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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGCTGCTCAGGAAGTAGCTGAGGGAAAGCTCAATGATCATTTCCCCCTTGTTGTCTGGCAAACTGGTAGTGGGACTCAGAGTAATATGAATGCTAATGAGgtaatttctttgcagtttttgagacatctgttgaggatctcattgtatatagctagctacaagagaaggctttctgtttatgttttttcattttcttttggccttgttatttgctcttcacag

Basic information

species Arabidopsis thaliana
transcript AT2G47510.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G47510.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G010823_T01 (Zea mays), 5'ss of exon 3
AGCTGCTCAGGAAGTAGCTGAGGGAAAGCTCAATGATCATTTCCCCCTTGTTGTCTGGCAAACTGGTAGTGGGACTCAGAGTAATATGAATGCTAATGAGgtaatttctttgcagtttttgagacatctgttgaggatctcattgtatatagctagctacaagagaaggctttctgtttatgttttttcattttcttttggccttgttatttgctcttcacag
 || ||| |||| || || ||||||||| |  ||||||| ||||| |||||| ||||||||||||| ||||| || || || || |||||||| ||||||||   |    | ||       | |  | |  |    ||||     || | |  |   |   | || ||  |  |||||| |  ||||| | |  |  |   || ||                 
GGCAGCTGAGGAGGTCGCAGAGGGAAAGTTGGATGATCACTTCCCACTTGTTATCTGGCAAACTGGCAGTGGCACACAAAGCAACATGAATGCCAATGAGgtcggtgtcctaca-cacccaatatttttacttcaaatctt-ccataaaaacatcaattttaaagtagtatagctgttttt--tttttgaatggcaat---ccctgc----------------

upper sequence: AT2G47510.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G348729_T01 (Zea mays), 5'ss of exon 6
AGCTGCTCAGGAAGTAGCTGAGGGAAAGCTCAATGATCATTTCCCCCTTGTTGTCTGGCAAACTGGTAGTGGGACTCAGAGTAATATGAATGCTAATGAGgtaatttctttgcagtttttgagacatctgttgaggatctcattgtatatagctagctacaagagaaggctttctgtt-tatgttttttcattttcttttggccttgttatttgctcttcacag
 || ||| |||| || || ||||||||| |  ||||||| ||||| |||||| ||||||||||||| ||||| || || || || |||||||| ||||||||   |    | || | |   | |  | |  |    ||||     || |  |  |  |  || || ||  |  ||||| | ||   |   | |  ||  |                        
GGCAGCTGAGGAGGTCGCAGAGGGAAAGTTAGATGATCACTTCCCACTTGTTATCTGGCAAACTGGCAGTGGCACACAAAGCAACATGAATGCCAATGAGgttggtgtcctaca-tatccaatatttttactccaaatctt-ccataaaacgtcaattttaa-agtagtatagctgttgtttggaatggtagtccctgctaaa---------------------

upper sequence: AT2G47510.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G348729_T01 (Zea mays), 5'ss of exon 5
AGCTGCTCAGGAAGTAGCTGAGGGAAAGCTCAATGATCATTTCCCCCTTGTTGTCTGGCAAACTGGTAGTGGGACTCAGAGTAATATGAATGCTAATGAGgtaatttctttgcagtttttgagacatctgttgaggatctcattgtatatagctagctacaagagaaggctttctgtttatgttttttcattttcttttggccttgttatttgctcttcacag
 || ||| |||| || |  ||||||||| |  ||||||| ||||| ||||||  |||||||||||| ||||| || || || || |||||||| ||||||||   |    | ||   |   | |  | |  |    ||||      | |  |  |  |  ||   |      |   | | ||   |   | |  ||  |                        
GGCAGCTGAGGAGGTCGTAGAGGGAAAGTTGGATGATCACTTCCCACTTGTTACCTGGCAAACTGGCAGTGGCACACAAAGCAACATGAATGCCAATGAGgttggtgtcctaca-catccaatatttttacttcaaatcttccataaaaacgtcaattttaaagtagtatagttgttgtttggaatggtagtccctgctaa----------------------

upper sequence: AT2G47510.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA02G01930.2 (Glycine max), 5'ss of exon 3
AGCTGCTCAGGAAGTAGCTGAGGGAAAGCTCAATGATCATTTCCCCCTTGTTGTCTGGCAAACTGGTAGTGGGACTCAGAGTAATATGAATGCTAATGAGgtaatttctttgcagtttttgagacatctgttgaggatctcattgtatatagctagctacaagagaaggctttctgtttatgttttttcattttcttttggccttgttatttgctcttcacag
||| || || |||||||| |||||||| || || || ||||| || || ||||| ||||||||||| ||||| ||||| ||||| ||||||||||| ||||| | ||  || | | ||   |   ||   |||       ||    |  |   || |   |||      || | |    |  | || |   |  | |||     | |                
AGCAGCACAAGAAGTAGCCGAGGGAAAACTAAACGACCATTTTCCTCTCGTTGTATGGCAAACTGGGAGTGGCACTCAAAGTAACATGAATGCTAACGAGgttaattagttactgcttcctac-tattatttgtcagctgcacctaacct---taaccttaaggtt---ctgtatacaaacatgttatagctcacatttaaggatct----------------

upper sequence: AT2G47510.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA10G02040.2 (Glycine max), 5'ss of exon 3
AGCTGCTCAGGAAGTAGCTGAGGGAAAGCTCAATGATCATTTCCCCCTTGTTGTCTGGCAAACTGGTAGTGGGACTCAGAGTAATATGAATGCTAATGAGgtaatttctttgcagtttttgagacatctgttgaggatctcattgtatatagctagctacaagagaaggctttctgtttatgttttttcattttcttttggccttgttatttgctcttcacag
||| || || |||||||| |||||||| || || || ||||| || || ||||| ||||||||||| ||||| ||||| ||||| ||||||||||| ||||| | ||  | |    ||          | ||     |   ||| | |  |||| ||  | |  |  |   |||||  ||   |  | |  |  ||                           
AGCGGCACAAGAAGTAGCCGAGGGAAAACTAAACGAACATTTTCCTCTCGTTGTATGGCAAACTGGCAGTGGCACTCAAAGTAACATGAATGCTAACGAGgttagttactagttaattagtgcttccttattcctactaatattttttg-agct-gcacctaacgttgatgttctgcatacaataatactatagctcacaat---------------------

upper sequence: AT2G47510.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA02G01920.1 (Glycine max), 5'ss of exon 3
AGCTGCTCAGGAAGTAGCTGAGGGAAAGCTCAATGATCATTTCCCCCTTGTTGTCTGGCAAACTGGTAGTGGGACTCAGAGTAATATGAATGCTAATGAGgtaatttctttgcagtttttgagacatctgttgaggatctcattgtatatagctagctacaagagaaggctttct-gtttatgttttttcattttcttttggccttgttatttgctcttcacag
||| || || ||||| || |||||||| || || || ||||| || || ||||| ||||||||||| ||||| ||||| ||||| ||||||||||| ||||| | ||  || | | ||   |    | | ||   | |     |     ||     || ||    ||    || | | | |  |||    || ||   ||                        
AGCGGCACAAGAAGTGGCCGAGGGAAAACTAAACGACCATTTTCCTCTCGTTGTATGGCAAACTGGCAGTGGCACTCAAAGTAACATGAATGCTAACGAGgttaattagttactgcttcctactattatttttgagctgcacctaaccttaatgttctgcatataaatatgttatagctaacatttaaggatcttagatt------------------------

upper sequence: AT2G47510.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv07s0005g00880.t01 (Vitis vinifera), 5'ss of exon 4
AGCTGCTCAGGAAGTAGCTGAGGGAAAGCTCAATGATCATTTCCCCCTTGTTGTCTGGCAAACTGGTAGTGGGACTCAGAGTAATATGAATGCTAATGAGgtaatttctttgcagtttttgagacatctgttgaggatctcattgtatatagctagctacaagagaaggctttctgtttatgttttttcattttcttttggccttgttatttgctcttcacag
||| || || |||||  | |||||||| || ||||||||||| || || ||  | ||||||||||| ||||| ||||| ||||| |||||||| ||||||||||        | |||| ||   | ||         |||  | || |   ||| |||  |       | | | ||   |||    ||  ||   ||  |   | |  ||||| |||  |   
AGCAGCCCAAGAAGTGTCAGAGGGAAAACTAAATGATCATTTTCCGCTCGTCATATGGCAAACTGGCAGTGGCACTCAAAGTAACATGAATGCCAATGAGgtaaggat----cggtttatgtagcttcct------gtcttctggtttgacgct-gcttta-------gttatatgcagatggaccttatttcgattccga--tggaaatttgttctaaa---

upper sequence: AT2G47510.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv14s0060g01700.t01 (Vitis vinifera), 5'ss of exon 1
AGCTGCTCAGGAAGTAGCTGAGGGAAAGCTCAATGATCATTTCCCCCTTGTTGTCTGGCAAACTGGTAGTGGGACTCAGAGTAATATGAATGCTAATGAGgtaatttctttgcagtttttgagacatctgttgaggatctcattgtatatagctagctacaagagaaggctttctgtttatgttttttcattttcttttggccttgttatttgctcttcacag
 || || || ||||| |||||||| ||| | ||||| ||||| || |||||  | ||||| || || ||||||||||| ||||| |||||||| |||||||| |        || || || | || || ||  |  ||     || |       || ||  | |   ||   |  ||  |   | |  | ||||    |  | ||                  
GGCAGCCCAAGAAGTGGCTGAGGGGAAGTTGAATGACCATTTTCCTCTTGTCATATGGCAGACAGGCAGTGGGACTCAAAGTAACATGAATGCCAATGAGgttagc-----acatttatttatacttcagtccataattatggtggaatggtacaggtagcatatggggtcattggtaaagtctctagctttttagcctcacttt------------------

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|116480251|gb|EG522843.1|EG522843
EST:     TTGTCTGGCAAACTGGTAGTGGGACTCAGAGTAATATGAATGCTAATGAG                         GTCATTGCTAATAGAGCAGCTGAGATTCTTGGTCGCAAACGTGGTGAGAAA
genomic: TTGTCTGGCAAACTGGTAGTGGGACTCAGAGTAATATGAATGCTAATGAGgtaatttctt ... ctcttcacagGTCATTGCTAATAGAGCAGCTGAGATTCTTGGTCGCAAACGTGGTGAGAAA
EST: gi|116457541|gb|EG500133.1|EG500133
EST:     TTGTCTGGCAAACTGGTAGTGGGACTCAGAGTAATATGAATGCTAATGAG                         GTCATTGCTAATAGAGCAGCTGAGATTCTTGGTCGCAAACGTGGTGAGAAA
genomic: TTGTCTGGCAAACTGGTAGTGGGACTCAGAGTAATATGAATGCTAATGAGgtaatttctt ... ctcttcacagGTCATTGCTAATAGAGCAGCTGAGATTCTTGGTCGCAAACGTGGTGAGAAA
EST: gi|164150357|gb|EL988231.1|EL988231
EST:     GTCTGGCAAACTGGTAGTGGGACTCAGAGTAATATGAATGCTAATGAG                         GTCATTGCTAATAGAGCAGCTGAGATTCTTGGTCGCAAACGTG
genomic: GTCTGGCAAACTGGTAGTGGGACTCAGAGTAATATGAATGCTAATGAGgtaatttctt ... ctcttcacagGTCATTGCTAATAGAGCAGCTGAGATTCTTGGTCGCAAACGTG
EST: gi|125035859|gb|EL108128.1|EL108128
EST:     TTGTCTGGCAAACTGGTAGTGGGACTCAGAGTAATATGAATGCTAATGAG                         GTCATTGCTAATAGAGCAG
genomic: TTGTCTGGCAAACTGGTAGTGGGACTCAGAGTAATATGAATGCTAATGAGgtaatttctt ... ctcttcacagGTCATTGCTAATAGAGCAG