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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATTACACAGTCTGGTGCAGACCGTGTCCTTGCTTGTGATCTTCACTCCGGACAGTCTATGGGCTACTTTGATATTCCAGTCGATCATGTTTATGGCCAGgtagaaaaaagtttttcttaaatgactcctctgagcatcaagttcctttttgtgaaaatagactttcttatgtcttcttttccttgtgctttaatattcatgaacag

Basic information

species Arabidopsis thaliana
transcript AT2G44530.2
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G44530.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os02g03540.1 (Oryza sativa), 5'ss of exon 4
GATTACACAGTCTGGTGCAGACCGTGTCCTTGCTTGTGATCTTCACTCCGGACAGTCTATGGGCTACTTTGATATTCCAGTCGATCATGTTTATGGCCAGgtagaaaaaagtttttcttaaatgactcctctgagcatcaagttcctttttgtgaaaatagactttcttatgtcttcttttccttgtgctttaatattcatgaacag
||||||| |  |||||||  ||||||||||||  ||||||||||| ||| | ||  | ||||| |||||||| || ||||| |||||||||||||| ||||||   |    |   | || | |||   ||    ||||    || | |||  |||  |||   ||   | | | ||   ||| |||  || | |             
GATTACAGAAGCTGGTGCGAACCGTGTCCTTGTATGTGATCTTCATTCCAGTCAAGCCATGGGATACTTTGACATCCCAGTAGATCATGTTTATGGTCAGgtatgcactgatgcatgttgactgataactgcttgcatgtgatttcattt-atgattataactttgtctttctttttgattctttgatctgtcaag-----------

upper sequence: AT2G44530.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G038791_T01 (Zea mays), 5'ss of exon 4
GATTACACAGTCTGGTGCAGACCGTGTCCTTGCTTGTGATCTTCACTCCGGACAGTCTATGGGCTACTTTGATATTCCAGTCGATCATGTTTATGGCCAGgtaga------aaaaagtttttcttaaat-----gactcctctgagcatcaagttcctttttgtgaaaatagactttcttatgtct-tcttttccttgtgctttaatattcatgaacag
||||||  |  |||||||  |||||||||||| |||||||||||| ||  | ||  | ||||| |||||||| || ||||| ||||| ||||||||||||||| |       ||   |  | |||||||      | |||| | ||  | |   |  || |  ||  | |   | |||||||   | | || |  || | || |   || | ||||   
GATTACCGAAGCTGGTGCCAACCGTGTCCTTGTTTGTGATCTTCATTCTAGTCAAGCAATGGGATACTTTGACATCCCAGTAGATCACGTTTATGGCCAGgtatatgtactgaagcatgctacttaaatctattaattcctttaagacttag--tgtttatgatggtattcatccttcttataattgttttctatttttcctgtttgatccgtgaag--

upper sequence: AT2G44530.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA03G24280.2 (Glycine max), 5'ss of exon 4
GATTACACAGTCTGGTGCAGACCGTGTCCTTGCTTGTGATCTTCACTCCGGACAGTCTATGGGCTACTTTGATATTCCAGTCGATCATGTTTATGGCCAGgtagaaaaaagtttttcttaaatgactcctctgagcatcaagttcctttttgtgaaaatagactttcttatgtcttcttttccttgtgctttaatattcatgaacag------------
 |||||| |  | |||||| | ||||| ||||||||||| || || || || ||||| |||||||| |||||||||||||| |||||||| ||||||||||||    |      || |||  | |||      |||||  |||       ||  | |||| |       | |  ||   |   ||   ||  || |  ||||    |            
AATTACAGAAGCAGGTGCAAATCGTGTACTTGCTTGTGACCTCCATTCTGGGCAGTCCATGGGCTATTTTGATATTCCAGTTGATCATGTGTATGGCCAGgtaacgga------ttattatgtcact------agcatatagtaatagcatggaagaataaa-------aagcatttaatctattaaactcaaacaaacatggcttggatgtgttgtat

upper sequence: AT2G44530.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA07G12660.1 (Glycine max), 5'ss of exon 4
GATTACACAGTCTGGTGCAGACCGTGTCCTTGCTTGTGATCTTCACTCCGGACAGTCTATGGGCTACTTTGATATTCCAGTCGATCATGTTTATGGCCAGgtagaaaaaagtttttcttaaatgactcctctgagcatcaagttcctttttgtgaaaatagactttcttatgtcttcttttccttgtgctttaatat-tcatgaacag
 |||||| |  | |||||| | ||||| ||||||||||| || || || || ||||| |||||||| |||||||||||||| |||||||| ||||| ||||||  | |   || | |   | ||  || |   |  || |   |    |    ||||| | || || | || | ||    ||          || ||  | || | | 
AATTACAGAAGCAGGTGCAAATCGTGTACTTGCTTGTGACCTCCATTCTGGGCAGTCCATGGGCTATTTTGATATTCCAGTTGATCATGTGTATGGACAGgtaacagatgattatgccatattg--tcattacaatataa---tagcatggaagaaaaaaaacatt-taatctattaaactcaa-acaaacaaacatgccttggata-

upper sequence: AT2G44530.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv15s0021g00460.t01 (Vitis vinifera), 5'ss of exon 4
GATTACACAGTCTGGTGCAGACCGTGTCCTTGCTTGTGATCTTCACTCCGGACAGTCTATGGGCTACTTTGATATTCCAGTCGATCATGTTTATGGCCAGgtagaaaaaagtttttcttaaatgactcctctgagc-atcaagttcctttttgtgaaaatagactttcttatgtcttcttt-tccttgtg-ctttaatattcatgaacag
 |||||| |  | |||||| |||| || ||||||||||||||||| || || ||||||||||| || |||||||||||||| |||||||| ||||| ||||||  ||   | |    |  | ||     | ||    ||||  || |    ||     || |   |||||   | || |   ||    || ||||  | |          
CATTACAGAAGCGGGTGCAAACCGAGTTCTTGCTTGTGATCTTCATTCTGGGCAGTCTATGGGTTATTTTGATATTCCAGTTGATCATGTGTATGGACAGgtaataaggtgatagcttctagtggtcaatgtgtatgatcagatttcaaactgatgctattggggttcttccatgttatacatcagcatgactttggtgt----------

upper sequence: AT2G44530.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: PP1S123_105V6.1 (Physcomitrella patens), 5'ss of exon 4
GATTACACAGTCTGGTGCAGACCGTGTCCTTGCTTGTGATCTTCACTCCGGACAGTCTATGGGCTACTTTGATATTCCAGTCGATCATGTTTATGGCCAGgtagaaa-----aaagtttttcttaaatgactcctctgagcatcaagttcctttttgtgaaaatagactttcttatgtcttcttttccttgtgctttaatattcatgaacag-------------------------------------------------------------------
 |||||  |  |||| ||  |  | ||  | ||||||||||||||||| || ||||| ||||| |||||||| ||| | ||||||||||| ||||| |||||    |     | |  |||| |||  | | |  | | |  ||  |  |  |     |     ||  |||  || | | || || ||| |    | ||| ||     |   |                                                                   
AATTACTGAAGCTGGGGCCAATAGAGTATTGGCTTGTGATCTTCACTCAGGCCAGTCCATGGGTTACTTTGACATTTCTGTCGATCATGTGTATGGTCAGgtgagcattttaacaagttttattattttattatttttaaaatttaaattttaaaattattgttattcttatttttttgttattctccctcaagtgtaacatgttctatttgtgctcggaggaaaattcacatgttttattttaaaggttattgtctaattgggaaaccttgtatgcag

upper sequence: AT2G44530.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: PP1S152_123V6.1 (Physcomitrella patens), 5'ss of exon 4
GATTACACAGTCTGGTGCAGACCGTGTCCTTGCTTGTGATCTTCACTCCGGACAGTCTATGGGCTACTTTGATATTCCAGTCGATCATGTTTATGGCCAGgtagaaaaaa-gtttttcttaaatgactcctctgagcatcaagttcctttttgtgaaaatagactttcttatgtcttcttttccttgtgctttaatattcatgaacag
 |||||  |  |||| ||| ||||||| ||  ||||||| || ||||| || ||||| |||||||||||||||||||| || || |||||||||||||| |||    |    | |   |||  |||    | |||    | | ||| || | |  |   |  ||  |   ||  |  ||  || |   |||    | || |||     
AATTACTGAAGCTGGGGCAAACCGTGTGCTCACTTGTGACCTGCACTCTGGCCAGTCGATGGGCTACTTTGATATTCCCGTTGACCATGTTTATGGCCAAgtaagttatctatctgaattacctgaaagttatgaa-gcctaattcgttgtagacatgtttcacaattccattgcggctgctctta--gctagcttcttgatg-----

upper sequence: AT2G44530.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: EFJ12994 (Selaginella moellendorffii), 5'ss of exon 3
GATTACACAGTCTGGTGCAGACCGTGTCCTTGCTTGTGATCTTCACTCCGGACAGTCTATGGGCTACTTTGATATTCCAGTCGATCATGTTTATGGCCAGgtagaaaaaagtttttcttaaatgactcctctgagcatcaagttcctttttgtgaaaatagactttcttatgtcttcttttccttgtgctttaatattcatgaacag
  | ||| |  | |||||  ||||||| ||||| || ||  | ||||| || ||| |  ||||||||||||| ||||| || |||||||||||||| |||||| |     |||| |||         ||||| ||   | || |  | ||||     | ||                                              
TTTGACAGAAGCCGGTGCGAACCGTGTTCTTGCATGCGACTTACACTCGGGGCAGGCGTTGGGCTACTTTGACATTCCCGTGGATCATGTTTATGGTCAGgta-actttggtttctct---------cctctaag---cgagcttatgtttggagctacag----------------------------------------------

upper sequence: AT2G44530.2 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: EFJ24123 (Selaginella moellendorffii), 5'ss of exon 4
GATTACACAGTCTGGTGCAGACCGTGTCCTTGCTTGTGATCTTCACTCCGGACAGTCTATGGGCTACTTTGATATTCCAGTCGATCATGTTTATGGCCAGgtagaaaaaagtttttcttaaatgactcctctgagcatcaagttcctttttgtgaaaatagactttcttatgtcttcttttccttgtgctttaatattcatgaacag
 || ||  || | |||||| | ||||| ||||| |||||||||||||| |||||   |||||| ||||| |||||||| || ||||| || ||||| ||||||        | |   | | ||   |  ||| | | |||    | ||   ||    ||| | | ||||   ||||  || |                         
TATAACTGAGGCAGGTGCAAATCGTGTTCTTGCGTGTGATCTTCACTCTGGACAAAGTATGGGGTACTTCGATATTCCTGTTGATCACGTCTATGGACAGgta--------tgtgcgtcatat---ttttctcaacgtca---ccattcccgt----ataaaatctctttgctctttcttgcag-----------------------

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|125232160|gb|EL246245.1|EL246245
EST:     CTACTTTGATATTCCAGTCGATCATGTTTATGGCCAG                         CCTGTCATACTTGATTACCTAGCAAGTAAGGCCATATCCTCTGAAGATTTG
genomic: CTACTTTGATATTCCAGTCGATCATGTTTATGGCCAGgtagaaaaaa ... tcatgaacagCCTGTCATACTTGATTACCTAGCAAGTAAGGCCATATCCTCTGAAGATTTG
EST: gi|125259031|gb|EL273116.1|EL273116
EST:     GACAGTCTATGGGCTACTTTGATATTCCAGTCGATCATGTTTATGGCCAG                         CCTGTCATACTTGATT
genomic: GACAGTCTATGGGCTACTTTGATATTCCAGTCGATCATGTTTATGGCCAGgtagaaaaaa ... tcatgaacagCCTGTCATACTTGATT