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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACTGTTGCCAAGAGCATTGAGTTCAAGGATAGAATTAAGAACGTTGGTGCCAGTCTTGTGAAACAGGTTGCTAACGCCACAAATGACGTAGCTGGTGATGgtaagtgttccctttcaatggattaaaacgttttttctgtttttgctaattgggttgttagtctcctatctactcatattaatcggtgtttttgtatctgacaaaatatatggtatgcgttacag

Basic information

species Arabidopsis thaliana
transcript AT2G33210.2
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G33210.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os10g32550.1 (Oryza sativa), 5'ss of exon 4
ACTGTTGCCAAGAGCATTGAGTTCAAGGATAGAATTAAGAACGTTGGTGCCAGTCTTGTGAAACAGGTTGCTAACGCCACAAATGACGTAGCTGGTGATGgtaagtgttccctttcaatggattaaaacgttttttctgtttttgctaattgggttgttagtctcctatctactcatattaatcggtgtttttgtatctgacaaaatatatggtatgcgttacag
||||||||||||||||||||||||||||||||| | ||||| |||||||| || ||||| || ||||||||||| || || |||||    ||||| ||||||| |  |   |||  |      |     |  |  |  ||  ||     || |  |  ||      |   ||   ||  ||| |  |        |||| |                        
ACTGTTGCCAAGAGCATTGAGTTCAAGGATAGAGTCAAGAATGTTGGTGCAAGCCTTGTAAAGCAGGTTGCTAATGCGACCAATGATACTGCTGGAGATGgtatggctgtacttgtaccattctgttgagaatacttggtccttct--gttagcattctacaactttggttatatattataaacaattccagaccatctcat-----------------------

upper sequence: AT2G33210.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os03g04970.1 (Oryza sativa), 5'ss of exon 4
ACTGTTGCCAAGAGCATTGAGTTCAAGGATAGAATTAAGAACGTTGGTGCCAGTCTTGTGAAACAGGTTGCTAACGCCACAAATGACGTAGCTGGTGATGgtaagtgtt--ccctttcaatggattaaaacgttttttctgtttttgctaattgggttgttagtctcctatctactcatattaatcggtgtttttgtatctgacaaaatatatggtatgcgttacag
|||||||||||||||||||| ||||   | ||  ||||||| |||||||| || |||||||| ||||||||||| || || || |||   ||||| ||||||| |  ||  | |||   ||    | | |  ||     |   | | ||  |  ||    | || |    | |  | ||    || ||  ||  | ||  | ||                       
ACTGTTGCCAAGAGCATTGAATTCAGTAACAGGGTTAAGAATGTTGGTGCAAGCCTTGTGAAGCAGGTTGCTAATGCGACTAACGACACTGCTGGGGATGgtatggcttaactcttctcatatgctcatatattgcccatcaatcttcttttctgg--acttgtattaggtttgatgatg--gattggaattgatctaagtcac-----------------------

upper sequence: AT2G33210.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G416120_T01 (Zea mays), 5'ss of exon 3
ACTGTTGCCAAGAGCATTGAGTTCAAGGATAGAATTAAGAACGTTGGTGCCAGTCTTGTGAAACAGGTTGCTAACGCCACAAATGACGTAGCTGGTGATGgtaagtgttccctttcaatggattaaaacgttttttctgtttttgctaattgggttgttagtctcctatctactcatattaatcggtgt-ttttgtatctgacaaaatatatggtatgcgttacag
|||||||| ||||||||||| || ||||||||| | ||||| |||||||| || |||||||||||||||||||| || || ||||||   ||||||||||||| |   ||| ||    ||            ||||   || |||  ||    |    | ||||| | |  |    ||||||   || | | || |      | ||| || |              
ACTGTTGCGAAGAGCATTGAATTTAAGGATAGAGTAAAGAATGTTGGTGCGAGCCTTGTGAAACAGGTTGCTAATGCAACTAATGACACTGCTGGTGATGgtatgacatcctttgtgctga-----------ttttggtttattgtgaacaaag--aatggtctc-tgtaaaagattattaaggagtttgtcttctgaacttccaaacatgtta------------

upper sequence: AT2G33210.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G458208_T01 (Zea mays), 5'ss of exon 3
ACTGTTGCCAAGAGCATTGAGTTCAAGGATAGAATTAAGAACGTTGGTGCCAGTCTTGTGAAACAGGTTGCTAACGCCACAAATGACGTAGCTGGTGATGgta-agtgttccctttcaatggattaaaacgttttttctgtttttgcta-attgggttgttagtctcctatctactcatattaatcggtgtttttgtatctgacaaaatatatggtatgcgttacag
||||| || ||||||||||| || ||||||||| | ||||| |||||||| || |||||||||||||||||||| || || ||||||   ||||| |||||||     | |  | |     | |||   ||         |  || ||  |   | ||||||    |  | ||| || | | ||      |   ||| |||                          
ACTGTAGCAAAGAGCATTGAATTTAAGGATAGAGTAAAGAATGTTGGTGCAAGCCTTGTGAAACAGGTTGCTAATGCAACTAATGACACTGCTGGCGATGgtatgacatcctttgtgtgctggttattgcgaacaaagaatggtttctgtaaaagattgtta----cagagctagtcttctcaacttccatacatgtttcttgt-----------------------

upper sequence: AT2G33210.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA20G19980.1 (Glycine max), 5'ss of exon 4
ACTGTTGCCAAGAGCATTGAGTTCAAGGATAGAATTAAGAACGTTGGTGCCAGTCTTGTGAAACAGGTTGCTAACGCCACAAATGACGTAGCTGGTGATGgtaagtgttccctttcaatg--gattaaaacgttttttctgtttttgctaattgggttgttagtctcctatctactcatattaatcggtgtttttgtatctgacaaaatatatggtatgcgttacag
|||||||| ||||||||||| |||||||||| | ||||||| ||||||||||||||||| || ||||||||||| || || ||||| || |||||||||||||||        | ||| |  ||||  |     |  |   ||||||   ||||| |  || ||  | | |  | |  ||  | |   || ||  ||   |                          
ACTGTTGCAAAGAGCATTGAATTCAAGGATAAAGTTAAGAATGTTGGTGCCAGTCTTGTAAAGCAGGTTGCTAATGCTACTAATGATGTGGCTGGTGATGgtaagctgatatatccaaagaagattgtacttcatagtaaatttttgtctattggttacttcgttacttgtacaatattag-attgcatggttccgtggtt--------------------------

upper sequence: AT2G33210.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA10G25630.1 (Glycine max), 5'ss of exon 4
ACTGTTGCCAAGAGCATTGAGTTCAAGGATAGAATTAAGAACGTTGGTGCCAGTCTTGTGAAACAGGTTGCTAACGCCACAAATGACGTAGCTGGTGATGgtaagtgttccctttcaatggattaaaacgttttttctgtttttgctaattgggttgttagtctcctatctactcatatta-atcggtgtttttgtatctgacaaaatatatggtatgcgttacag
|||||||| ||||||||||| |||||||||| | ||||||| ||||||||||||||||| || |||||||| || || || ||||| || |||||||||||||||        | |||      | ||  || |   |  |  |     ||    | |||||  | |   ||||  ||  | |   |  |   |||   ||  |||                    
ACTGTTGCAAAGAGCATTGAATTCAAGGATAAAGTTAAGAATGTTGGTGCCAGTCTTGTAAAGCAGGTTGCAAATGCTACTAATGATGTGGCTGGTGATGgtaagctgatatatccaa------agaagattgtgcttaatagtcaacttttctctattagttactttgttacttgtacaatactagattgcatgtggttgttaaa--------------------

upper sequence: AT2G33210.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA20G33910.1 (Glycine max), 5'ss of exon 4
ACTGTTGCCAAGAGCATTGAGTTCAAGGATAGAATTAAGAACGTTGGTGCCAGTCTTGTGAAACAGGTTGCTAACGCCACAAATGACGTAGCTGGTGATGgtaagtgttccctttcaa--tggattaaaacgttttttctgtttttgctaattgggttgttagtctcctatctactcatattaatcggtgtttttgtatctgacaaaatatatggtatgcgttacag
|| ||||| ||||||||||| |||||||| | | | |||||  | |||||||||||||| || ||||||||||| || || |||||||| |||||||||||||||   |    | ||   ||||||| |   ||| ||   | ||    |         || |   | |   || | ||| | |  |||    |   || || ||                      
ACCGTTGCTAAGAGCATTGAATTCAAGGACAAAGTCAAGAATATCGGTGCCAGTCTTGTAAAGCAGGTTGCTAATGCTACTAATGACGTGGCTGGTGATGgtaagctattatatccatactggattatac--tttattaaatcttcagca---------ttggctactttgttattaataatgag-ggtacaatctaatttggcag---------------------

upper sequence: AT2G33210.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA10G33680.1 (Glycine max), 5'ss of exon 4
ACTGTTGCCAAGAGCATTGAGTTCAAGGATAGAATTAAGAACGTTGGTGCCAGTCTTGTGAAACAGGTTGCTAACGCCACAAATGACGTAGCTGGTGATGgtaagtgttccctttc--aatggattaaaacgttttttctgtttttgctaattgggttgttagtctcctatctactcatattaatc-ggtgtttttgtatctgacaaaatatatggtatgcgttacag
|| ||||| ||||||||||| |||||||||| | | |||||| | ||||||||||| || || |||||||| || || || ||||| || |||||||| ||||||   |    | |  | ||| ||| |   | || |    | ||    ||||  |  || ||     | | | |  || ||||  ||     || ||  || ||                      
ACCGTTGCTAAGAGCATTGAATTCAAGGATAAAGTCAAGAACATCGGTGCCAGTCTCGTAAAGCAGGTTGCCAATGCTACCAATGATGTGGCTGGTGACGgtaagccattatatccgtactgggttatactttattgttaaatcttcagcattgactactttgttattaaacaaatggtaataatgagggaacattctaattggcag---------------------

upper sequence: AT2G33210.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv05s0051g00340.t01 (Vitis vinifera), 5'ss of exon 4
ACTGTTGCCAAGAGCATTGAGTTCAAGGATAGAATTAAGAACGTTGGTGCCAGTCTTGTGAAACAGGTTGCTAACGCCACAAATGACGTAGCTGGTGATGgtaagtgttccctttcaatggattaaaacgttttttctgtttttgctaattgggttgttagtctcctatctactcatattaatcggtgtttttgtatctgacaaaatatatggtatgcgttacag
|||||||| || |||||||||||||||||| |||| ||||| |||||||| || ||||||||||||||||| || ||||| ||||| ||||| || |||||||||| |||   |        ||  |||   |||  || || |  |||   |||| | |   | |||| |  | ||| |    |    || || |  |||   |||   |              
ACTGTTGCAAAAAGCATTGAGTTCAAGGATCGAATCAAGAATGTTGGTGCAAGCCTTGTGAAACAGGTTGCAAATGCCACTAATGATGTAGCAGGAGATGgtaagttttcatct-------gttgcaac---tttagtggttctattaaaatggtt-tgaagattctattt--tgataattgatgcatcttctgcaaatgatttaatggttaa------------

upper sequence: AT2G33210.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: EFJ32351 (Selaginella moellendorffii), 5'ss of exon 2
ACTGTTGCCAAGAGCATTGAGTTCAAGGATAGAATTAAGAACGTTGGTGCCAGTCTTGTGAAACAGGTTGCTAACGCCACAAATGACGTAGCTGGTGATGgtaagtgttccctttcaatggattaaaacgttttttctgtttttgcta-attgggttgttagtctcctatctactcatattaatcggtgtttttgtatctgacaaaatatatggtatgcgttacag
||||||||||||||||| || |||||||| |   | |||||||||||||| || || |||||||| || || ||||| || || || || || || |||||||        ||| |  | | ||    | ||| |  | | ||  ||  ||  |||   |||                                                                
ACTGTTGCCAAGAGCATCGACTTCAAGGACAAGCTGAAGAACGTTGGTGCTAGCCTCGTGAAACAAGTCGCCAACGCTACCAACGATGTGGCAGGAGATGgta-----cttcttcctctagtttctttcttttctcttttcttaactgtatctggtgtgtag----------------------------------------------------------------

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|124923984|gb|EL002122.1|EL002122
EST:     GTGAAACAGGTTGCTAACGCCACAAATGACGTAGCTGGTGATG                         GAACAACGTGTGCCACAGTCCTTACTAGAGCTATCTTCACGGAAGGTTGTA
genomic: GTGAAACAGGTTGCTAACGCCACAAATGACGTAGCTGGTGATGgtaagtgttc ... tgcgttacagGAACAACGTGTGCCACAGTCCTTACTAGAGCTATCTTCACGGAAGGTTGTA
EST: gi|116483326|gb|EG525918.1|EG525918
EST:     CAGTCTTGTGAAACAGGTTGCTAACGCCACAAATGACGTAGCTGGTGATG                         GAACAACGTGTGCCACAGTCCTTACTAGAGCTATCTTCACGGAAGGTTGTA
genomic: CAGTCTTGTGAAACAGGTTGCTAACGCCACAAATGACGTAGCTGGTGATGgtaagtgttc ... tgcgttacagGAACAACGTGTGCCACAGTCCTTACTAGAGCTATCTTCACGGAAGGTTGTA
EST: gi|47829841|gb|CK119525.1|CK119525
EST:     CAGTCTTGTGAAACAGGTTGCTAACGCCACAAATGACGTAGCTGGTGATG                         GAACAACGTGTGCCACAGTCCTTACTAGAGCTATCTTCACGGAAGGTTGTA
genomic: CAGTCTTGTGAAACAGGTTGCTAACGCCACAAATGACGTAGCTGGTGATGgtaagtgttc ... tgcgttacagGAACAACGTGTGCCACAGTCCTTACTAGAGCTATCTTCACGGAAGGTTGTA
EST: gi|116483327|gb|EG525919.1|EG525919
EST:     CAGTCTTGTGAAACAGGTTGCTAACGCCACAAATGACGTAGCTGGTGATG                         GAACAACGTGTGCCACAGTCCTTACTAGAGCTATCTTCACGGAAGGTTGTA
genomic: CAGTCTTGTGAAACAGGTTGCTAACGCCACAAATGACGTAGCTGGTGATGgtaagtgttc ... tgcgttacagGAACAACGTGTGCCACAGTCCTTACTAGAGCTATCTTCACGGAAGGTTGTA