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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACTGGATTATGGAACAATGGGAAAAGAACTACTATATCAGTTCCATAGCTGGTTCAGATAACGGGAACTCATTAGTTGTTATGTCAAAAGgttggtgttaatggtagtaatctgcaaatttttatgtcacacaaacacttgactatagaaaatgtcgtactttcattataaccatataacatggagtcttctttactaattttgtgcttgttgtaaattggtag

Basic information

species Arabidopsis thaliana
transcript AT5G18190.1
intron # 14
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G18190.1 (Arabidopsis thaliana), 5'ss of exon 14
lower sequence: GRMZM2G116086_T01 (Zea mays), 5'ss of exon 14
GACTGGATTATGGAACAATGGGAAAAGAACTACTATATCAGTTCCATAGCTGGTTCAGATAACGGGAACTCATTAGTTGTTATGTCAAAAGgttggtgttaatggtagtaatctgcaaatttttatgtcacacaaacacttgactatagaaaatgtcgtactttcattataaccatataacatggagtcttctttac-taattttgtgcttgttgtaaattggtag
|| ||||||||||| || |||||||| |||||||| |||||| ||||||||||| ||   || ||||  || || || || ||||||||||||  |   ||||  |  |   ||| |   ||| | | | |  | |        | ||  |  | |   | |   || | ||      || || ||||  | | ||| || ||   ||||                
GATTGGATTATGGAGCAGTGGGAAAATAACTACTACATCAGTGCCATAGCTGGTGCAATGAATGGGAGTTCCTTGGTGGTCATGTCAAAAGgtctgccctaat--tgatgg-ctgta---tttgaggcctcttata--------tttattagttattacattcatatgaaaa------aaaattgagtggtgtctacatagttaaatgctc---------------

upper sequence: AT5G18190.1 (Arabidopsis thaliana), 5'ss of exon 14
lower sequence: GLYMA16G04580.1 (Glycine max), 5'ss of exon 14
GACTGGATTATGGAACAATGGGAAAAGAACTACTATATCAGTTCCATAGCTGGTTCAGATAACGGGAACTCATTAGTTGTTATGTCAAAAGgttggtgttaatggtagtaatctgcaaatttttatgtcacacaaacacttgactatagaaaatgtcgtactttcattataaccatataacatggagtcttctttactaattttgtgcttgttgtaaattggtag
|||||||||||||| || ||||| || || |||||||||||||| ||||||||  ||| ||| || |  || || ||||| ||||| ||||||   |  ||    || |  | || |  |  |  |    |||| ||  |||| ||            || |||    ||  |  |  || ||       || || ||| |||  |                   
GACTGGATTATGGAGCAGTGGGAGAAAAATTACTATATCAGTTCAATAGCTGGCGCAGTTAATGGAAGTTCCTTGGTTGTCATGTCCAAAGgtatataatatctataattttatg-acctactcctccttcacatactattgattaa---------tttatttttgaaatgcctttgcaaaat------ctccttgctattttactt------------------

upper sequence: AT5G18190.1 (Arabidopsis thaliana), 5'ss of exon 14
lower sequence: Vv08s0007g07420.t01 (Vitis vinifera), 5'ss of exon 14
GACTGGATTATGGAACAATGGGAAAAGAACTACTATATCAGTTCCATAGCTGGTTCAGATAACGGGAACTCATTAGTTGTTATGTCAAAAGgttggtgttaatggtagtaatctgcaaa--tttttatgtcacacaaacacttgactatagaaaatgtcgtactttcattataaccatataacatggagtcttctttactaattttgtgcttgttgtaaattggtag
|| |||||||||||||| ||||||||||| ||||| ||||| || ||||| ||  | | ||| ||||  || || ||||| ||||| |||||||||     ||     ||   ||  ||    |||||              || || |      | | |   | ||||| |  |  |    |||  |   ||||                                
GATTGGATTATGGAACAGTGGGAAAAGAATTACTACATCAGCTCAATAGCAGGGGCTGCTAATGGGAGTTCTTTGGTTGTCATGTCTAAAGgttggatcacattcccatagattgttaaggcatttattctctgtgtttgtctgtctgtttccttttttgc-ttctcattttttctctg---catttaactttct--------------------------------

upper sequence: AT5G18190.1 (Arabidopsis thaliana), 5'ss of exon 14
lower sequence: PP1S131_16V6.1 (Physcomitrella patens), 5'ss of exon 13
GACTGGATTATGGAACAATGGGAAAAGAACTACTATATCAGTTCCATAGCTGGTTCAGATAACGGGAACTCATTAGTTGTTATGTCAAAAGgttggtgttaatggtagtaatctgcaaatttttatgtcacacaaacacttgactatagaaaatgtcgtactttcattataaccatataacatggagtcttctttactaattttgtgcttgttgtaaattggtag
|| ||||| |||||||| ||||||||||| | |||||||||| |||| |||||| || ||||||| | ||| || || || ||||| ||||||   | | |   |  || |  |  | |||        |||| | || || |         |  ||    ||| ||| | | |||    | |  | | || |  | | ||                        
GAGTGGATCATGGAACAGTGGGAAAAGAATTTCTATATCAGTGCCATCGCTGGTGCAAATAACGGAAGCTCCTTGGTCGTCATGTCTAAAGgt--atttcacccgatgttacatttagatta-------acactatcatttcatgcatatgtacttcaattttttatttttatcatgctgc-ttaatttttgtagatttat------------------------

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|86087382|gb|DR383141.1|DR383141
EST:     CGGGAACTCATTAGTGGTTATGTCAAAAG                         AAACGTCTTATACTCAGCAATCTTACAAAGTCAGCGACTCTTTTACTTTCA
genomic: CGGGAACTCATTAGTTGTTATGTCAAAAGgttggtgtta ... aaattggtagGAACGTCTTATACTCAGCAATCTTACAAAGTCAGCGACTCTTTTCCTTTCA
EST: gi|19875875|gb|AU236706.1|AU236706
EST:     TTCCATAGCTGGTTCAGATAACGGGAACTCATTAGTTGTTATGTCAAAAG                         GAACGTCTTATACTCAGCAATCTTACAAAGTCAGCGACTCTTTTCCTTTCA
genomic: TTCCATAGCTGGTTCAGATAACGGGAACTCATTAGTTGTTATGTCAAAAGgttggtgtta ... aaattggtagGAACGTCTTATACTCAGCAATCTTACAAAGTCAGCGACTCTTTTCCTTTCA