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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGTACATGAGGTTTCTCCGTAAGCGTATGAACACTAAACCTTCTCACGGACCTATTCACTTCCGTGCTCCCTCCAAGATCTTCTGGCGTACCGTTCGCGGgttcgttacttcgatctctctctggttttgttatttttagctactgattcgagcaccgattttatgaatttagtactgtgaataatgtagaaagcgcata...

Basic information

species Arabidopsis thaliana
transcript AT3G07110.2
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G07110.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA16G13580.1 (Glycine max), 5'ss of exon 1
AGTACATGAGGTTTCTCCGTAAGCGTATGAACACTAAACCTTCTCACGGACCTATTCACTTCCGTGCTCCCTCCAAGATCTTCTGGCGTACCGTTCGCGGgttcgttacttcgatctct-ctctggttttgttatttttagctactgat-tcgagcaccgattttatgaatttagtactgtgaataatgtagaaagcgcata
||||| ||||||| ||||| || || |||||||| || ||||| ||||| || || |||||||| || |||||||||||||||||||| |||||||| ||||  |||  |    ||| |  |||  ||||  | | |     |||| || |  | ||  | | || |   |||     |||   |   ||    |    |  
AGTACTTGAGGTTCCTCCGCAAACGCATGAACACCAAGCCTTCCCACGGCCCCATCCACTTCCGCGCACCCTCCAAGATCTTCTGGCGCACCGTTCGTGGgtctgtttttcttttctttgttctttttttcctttctcacaatacttatatataacaatgttgttgtttttttt-cgttgttgttctcgttcgtaatttag-

upper sequence: AT3G07110.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA09G02790.1 (Glycine max), 5'ss of exon 1
AGTACATGAGGTTTCTCCGTAAGCGTATGAACACTAAACCTTCTCACGGACCTATTCACTTCCGTGCTCCCTCCAAGATCTTCTGGCGTACCGTTCGCGGgttcgttacttcgatctctctctggttttgttatttttagctactgattcgagcaccgattttatgaatttagtactgtgaataat-gtagaaagcgcata-
| ||| ||||||| || || || || |||||||| ||||| || || || || || ||||||||||| |||||||||||||||||||| |||||||| ||||  || | | |   || | | |  ||||  | |  ||   |    | |  |  ||   ||  |  |     ||  | | | |  | || |   |    |  
AATACTTGAGGTTCCTTCGCAAACGCATGAACACCAAACCCTCCCATGGCCCCATCCACTTCCGTGCCCCCTCCAAGATCTTCTGGCGCACCGTTCGTGGgtcagtcattactcactttttttttttttactttaattccttttaaagtttataact--ttccaacacaagcgtgttttaatttgtcgtggggtgtttttgt

upper sequence: AT3G07110.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA08G46860.1 (Glycine max), 5'ss of exon 1
AGTACATGAGGTTTCTCCGTAAGCGTATGAACACTAAACCTTCTCACGGACCTATTCACTTCCGTGCTCCCTCCAAGATCTTCTGGCGTACCGTTCGCGGgttcgttacttcgatctctctctggttttgttatttttagctactgattcgagcaccgattttatgaatttagtac-tgtgaataatgtagaaagcgcata
||||| || | || ||||| ||||| |||||||| || || |||||||| || || || |||||||| |||  ||||||||||||||| |||||||| ||||  || |||   | |  | |||   | |   |     |   | | |||  ||     ||  |   ||||  || | | | | |      | |   | | |
AGTACTTGCGTTTCCTCCGCAAGCGCATGAACACCAAGCCCTCTCACGGCCCCATCCATTTCCGTGCACCCGGCAAGATCTTCTGGCGCACCGTTCGTGGgtcagt-actgtcacccttttctttctctaaaaaaaacattaatttattgaagatattatcgttgcaattgggttcatttaagtgtctctgtataggtaga

upper sequence: AT3G07110.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA08G46850.1 (Glycine max), 5'ss of exon 1
AGTACATGAGGTTTCTCCGTAAGCGTATGAACACTAAACCTTCTCACGGACCTATTCACTTCCGTGCTCCCTCCAAGATCTTCTGGCGTACCGTTCGCGGgttcgttacttcgatctctctctggttttgttatttt--tagctactgattcgagcaccgattttatgaatttagtac-tgtgaataatgtagaaagcgcata
||||| || | || ||||| ||||| |||||||| || || |||||||| || || || |||||||| |||  ||||||||||||||| |||||||| ||||  |     ||   || |   |  |      |       |   | |||||  ||     || || | ||||  || | | | |||      | |   | |  
AGTACTTGCGTTTCCTCCGCAAGCGCATGAACACCAAGCCCTCTCACGGCCCCATCCATTTCCGTGCACCCGGCAAGATCTTCTGGCGCACCGTTCGTGGgtcagcactctcacccttttctttctccccccaaaaaaacattaattgattaaagatattatctt-tcaattgggttcatttaaatgtctctgtataggta--

upper sequence: AT3G07110.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA15G13670.1 (Glycine max), 5'ss of exon 1
AGTACATGAGGTTTCTCCGTAAGCGTATGAACACTAAACCTTCTCACGGACCTATTCACTTCCGTGCTCCCTCCAAGATCTTCTGGCGTACCGTTCGCGGgttcgttacttcgatctctctctggttttgttatttttagctactgattcgagcaccgatttt--atgaatttagtactgtgaataatgtagaaagcgcata-----------
| ||| |||| || ||||| || || |||||||| ||||| || || || ||||| |||||||| || ||  |||||||||||||||| |||||||| ||||  ||   |    | |   | |  || | | || |   | ||   |  | ||  |   || |  |  | ||  | ||| |   |  | ||    |    |            
AATACTTGAGATTCCTCCGCAAACGCATGAACACCAAACCCTCCCATGGCCCTATCCACTTCCGCGCCCCAGCCAAGATCTTCTGGCGCACCGTTCGTGGgtctgtctgtcactttttgttattattatttcatctcatg-tataaaacctagttcaatttcttaaaaagttgggaactttttgtgttttaatctgttgttgggtttttgtag

upper sequence: AT3G07110.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: Vv07s0005g06490.t01 (Vitis vinifera), 5'ss of exon 1
AGTACATGAGGTTTCTCCGTAAGCGTATGAACACTAAACCTTCTCACGGACCTATTCACTTCCGTGCTCCCTCCAAGATCTTCTGGCGTACCGTTCGCGGgttcgttacttcgatctctctctggttttgttatttttagctactgattcgagcaccgattttatgaatttagtactgtgaataatgtagaaagcgcata--------
||||| ||||||| ||||| ||||| |||||||| || || ||||| || || || |||||||| || |||||||||||| ||||||||||| | || ||||  |||| |   || | | ||||   ||||  || | ||  |   ||  |||   |     | ||    |  |  |   ||| || || |    |  |         
AGTACCTGAGGTTCCTCCGCAAGCGCATGAACACCAAGCCCTCTCATGGGCCCATCCACTTCCGCGCCCCCTCCAAGATCCTCTGGCGTACCATCCGTGGgtgagttatt--aatatttttctg---ttgtccttatcag--aaaaatgagagtgtcatgggtctggccctcctggttcaaatgatcta-atgctgtttggtttttct

upper sequence: AT3G07110.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: Vv05s0029g00020.t01 (Vitis vinifera), 5'ss of exon 1
AGTACATGAGGTTTCTCCGTAAGCGTATGAACACTAAACCTTCTCACGGACCTATTCACTTCCGTGCTCCCTCCAAGATCTTCTGGCGTACCGTTCGCGGgttcgtt--actt------cgatctctctctggttttgttatttttagctactga--ttcgagcaccgattttatgaatttagtactgtgaataatgtagaaagcgcata-----------------------------
||||  |  | || ||||| ||||| |||||||| || ||||| || || || || |||||||| ||||||||||||||| ||||| | ||| | |||||||  | |  ||||        || | | ||||  |||  ||||    |  ||  |  ||    ||    ||| ||  ||||| || | |||    |  |   |||  |||                             
AGTATCTTCGCTTCCTCCGCAAGCGCATGAACACCAAGCCTTCCCATGGCCCAATCCACTTCCGCGCTCCCTCCAAGATCCTCTGGAGGACCATACGCGGgtgagcttgacttatcattttatatttttctgcattttctattccacgaaacgaagtttttttcattattttcatttatttattaatatgatgctttgattgagccaataaaatcccaaaatctctttctggtttgtag

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|47832259|gb|CK121943.1|CK121943
EST:     CCTATTCACTTCCGTGCTCCCTCCAAGATCTTCTGGCGTACCGTTCGCGG                         TATGATTCCACACAAGACTAAGCGTGGAGCTAATGCACTTGCCCGCTTGAA
genomic: CCTATTCACTTCCGTGCTCCCTCCAAGATCTTCTGGCGTACCGTTCGCGGgttcgttact ... tgtgtggcagTATGATTCCACACAAGACTAAGCGTGGAGCTAATGCACTTGCCCGCTTGAA
EST: gi|116476045|gb|EG518637.1|EG518637
EST:     CCTATTCACTTCCGTGCTCCCTCCAAGATCTTCTGGCGTACCGTTCGCGG                         TATGATTCCACACAAGACTAAGCGTGGAGCTAATGCACTTGCCCGCTTGAA
genomic: CCTATTCACTTCCGTGCTCCCTCCAAGATCTTCTGGCGTACCGTTCGCGGgttcgttact ... tgtgtggcagTATGATTCCACACAAGACTAAGCGTGGAGCTAATGCACTTGCCCGCTTGAA
EST: gi|164145467|gb|ES046407.1|ES046407
EST:     GGCGTACCGTTCGCGG                         TATGATTCCACACAAGACTAAGCGTGGAGCTAATGCACTTGCCCGCTTGAA
genomic: GGCGTACCGTTCGCGGgttcgttact ... tgtgtggcagTATGATTCCACACAAGACTAAGCGTGGAGCTAATGCACTTGCCCGCTTGAA
EST: gi|116476043|gb|EG518635.1|EG518635
EST:     CCTATTCACTTCCGTGCTCCCTCCAAGATCTTCTGGCGTACCGTTCGCGG                         TATGATTCCACACAAGACTAAGCGTGGAGCTAATGCACTTGCCCGCTTGAA
genomic: CCTATTCACTTCCGTGCTCCCTCCAAGATCTTCTGGCGTACCGTTCGCGGgttcgttact ... tgtgtggcagTATGATTCCACACAAGACTAAGCGTGGAGCTAATGCACTTGCCCGCTTGAA
EST: gi|47828023|gb|CK117707.1|CK117707
EST:     CCTATTCACTTCCGTGCTCCCTCCAAGATCTTCTGGCGTACCGTTCGCGG                         TATGATTCCACACAAGACTAAGCGTGGAGCTAATGCACTTGCCCGCTTGAA
genomic: CCTATTCACTTCCGTGCTCCCTCCAAGATCTTCTGGCGTACCGTTCGCGGgttcgttact ... tgtgtggcagTATGATTCCACACAAGACTAAGCGTGGAGCTAATGCACTTGCCCGCTTGAA
EST: gi|125030007|gb|EL102276.1|EL102276
EST:     CTTCTGGCGTACCGTTCGCGG                         TATGATTCCACACAAGACTAAGCGTGGAGCTAATGCACTTACCCGCTTGAA
genomic: CTTCTGGCGTACCGTTCGCGGgttcgttact ... tgtgtggcagTATGATTCCACACAAGACTAAGCGTGGAGCTAATGCACTTGCCCGCTTGAA
EST: gi|116476053|gb|EG518645.1|EG518645
EST:     TTCTGGCGTACCGTTCGCGG                         TATGATTCCACACAAGACTAAGCGTGGAGCTAATGCACTTGCCCGCTTGAA
genomic: TTCTGGCGTACCGTTCGCGGgttcgttact ... tgtgtggcagTATGATTCCACACAAGACTAAGCGTGGAGCTAATGCACTTGCCCGCTTGAA
EST: gi|116476052|gb|EG518644.1|EG518644
EST:     CCTATTCACTTCCGTGCTCCCTCCAAGATCTTCTGGCGTACCGTTCGCGG                         TATGATTCCACACAAGACTAAGCGTGGAGCTAATGCACTTGCCCGCTTGAA
genomic: CCTATTCACTTCCGTGCTCCCTCCAAGATCTTCTGGCGTACCGTTCGCGGgttcgttact ... tgtgtggcagTATGATTCCACACAAGACTAAGCGTGGAGCTAATGCACTTGCCCGCTTGAA
EST: gi|86071402|gb|DR367159.1|DR367159
EST:     CCTATTCACTTCCGTGCTCCCTCCAAGATCTTCTGGCGTACCGTTCGCGG                         TATGATTCCACACAAGACTAAGCGTGGAGCTAATGCACTTGCCCGCTTGAA
genomic: CCTATTCACTTCCGTGCTCCCTCCAAGATCTTCTGGCGTACCGTTCGCGGgttcgttact ... tgtgtggcagTATGATTCCACACAAGACTAAGCGTGGAGCTAATGCACTTGCCCGCTTGAA
EST: gi|47828463|gb|CK118147.1|CK118147
EST:     CCTATTCACTTCCGTGCTCCCTCCAAGATCTTCTGGCGTACCGTTCGCGG                         TATGATTCCACACAAGACTAAGCGTGGAGCTAATGCACTTGCCCGCTTGAA
genomic: CCTATTCACTTCCGTGCTCCCTCCAAGATCTTCTGGCGTACCGTTCGCGGgttcgttact ... tgtgtggcagTATGATTCCACACAAGACTAAGCGTGGAGCTAATGCACTTGCCCGCTTGAA
EST: gi|86071400|gb|DR367157.1|DR367157
EST:     CCTATTCACTTCCGTGCTCCCTCCAAGATCTTCTGGCGTACCGTTCGCGG                         TATGATTCCACACAAGACTAAGCGTGGAGCTAATGCACTTGCCCGCTTGAA
genomic: CCTATTCACTTCCGTGCTCCCTCCAAGATCTTCTGGCGTACCGTTCGCGGgttcgttact ... tgtgtggcagTATGATTCCACACAAGACTAAGCGTGGAGCTAATGCACTTGCCCGCTTGAA
EST: gi|164050239|gb|ES071405.1|ES071405
EST:     TCTTCTGGCGTACCGTTCGCGG                         TATGATTCCACACAAGACTAAGCGTGGAGCTAATGCACTTGCCCGCTTGAA
genomic: TCTTCTGGCGTACCGTTCGCGGgttcgttact ... tgtgtggcagTATGATTCCACACAAGACTAAGCGTGGAGCTAATGCACTTGCCCGCTTGAA
EST: gi|164015052|gb|ES195831.1|ES195831
EST:     CCTATTCACTTCCGTGCTCCCTCCAAGATCTTCTGGCGTACCGTTCGCGG                         TATGATTCCACACAAGACTAAGCGTGGAGCTAATGCA
genomic: CCTATTCACTTCCGTGCTCCCTCCAAGATCTTCTGGCGTACCGTTCGCGGgttcgttact ... tgtgtggcagTATGATTCCACACAAGACTAAGCGTGGAGCTAATGCA
EST: gi|86071403|gb|DR367160.1|DR367160
EST:     CCTATTCACTTCCGTGCTCCCTCCAAGATCTTCTGGCGTACCGTTCGCGG                         TATGATTCCACACAAGACTAAGCGTGGAGCTAATGCACTTGCCCGCTTGAA
genomic: CCTATTCACTTCCGTGCTCCCTCCAAGATCTTCTGGCGTACCGTTCGCGGgttcgttact ... tgtgtggcagTATGATTCCACACAAGACTAAGCGTGGAGCTAATGCACTTGCCCGCTTGAA
EST: gi|125255044|gb|EL269129.1|EL269129
EST:     CGTACCGTTCGCGG                         TATGATTCCACACAAGACTAAGCGTGGAGCTAATGCACTTGCCCGCTTGAA
genomic: CGTACCGTTCGCGGgttcgttact ... tgtgtggcagTATGATTCCACACAAGACTAAGCGTGGAGCTAATGCACTTGCCCGCTTGAA
EST: gi|125048029|gb|EL120298.1|EL120298
EST:     CCTATTCACTTCCGTGCTCCCTCCAAGATCTTCTGGCGTACCGTTCGCGG                         TATGATTCCACACAAGACTAAGCGTGGAGCTAATGCACTTGCCC
genomic: CCTATTCACTTCCGTGCTCCCTCCAAGATCTTCTGGCGTACCGTTCGCGGgttcgttact ... tgtgtggcagTATGATTCCACACAAGACTAAGCGTGGAGCTAATGCACTTGCCC
EST: gi|47832308|gb|CK121992.1|CK121992
EST:     CCTATTCACTTCCGTGCTCCCTCCAAGATCTTCTGGCGTACCGTTCGCGG                         TATGATTCCACACAAGACTAAGCGTGGAGCTAATGCACTTGCCCGCTTGAA
genomic: CCTATTCACTTCCGTGCTCCCTCCAAGATCTTCTGGCGTACCGTTCGCGGgttcgttact ... tgtgtggcagTATGATTCCACACAAGACTAAGCGTGGAGCTAATGCACTTGCCCGCTTGAA
EST: gi|86071404|gb|DR367161.1|DR367161
EST:     CCTATTCACTTCCGTGCTCCCTCCAAGATCTTCTGGCGTACCGTTCGCGG                         TATGATTCCACACAAGACTAAGCGTGGAGCTAATGCACTTGCCCGCTTGAA
genomic: CCTATTCACTTCCGTGCTCCCTCCAAGATCTTCTGGCGTACCGTTCGCGGgttcgttact ... tgtgtggcagTATGATTCCACACAAGACTAAGCGTGGAGCTAATGCACTTGCCCGCTTGAA
EST: gi|47830930|gb|CK120614.1|CK120614
EST:     CCTATTCACTTCCGTGCTCCCTCCAAGATCTTCTGGCGTACCGTTCGCGG                         TATGATTCCACACAAGACTAAGCGTGGAGCTAATGCACTTGCCCGCTTGAA
genomic: CCTATTCACTTCCGTGCTCCCTCCAAGATCTTCTGGCGTACCGTTCGCGGgttcgttact ... tgtgtggcagTATGATTCCACACAAGACTAAGCGTGGAGCTAATGCACTTGCCCGCTTGAA
EST: gi|125313020|gb|EL327105.1|EL327105
EST:     CCTATTCACTTCCGTGCTCCCTCCAAGATCTTCTGGCGTACCGTTCGCGG                         TATGATTCCACACAAGACTAAGCGTGGAGCTAATGCACTTGCCCGCTTGA
genomic: CCTATTCACTTCCGTGCTCCCTCCAAGATCTTCTGGCGTACCGTTCGCGGgttcgttact ... tgtgtggcagTATGATTCCACACAAGACTAAGCGTGGAGCTAATGCACTTGCCCGCTTGA
EST: gi|116447425|gb|EG490017.1|EG490017
EST:     CCTATTCACTTCCGTGCTCCCTCCAAGATCTTCTGGCGTACCGTTCGCGG                         TATGATTCCACACAAGACTAAGCGTGGAGCTAATGCACTTGCCCGCTTGAA
genomic: CCTATTCACTTCCGTGCTCCCTCCAAGATCTTCTGGCGTACCGTTCGCGGgttcgttact ... tgtgtggcagTATGATTCCACACAAGACTAAGCGTGGAGCTAATGCACTTGCCCGCTTGAA
EST: gi|116476054|gb|EG518646.1|EG518646
EST:     CCTATTCACTTCCGTGCTCCCTCCAAGATCTTCTGGCGTACCGTTCGCGG                         TATGATTCCACACAAGACTAAGCGTGGAGCTAATGCACTTGCCCGCTTGAA
genomic: CCTATTCACTTCCGTGCTCCCTCCAAGATCTTCTGGCGTACCGTTCGCGGgttcgttact ... tgtgtggcagTATGATTCCACACAAGACTAAGCGTGGAGCTAATGCACTTGCCCGCTTGAA
EST: gi|124927244|gb|EL004999.1|EL004999
EST:     CCTATTCACTTCCGTGCTCCCTCCAAGATCTTCTGGCGTACCGTTCGCGG                         TATGATTCCACACAAGACTAAGCGTGGAGCTAATGCACTTGCCCGCTTGAA
genomic: CCTATTCACTTCCGTGCTCCCTCCAAGATCTTCTGGCGTACCGTTCGCGGgttcgttact ... tgtgtggcagTATGATTCCACACAAGACTAAGCGTGGAGCTAATGCACTTGCCCGCTTGAA
EST: gi|125308477|gb|EL322562.1|EL322562
EST:     CCTATTCACTTCCGTGCTCCCTCCAAGATCTTCTGGCGTACCGTTCGCGG                         TATGATTCCACACAAGACTAAGCGTGGAGCTAATGCACTTGCCCGC
genomic: CCTATTCACTTCCGTGCTCCCTCCAAGATCTTCTGGCGTACCGTTCGCGGgttcgttact ... tgtgtggcagTATGATTCCACACAAGACTAAGCGTGGAGCTAATGCACTTGCCCGC

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGTACATGAGGTTTCTCCGTAAGCGTATGAACACTAAACCTTCTCACGGACCTATTCACTTCCGTGCTCCCTCCAAGATCTTCTGGCGTACCGTTCGCGGgttcgttacttcgatctctctctggttttgttatttttagctactgattcgagcaccgattttatgaatttagtactgtgaataatgtagaaagcgcata

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctctctct
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