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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATCCGCGTTTCGGGCTTTGGTGGATGGTTTCTTCTCAGACTTTCTCTCCATGATCCTGTTCTTCCCCTTAACATCGAGgtaaacatatgtataaagcttaacttagtttcagtatctaaactttcactcgaatttttcaattggacgcag

Basic information

species Arabidopsis thaliana
transcript AT5G17530.3
intron # 17
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G17530.1 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: LOC_Os07g26610.1 (Oryza sativa), 5'ss of exon 17
ATCCGCGTTTCGGGCTTTGGTGGATGGTTTCTTCTCAGACTTTCTCTCCATGATCCTGTTCTTCCCCTTAACATCGAGgtaaacatatgtataaagcttaacttagtttc--agtatctaaactttcactcgaatttttcaattggacgcag----------
 |  | ||||| || | |||||| |||||  |  |  |  | || |||||||| || ||||||||||||||||||||||| | | |   | |    | || || |  | |  ||  |   ||   ||  |  || |   ||  || ||              
GTAAGAGTTTCAGGATATGGTGGCTGGTTCTTATTGCGGTTATCCCTCCATGACCCAGTTCTTCCCCTTAACATCGAGgtcagcctccctttgc--cctatctgaaatcccaagccttccaatcatccatttaactga-catgtgaacatgtgcatgcacag

upper sequence: AT5G17530.1 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: GRMZM2G069676_T02 (Zea mays), 5'ss of exon 16
ATCCGCGTTTCGGGCTTTGGTGGATGGTTTCTTCTCAGACTTTCTCTCCATGATCCTGTTCTTCCCCTTAACATCGAGgtaaacatatgtataaagcttaacttagtttcagtatctaaactttcactcgaatttttcaattggacgcag-------
 |  | ||||| || | |||||| |||||  | || || || ||||| |||||||||||||||||||| ||||| ||||||    | |  |     | |  || | |   | |    |  | ||   ||| | |  |    ||  ||||        
GTAAGGGTTTCAGGATATGGTGGGTGGTTCTTGCTGAGGCTCTCTCTGCATGATCCTGTTCTTCCCCTAAACATTGAGgtagttctcttcactt--cctctctcaatcctaatga--aggcatt---tcggagtcatgtgatgtgcgcatgctacag

upper sequence: AT5G17530.1 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: GRMZM2G069676_T01 (Zea mays), 5'ss of exon 1
----------------------ATCCGCGTTTCGGGCTTTGGTGGATGGTTTCTTCTCAGACTTTCTCTCCATGATCCTGTTCTTCCCCTTAACATCGAGgtaaacatatgtataaagcttaacttagtttcagtatctaaactttcactcgaatttttcaattggacgcag-------
                       |  | ||||| || | |||||| |||||  | || || || ||||| |||||||||||||||||||| ||||| ||||||    | |  |     | |  || | |   | |    |  | ||   ||| | |  |    ||  ||||        
TTTTATGGCATACCATACACAGGTAAGGGTTTCAGGATATGGTGGGTGGTTCTTGCTGAGGCTCTCTCTGCATGATCCTGTTCTTCCCCTAAACATTGAGgtagttctcttcactt--cctctctcaatcctaatga--aggcatt---tcggagtcatgtgatgtgcgcatgctacag

upper sequence: AT5G17530.1 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: GLYMA20G32030.1 (Glycine max), 5'ss of exon 16
ATCCGCGTTTCGGGCTTTGGTGGATGGTTTCTTCTCAGACTTTCTCTCCATGATCCTGTTCTTCCCCTTAACATCGAGgtaaacatatgtataaagcttaacttagtttcagtatctaaacttt---cactcgaatt--tttcaattggacgcag------------
 |||| ||||| |||| |||||||||||||||||| ||| | || |||||||||||||| |||||||||||||| ||||||||  |    | |  |||    || || |   |||  ||  ||    || |  || |  ||   | ||  |  |             
GTCCGAGTTTCTGGCTATGGTGGATGGTTTCTTCTTAGATTATCACTCCATGATCCTGTACTTCCCCTTAACATTGAGgtaaaggtcctcaca--gctagtgttggtgtttttatgcaatattaaaacaatgcaactgattcagactgatcatacttgttactgtag

upper sequence: AT5G17530.1 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: GLYMA10G35490.2 (Glycine max), 5'ss of exon 16
ATCCGCGTTTCGGGCTTTGGTGGATGGTTTCTTCTCAGACTTTCTCTCCATGATCCTGTTCTTCCCCTTAACATCGAGgtaaa----catatgtataaagcttaa---cttagtttcagtatctaaactttcactcgaatttttcaattggacgcag------------
 |||| ||||| |||| |||||||||||| ||||| ||| | || |||||||||||||| |||||||||||||| ||||||||    |  | |  ||  | |       |||  | || |||  ||||  |    |  |||     | || ||  |             
GTCCGAGTTTCTGGCTATGGTGGATGGTTCCTTCTTAGATTATCACTCCATGATCCTGTACTTCCCCTTAACATTGAGgtaaaggccctcacggctagtgttggggtgtttatatgcaatattaaaacaatgcaactgattcagagactgaacatacttgttactgtag

upper sequence: AT5G17530.1 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: Vv13s0019g04370.t01 (Vitis vinifera), 5'ss of exon 17
ATCCGCGTTTCGGGCTTTGGTGGATGGTTTCTTCTCAGACTTTCTCTCCATGATCCTGTTCTTCCCCTTAACATCGAGgtaaacatatgtataaagcttaactt--agtttcagtatctaaac-tttcactcgaatttttcaattggacgcag---
 | || | ||| |||||||| |||||||| ||||| ||||| || || ||||| |||||||||||||||||||| |||||| |      | | |||  | || |  ||||  | |  | | |  |||  | |  |   |   |  | || |     
GTTCGAGCTTCTGGCTTTGGGGGATGGTTCCTTCTAAGACTCTCCCTTCATGACCCTGTTCTTCCCCTTAACATTGAGgtataatcccctttcaagtgtcacgttaagttataattaccagatattttgcactgacaatatga--gaactccatag

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|116424751|gb|EG467343.1|EG467343
EST:     TTCTTCTCAGACTTTCTCTCCATGATCCTGTTCTTCCCCTTAACATCGAG                         GCACAGAGTGAGGATGATGCTGTGAAATTAGGCCTTGTGGTTGCTACGACA
genomic: TTCTTCTCAGACTTTCTCTCCATGATCCTGTTCTTCCCCTTAACATCGAGgtaaacatat ... ttggacgcagGCACAGAGTGAGGATGATGCTGTGAAATTAGGCCTTGTGGTTGCTACGACA
EST: gi|125083280|gb|EL143903.1|EL143903
EST:     TCTCCATGATCCTGTTCTTACCCCTTAACATCGAG                         GCACAGAGTGAGGATGATGCTGTGAAATTAGGCCTTGTGGTTGCTACGACA
genomic: TCTCCATGATCCTGTTCTT-CCCCTTAACATCGAGgtaaacatat ... ttggacgcagGCACAGAGTGAGGATGATGCTGTGAAATTAGGCCTTGTGGTTGCTACGACA
EST: gi|86023634|gb|DR319387.1|DR319387
EST:     TTCTTCTCAGACTTTCTCTCCATGATCCTGTTCTTCCCCTTAACATCGAG                         GCACAGAGTGAGGATGATGCTGTGAAATTAGGCCTTGTGGTTGCTACG
genomic: TTCTTCTCAGACTTTCTCTCCATGATCCTGTTCTTCCCCTTAACATCGAGgtaaacatat ... ttggacgcagGCACAGAGTGAGGATGATGCTGTGAAATTAGGCCTTGTGGTTGCTACG