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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGTACATTACCTGGTGTTGGTCCGAAGGTAGCAGCTTGCATAGCTCTGTTTTCTCTTGATCAGCATAGTGCTATTCCGGTTGACACACATGTCTGGCAGgtaacaaagtccatcggtttctatgtattgtacttacttaattgagatccaattacataatggtgatgatgacttcgggcaactttttttttgttctgttttggataatggatcag

Basic information

species Arabidopsis thaliana
transcript AT1G21710.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G21710.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G139031_T01 (Zea mays), 5'ss of exon 2
GTGTACATTACCTGGTGTTGGTCCGAAGGTAGCAGCTTGCATAGCTCTGTTTTCTCTTGATCAGCATAGTGCTATTCCGGTTGACACACATGTCTGGCAGgtaacaaagtccatcggtttctatgtattgtacttacttaattgagatccaattacataatggtgatgatgacttcgggcaactttttttttgttctgttttggataatggatcag
 || ||  | || ||||||||||| ||||| || || ||||| |||||||| || ||||||||  ||  ||||||||| || ||||||||||| ||| |||||      |    |  | |||   | ||||| | |  |  |    ||    |    || |  || || |   || || ||     || || ||||  |  |              
TTGCACTCTCCCAGGTGTTGGTCCAAAGGTCGCTGCCTGCATTGCTCTGTTCTCCCTTGATCAAAATCATGCTATTCCTGTCGACACACATGTTTGGAAGgta-tgctatattgctatatctcacttttgtattaatgttgtaacaattgcttc---tacttctgttgtttcatttggacataccattgttagttcattgatat------------

upper sequence: AT1G21710.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA06G12160.1 (Glycine max), 5'ss of exon 2
GTGTACATTACCTGGTGTTGGTCCGAAGGTAGCAGCTTGCATAGCTCTGTTTTCTCTTGATCAGCATAGTGCTATTCCGGTTGACACACATGTCTGGCAGgtaacaaagtccatcggtttctatgtattgtacttacttaattgagatccaattacataatg-gtgatgatgacttcgggcaactttttttttgttctgttttggataatggatcag
 ||||| ||||| ||||| ||||| || || || |||||||| ||||| ||||| |||||||||||   |||| |||| ||||||||||| || |||| |||||      | |   |||  ||| ||||   |||   | |||||      ||| |||| ||    ||| |    | | |      |||   ||||   ||||  |   ||| | ||
TTGTACGTTACCCGGTGTGGGTCCTAAAGTGGCTGCTTGCATTGCTCTCTTTTCGCTTGATCAGCACCATGCTGTTCCTGTTGACACACACGTGTGGCGGgtaagctta-caaaaagttgttatttatt---ctttactgattgattgattattgcatattgtagaatgttatgattgagtgttaatttggatgtttcttttttaaacttgggtaag

upper sequence: AT1G21710.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv18s0001g02200.t01 (Vitis vinifera), 5'ss of exon 2
GTGTACATTACCTGGTGTTGGTCCGAAGGTAGCAGCTTGCATAGCTCTGTTTTCTCTTGATCAGCATAGTGCTATTCCGGTTGACACACATGTCTGGCAGgtaacaaagtccatcggtttctatgtattgtacttacttaattgagatccaattacataatggtgatgatgacttcgggcaactttttttttgttctgttttggataatggatcag
 |  ||  |||||||||||||||| ||||| ||||| ||||| ||||| ||||| || |||||||||  ||| ||||| ||||| || ||||| |||||||| | | | |  |  | |||    |  |||   |||    ||  || | |  |||   |    |     | |   | |  |   |   |||| |      || | |  |       
TTCCACTCTACCTGGTGTTGGTCCCAAGGTGGCAGCATGCATTGCTCTCTTTTCACTGGATCAGCATCATGCCATTCCTGTTGATACGCATGTGTGGCAGgtga-acattttaaggattt----gccttgctattatc--ataaaggttc--ttatggagctatttcatttatcactgatatggtgccttttataaatggtttgctgct-------

upper sequence: AT1G21710.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: PP1S189_64V6.1 (Physcomitrella patens), 5'ss of exon 2
GTGTACATTACCTGGTGTTGGTCCGAAGGTAGCAGCTTGCATAGCTCTGTTTTCTCTTGATCAGCATAGTGCTATTCCGGTTGACACACATGTCTGGCAGgtaa---caaagtccatcggtttctatgtattgtacttacttaat-tgagatccaattacataatggtgatgatgacttcgggcaactttttttttgttctgttttggataatggatcag----------------------------------------
|||||||||||||||  |||| || || || ||||||||||| || |||||||| || ||||||||   ||| ||||| || || || || || ||||||||     |||||   |   ||     ||     |     ||| |  ||  || |   |      ||    |    | |||| |    ||   ||  || || |    |      |  ||                                         
GTGTACATTACCTGGAATTGGCCCTAAAGTGGCAGCTTGCATTGCACTGTTTTCCCTAGATCAGCACCATGCCATTCCCGTCGATACTCACGTATGGCAGgtgtgttcaaagcgtagaagtggagttgcccctttgaaccttgagatgcaattcttcttgtgcgtgtctttcgccatttcgtgtgggttggattaggtgctttacatggctccagcacatatgaggattaatttactcacatctccctctgcacttgcag

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|86082989|gb|DR378748.1|DR378748
EST:     CTCTTGATCAGCATAGTGCTATTCCGGTTGACACACATGTCTGGCAG                         ATCGCAACAAATTATCTACTGCCAGACCTTGCTGGTGCAAAACTGACACCT
genomic: CTCTTGATCAGCATAGTGCTATTCCGGTTGACACACATGTCTGGCAGgtaacaaagt ... aatggatcagATCGCAACAAATTATCTACTGCCAGACCTTGCTGGTGCAAAACTGACACCT