGCCGTCCTCTTCCTCCCCTCTTTAATTTCAAACCTCAAGgtaagtttgatctgatctgtatccaccttatctacttttgaggaacaataatattgtcctttaggtgatgatgattttcagaaatttagtaattttatga

upper sequence: AT1G57870.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: PP1S60_100V6.1 (Physcomitrella patens), 5'ss of exon 11
GAAGCTTGTATCCACCCTTTCTTTGATGAGCTAAGAGACCCAAATGCTCGTCTGCCAAACGGCCGGCCACTTCCTCCGCTATTCAATTTTAAACCACAAGgtaaggttctgttatt-tgcttcttcttttttccgtgttaaattctttataagggaagaaaattagta----tgt--gttattgataagcgtgtgtcctacag---------------------------------------------------------
||||| ||| | |||||||||||||||||| |||| || || ||    || ||||| ||||| ||||||||||| || || |||||||| ||||| ||||||  ||   | |  |  ||| |   | |    |  ||||  || |    |  |   |     || |||    |||  ||| ||  ||  ||| ||    | ||                                                         
GAAGCGTGTGTGCACCCTTTCTTTGATGAGTTAAGGGATCCTAACTGCCGCCTGCCGAACGGACGGCCACTTCCGCCTCTGTTCAATTTCAAACCTCAAGgtggggaattttggtgatgcgtgggcatagggcaatgtttgatgcgagctgtgcagacgttgtttgtagcgttgtcagttgtttgtactcgtatgatagaaagtaatgttggcaagatggtggttttttaatatggttgggtgtggtggtggtggtacag

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|124830688|gb|EH915134.1|EH915134
EST:     TCTGCCAAACGGCCGGCCACTTCCTCCGCTATTCAATTTTAAACCACAAG                         AACTCTCTGGTATCCCTCCTGAAACTGTGGACCGACTTGTCCCAGAACATG
genomic: TCTGCCAAACGGCCGGCCACTTCCTCCGCTATTCAATTTTAAACCACAAGgtaaggttct ... tgtcctacagAACTCTCTGGTATCCCTCCTGAAACTGTGGACCGACTTGTCCCAGAACATG
EST: gi|116422944|gb|EG465536.1|EG465536
EST:     TCTGCCAAACGGCCGGCCACTTCCTCCGCTATTCAATTTTAAACCACAAG                         AACTTTCTGGTATCCCTCCTGAAACTGTGGACCGACTTGTCCCAGAACATG
genomic: TCTGCCAAACGGCCGGCCACTTCCTCCGCTATTCAATTTTAAACCACAAGgtaaggttct ... tgtcctacagAACTCTCTGGTATCCCTCCTGAAACTGTGGACCGACTTGTCCCAGAACATG