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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCCTGGTGTTGGTAAGACCACTGTTTTGCGAGAGATTGCTCGTGTCTTGTCTGATGAATTCCAGAAAAGAGTGgtgagtcttgcctatccttcaagttttcttagcctttaggtgctctgcttttaactggttatgtatgtgtaatttgctgtttttag

Basic information

species Arabidopsis thaliana
transcript AT1G33290.2
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G33290.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os12g10640.1 (Oryza sativa), 5'ss of exon 5
GCCTGGTGTTGGTAAGACCACTGTTTTGCGAGAGATTGCTCGTGTCTTGTCTGATGAATTCCAGAAAAGAGTGgtgagt------cttgcctatccttcaagttttcttagcc---tttaggtgctctgcttttaactggtta-----tgtatgtgtaatttgctgtttttag---
|||||| ||||| ||||| |||||| |||| |||||||| |||||  |  | |||||||| |||||||||||||| | |        |  | ||| | ||   |||||||  |   || |  | ||     ||||| |  |||     | |||  ||   ||| |||||   |   
GCCTGGGGTTGGCAAGACTACTGTTATGCGTGAGATTGCACGTGTTCTAGCAGATGAATTTCAGAAAAGAGTGgtaactaatcgatgttacaatcttgcagactttcttactcatgttcactttcttcatatttaattccttacatgttctatcggtgtattgatgtttagggcag

upper sequence: AT1G33290.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G162800_T01 (Zea mays), 5'ss of exon 5
GCCTGGTGTTGGTAAGACCACTGTTTTGCGAGAGATTGCTCGTGTCTTGTCTGATGAATTCCAGAAAAGAGTGgt-----gagtcttgcctatccttcaagttttcttagcctttaggtgctctgcttttaactggttatgtatgtgtaatt--tgctgtt-tttag-----
|||||| || || ||||| |||||| |||| |||||||| ||||| ||  | |||||||| ||||||||||||||      |    |||   |   | |    ||  ||   |        | |  || |      |||| ||| |    ||  | ||| | |||||     
GCCTGGGGTCGGCAAGACTACTGTTATGCGTGAGATTGCGCGTGTTTTAGCAGATGAATTTCAGAAAAGAGTGgtatggtaaacaatgctactttcttatacctttctattttcagttcaatgtatttcttgtatcttatatatattcttttggtactgatgtttagggcag

upper sequence: AT1G33290.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G162800_T03 (Zea mays), 5'ss of exon 5
GCCTGGTGTTGGTAAGACCACTGTTTTGCGAGAGATTGCTCGTGTCTTGTCTGATGAATTCCAGAAAAGAGT-----Ggtgagtcttgcctatccttcaagttttcttagcctttaggtgctctgcttttaactggttatgtatgtgtaatt--tgctgtt-tttag
|||||| || || ||||| |||||| |||| |||||||| ||||| ||  | |||||||| |||||||||||     ||| |    |||   |   | |    ||  ||   |        | |  || |      |||| ||| |    ||  | ||| | |||||
GCCTGGGGTCGGCAAGACTACTGTTATGCGTGAGATTGCGCGTGTTTTAGCAGATGAATTTCAGAAAAGAGTGgtatggtaaacaatgctactttcttatacctttctattttcagttcaatgtatttcttgtatcttatatatattcttttggtactgatgtttag

upper sequence: AT1G33290.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA20G35550.1 (Glycine max), 5'ss of exon 4
GCCTGGTGTTGGTAAGACCACTGTTTTGCGAGAGATTGCTCGTGTCTTGTCTGATGAATTCCAGAAAAGAGTGgtg----agtcttgcctatccttcaagttttcttagcctttaggtgctctgcttttaactgg-ttatgtatgtgtaatttgctgtttttag-----
|||||| ||||| || || |||||| |||||||||||||||||||  ||||||||||  | || |||||||||||     | | || |     |||  ||| |||||      |    |  ||  | |  ||||| | |||| |   ||| ||  ||    | |     
GCCTGGGGTTGGCAAAACTACTGTTATGCGAGAGATTGCTCGTGTACTGTCTGATGAGCTTCACAAAAGAGTGgtatgccaatttttcagcatcttgcagtattctttcttcctcaaagtacttttgtagactggctcatgtttcaataaattcttgcaaattgggtag

upper sequence: AT1G33290.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv18s0089g01190.t01 (Vitis vinifera), 5'ss of exon 5
GCCTGGTGTTGGTAAGACCACTGTTTTGCGAGAGATTGCTCGTGTCTTGTCTGATGAATTCCAGAAAAGAGTGgtgagtc---ttgcctatc-------cttcaagttttcttagcctttaggtgctctgctt--ttaactg--gttatgtatgtgtaatttgctgtttttag--------------
|||||| |||||||||||||||||| || |||||||||| || |||||||| |||||  |  | | |||||||||  ||    || | | |        |||||  | |   |  |  | |  || ||  |||  |||| ||  || |  | | |  |||    |  |||||               
GCCTGGAGTTGGTAAGACCACTGTTATGAGAGAGATTGCACGGGTCTTGTCCGATGAGCTTAACAGAAGAGTGgtatgttgagtttcttgttatcacatcttcatctgtgtctctcactcatatgttcatcttccttaagtgtcgtgagttgtctacaatgaagttattttaacaattggtggacag

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|19876677|gb|AU237508.1|AU237508
EST:     TTTTGCGAGAGATTGCTCGTGTCTTGTCTGATGAATTCCANAAAAGAGTG                         GNGATAATTGATACA
genomic: TTTTGCGAGAGATTGCTCGTGTCTTGTCTGATGAATTCCAGAAAAGAGTGgtgagtcttg ... ctgtttttagGTGATAATTGATACA