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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CATCATTTCAGCCATCGAATTTGATAAAAGTGGAGACCATCTCGCAACTGGTGACCGTGGGGGCCGAGTAGTTCTTTTTGAAAGGACAGATACTAAAGATgtgagttcctttttcttctgcaagatttgtttcgaaaaaatgttatgtgctgtaacgcactcttgcaaaatgttactttcag

Basic information

species Arabidopsis thaliana
transcript AT1G17720.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G17720.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA08G20830.1 (Glycine max), 5'ss of exon 2
CATCATTTCAGCCATCGAATTTGATAAAAGTGGAGACCATCTCGCAACTGGTGACCGTGGGGGCCGAGTAGTTCTTTTTGAAAGGACAGATACTAAAGATgtgagttc--ctttttcttctgcaagatttgtttcga--aaaaatg------ttatgtgctgtaacgcactcttgcaaaatgttactttcag----------------------------
 || ||||| || || |||||||| ||   ||| || ||||| || |||||||| ||||| || ||||||||||| |||||| |||||||||| |||||||| | |     ||||||||| ||||  | | ||   |  |||| |       ||| |   || ||    |  ||  | |   ||| ||||                              
TATAATTTCTGCTATTGAATTTGACAAGTCTGGTGATCATCTTGCTACTGGTGATCGTGGTGGTCGAGTAGTTCTCTTTGAACGGACAGATACAAAAGATgtaattctgattttttcttcagcaatttcttttataactaaaattactaaacttaaggtttgaaagattccattttacacccttaatttctctaatatctatgtatactgtaacttgcag

upper sequence: AT1G17720.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA07G01440.1 (Glycine max), 5'ss of exon 2
CATCATTTCAGCCATCGAATTTGATAAAAGTGGAGACCATCTCGCAACTGGTGACCGTGGGGGCCGAGTAGTTCTTTTTGAAAGGACAGATACTAAAGATgtgagttc--ctttttcttctgcaagatttgtttcga--aaaaatgtta---tgtgctgtaacg-cactcttgcaaaatgttactttcag---------------------------
 || ||||| || || |||||||| ||   ||| || ||||| || |||||||| ||||| || ||||||||||| |||||  |||||||||| |||||||| |||     ||||||||| ||||  | | ||   |  |||| |  ||   |  | | ||| |   ||  |  | |   ||| |||                              
TATAATTTCTGCTATTGAATTTGACAAGTCTGGTGATCATCTTGCTACTGGTGATCGTGGTGGTCGAGTAGTTCTCTTTGAGCGGACAGATACAAAAGATgtaagtctaattttttcttcagcaatttcttttataactaaaattactaacttaggttttaaagattctactttacacccttaattttctaatatctatgtatactgtaacttgcag

upper sequence: AT1G17720.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv09s0002g02470.t01 (Vitis vinifera), 5'ss of exon 2
CATCATTTCAGCCATCGAATTTGATAAAAGTGGAGACCATCTCGCAACTGGTGACCGTGGGGGCCGAGTAGTTCTTTTTGAAAGGACAGATACTAAAGATgtgagttccttttt----cttctg-----caagatttgtttcgaaa----aaatgttatgt-gctgtaacgcactcttgcaaaat---gttactttcag----------------
 || ||||| || || || |||||||||  ||| ||||| || || |||||||| ||||||||||| || ||||| ||||| ||||| ||||| || |||||| |||| |||||    || |||      |   | ||| || |||    | | |||   |  ||||       |||| ||| ||   | ||  || |                 
TATTATTTCTGCAATTGAGTTTGATAAATCTGGTGACCACCTTGCTACTGGTGATCGTGGGGGCCGGGTGGTTCTATTTGAGAGGACTGATACAAAGGATgtgcgttcttttttaacactactggtctttagtttctgtatccaaacttgataggttgccttactgttcttgtttctttcaatattatgatatctttatacactgtaatgtgtag

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|116411283|gb|EG453875.1|EG453875
EST:     GTGACCGTGGGGGCCGAGTAGTTCTTTTTGAAAGGACAGATACTAAAGAT                         CATGGAGGGTCCAGGAAGGATCTTGAGCAGACGGATTACCCAGTTAGGCAT
genomic: GTGACCGTGGGGGCCGAGTAGTTCTTTTTGAAAGGACAGATACTAAAGATgtgagttcct ... ttactttcagCATGGAGGGTCCAGGAAGGATCTTGAGCAGACGGATTACCCAGTTAGGCAT
EST: gi|125312732|gb|EL326817.1|EL326817
EST:     ACCGT-GGGGCCGAGTAGTTCTTTTTGAAAGGACAGATACTAAAGAT                         CATGGAGGGTCCAGGAAGGATCTTGAGCAGACGGNTTACCCAGTTAGGCAT
genomic: ACCGTGGGGGCCGAGTAGTTCTTTTTGAAAGGACAGATACTAAAGATgtgagttcct ... ttactttcagCATGGAGGGTCCAGGAAGGATCTTGAGCAGACGGATTACCCAGTTAGGCAT
EST: gi|116432328|gb|EG474920.1|EG474920
EST:     GTGACCGTGGGGGCCGAGTAGTTCTTTTTGAAAGGACAGATACTAAAGAT                         CATGGAGGGTCCAGGAAGGATCTTGAGCAGACGGATTACCCAGTTAGGCAT
genomic: GTGACCGTGGGGGCCGAGTAGTTCTTTTTGAAAGGACAGATACTAAAGATgtgagttcct ... ttactttcagCATGGAGGGTCCAGGAAGGATCTTGAGCAGACGGATTACCCAGTTAGGCAT
EST: gi|116478422|gb|EG521014.1|EG521014
EST:     GTGACCGTGGGGGCCGAGTAGTTCTTTTTGAAAGGACAGATACTAAAGAT                         CATGGAGGGTCCAGGAAGGATCTTGAGCAGACGGATTACCCAGTTAGGCAT
genomic: GTGACCGTGGGGGCCGAGTAGTTCTTTTTGAAAGGACAGATACTAAAGATgtgagttcct ... ttactttcagCATGGAGGGTCCAGGAAGGATCTTGAGCAGACGGATTACCCAGTTAGGCAT