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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtataatgttccttccttagattgaatcatattctgtgttctgtgaattacaagcttcaaaattgtcttctctattgattgatgagaccaaagcttgtggcaatacatgaatcgatccataatttttttttggtgttatgaggatttgtggagctttgtatctcattgaatcttgtaaattcatgtggaacagGATTATGTACCGACTGTTTTCGATAACTTTAGCGCAAATGTGGTTGTTAATGGAGCCACTGTGAATCTTGGGCTATGGGATACCGCAG

Basic information

species Arabidopsis thaliana
transcript AT2G17800.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G17800.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA02G05160.1 (Glycine max), 3'ss of exon 1
gtataatgttccttccttagattgaatcatattctgtgttctgtgaattacaagcttcaaaattgtcttctctattgattgatgagaccaaagcttgtggcaatacatga-atcgatccataatttttttttggtgttatgaggatttgtggagctttgtatctcattgaatcttgtaaattcatgtggaa-cagGATTATGTACCGACTGTTTTCGATAACTTTAGCGCAAATGTGGTTGTTAATGGAGCCACTGTGAATCTTGGGCTATGGGATACCGCAG
                                                                                      |       |  || | ||| |||| ||      |||| | | |||     | | ||  | |    || | || | |    ||| ||||  | | ||  | |||||  |||||||||| || ||||||||||| || || ||||||||||||||||| |||||||||||||| ||||| ||  ||||||| || || |
--------------------------------------------------------------------------------------attgtgtttcatg-ctatatatgatattatcttataaatatgtttattgataaagaaaaat----gatcattattt----ttgcatctcttcactttgtttggaaatagGATTATGTGCCAACTGTTTTCGACAATTTCAGCGCAAATGTGGTTGTGAATGGAGCCACTGTTAATCTAGGATTATGGGACACTGCCG

upper sequence: AT2G17800.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA16G23340.1 (Glycine max), 3'ss of exon 1
gtataatgttccttccttagattgaatcatattctgtgttctgtgaattacaagcttcaaaattgtcttctctattgattgatgagaccaaagcttgtggcaatacatga-atcgatccataatttttttttggtgttatgaggatttgtggagctttgtatctcattgaatcttgtaaattcatgtggaa-cagGATTATGTACCGACTGTTTTCGATAACTTTAGCGCAAATGTGGTTGTTAATGGAGCCACTGTGAATCTTGGGCTATGGGATACCGCAG
                                                                                      |       |    || ||| |||| |||     |||| | |  ||     ||  ||        | |   |  | | |  ||  ||||  | | ||  | |||||  |||||||||| || ||||||||||| || || ||||||||||||||||| |||||||||||||| ||||| ||  ||||||| || || |
-------------------------------------------------------------------------------------aattgtgtttcaatgctatatatgatatcctcttataaatatgctt----attgagaaa------gaaagataattttttttttcatctcttcactttgtttggaaatagGATTATGTGCCAACTGTTTTCGACAATTTCAGCGCAAATGTGGTTGTGAATGGAGCCACTGTTAATCTAGGATTATGGGACACTGCCG

upper sequence: AT2G17800.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA01G36880.4 (Glycine max), 3'ss of exon 1
gtataatgttccttccttagattgaatcatattctgtgttctgtgaattacaagcttcaaaattgtcttctctattgattgatgagaccaaagcttgtggcaatacatgaatcgatccataatttttttttggtgttatgaggatttgtggagct-ttgtatctcattgaatcttgtaaattcatgtggaacagGATTATGTACCGACTGTTTTCGATAACTTTAGCGCAAATGTGGTTGTTAATGGAGCCACTGTGAATCTTGGGCTATGGGATACCGCAG
                                                                                         |    || |    |    ||  |  | |  |  || |||| |  ||| ||||| |||||   | || ||  ||  | ||| || ||||| ||| |     ||||||||||||| ||||||||||| || || || ||||||||||||||||| |||||   || ||||||||| ||  | |||||||| || |
----------------------------------------------------------------------------------------tattatttattatgaagtttggtt--aacgttttttgttttgttttgtaatgagcatttggttaactatttgattacgttgtat-ttgtatattta---aaaacagGATTATGTGCCGACTGTTTTTGACAATTTCAGCGCAAATGTGGTTGTCAATGGGAGCATTGTGAATCTGGGTTTGTGGGATACTGCTG

upper sequence: AT2G17800.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA01G36880.2 (Glycine max), 3'ss of exon 2
gtataatgttccttccttagattgaatcatattctgtgttctgtgaattacaagcttcaaaattgtcttctctattgattgatgagaccaaagcttgtggcaatacatgaatcgatccataatttttttttggtgttatgaggatttgtggagct-ttgtatctcattgaatcttgtaaattcatgtggaacagGATTATGTACCGACTGTTTTCGATAACTTTAGCGCAAATGTGGTTGTTAATGGAGCCACTGTGAATCTTGGGCTATGGGATACCGCAG------------
                                                                                         |    || |    |    ||  |  | |  |  || |||| |  ||| ||||| |||||   | || ||  ||  | ||| || ||||| ||| |     ||||||||||||| ||||||||||| || || || ||||||||||||||||| |||||   || ||||||||| ||  | |||||||| || |            
----------------------------------------------------------------------------------------tattatttattatgaagtttggtt--aacgttttttgttttgttttgtaatgagcatttggttaactatttgattacgttgtat-ttgtatattta---aaaacagGATTATGTGCCGACTGTTTTTGACAATTTCAGCGCAAATGTGGTTGTCAATGGGAGCATTGTGAATCTGGGTTTGTGGGATACTGCTGGTAATGCTGCGT

upper sequence: AT2G17800.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA11G08380.1 (Glycine max), 3'ss of exon 2
gtataatgttccttccttagattgaatcatattctgtgttctgtgaattacaagcttcaaaattgtcttctctattgattgatgagaccaaagcttgtggcaatacatgaatcgatccataatttttttttggtgttatgaggatttgtggagctttgtatctcattgaatcttgtaaattcatgtggaacagGATTATGTACCGACTGTTTTCGATAACTTTAGCGCAAATGTGGTTGTTAATGGAGCCACTGTGAATCTTGGGCTATGGGATACCGCAG
                                                                                        |  |  ||||   | || |    | | |  |   |||||||||      || ||| |      |  ||  || |    |   | ||||  ||| |     ||||||||||||| ||||||||||| || || || || |||||||||||||| |||||   || ||||||||| ||  | |||||||| || |
--------------------------------------------------------------------------------------gtctcattttgtt-tattataaagtttggttaacgttttttttttataaacattaggtta---acaatttgataacgttgtatttgttgtgtattta---aaaacagGATTATGTGCCGACTGTTTTTGACAATTTCAGTGCAAATGTGGTTGTCAATGGGAGCATTGTGAATCTGGGTTTGTGGGATACTGCTG

upper sequence: AT2G17800.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv04s0023g03860.t01 (Vitis vinifera), 3'ss of exon 2
gtataatgttccttccttagattgaatcatattctgtgttctgtgaattacaagcttcaaaattgtcttctctattgattgatgagaccaaagcttgtggcaatacatgaatcgatccataatttttttttggtgttatgaggatttgtggagctttgtatctcattgaatcttgtaaattcatgtggaacagGATTATGTACCGACTGTTTTCGATAACTTTAGCGCAAATGTGGTTGTTAATGGAGCCACTGTGAATCTTGGGCTATGGGATACCGCAG
                                                                                      |   || |||     || |       |     || ||| ||||||    ||   |||       |  |||  | | | |||      | | ||||  || | ||||||||||||| || ||||||||||| || || || |||||||||||||| ||||| |||||||| || |||||| | |||||||| || |
------------------------------------------------------------------------------------gaaaagaatcttccaaaaaaattaaggacttcggatcattcttttttttctttgatagg---caaaggacttattgttttatt------tttgaattattgggaaacagGATTATGTGCCAACTGTTTTCGACAATTTCAGTGCAAATGTGGTTGTCAATGGGGCCACTGTTAACCTTGGGTTGTGGGATACTGCTG

upper sequence: AT2G17800.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: PP1S165_55V6.1 (Physcomitrella patens), 3'ss of exon 1
gtataatgttccttccttagattgaatcatattctgtgttctgtgaattacaagcttcaaaattgtcttctctattgattgatgagaccaaagcttgtggcaatacatgaatcgatccataatttttttttggtgttatgaggatttgtggagctttgtatctcattgaatcttgtaaattcatgtggaacagGATTATGTACCGACTGTTTTCGATAACTTTAGCGCAAATGTGGTTGTTAATGGAGCCACTGTGAATCTTGGGCTATGGGATACCGCAG
                                                                                    |  |       | |    ||| ||  ||  ||  |||   |||| ||  | || | |   ||  |||    |   ||||||         || ||| | | |    |||||||| || || || ||||| |||||||| ||||| ||||| |||||  |||||  |||||| || ||||| ||||||||||| ||||
-----------------------------------------------------------------------------------aacgctgtgatgtatatatatatatatatatatatatatccttttcttattatt-taatttttcctggg---tgacatctcaaga------gttaatccttattttgcagGATTACGTTCCTACCGTTTTTGATAACTTCAGCGCGAATGTCGTTGTCGATGGAAACACTGTAAACCTTGGACTATGGGATACAGCAG

upper sequence: AT2G17800.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: EFJ09765 (Selaginella moellendorffii), 3'ss of exon 1
gtataatgttccttccttagattgaatcatattctgtgttctgtgaattacaagcttcaaaattgtcttctctattgattgatgagaccaaagcttgtggcaatacatgaatcgatccataatttttttttggtgttatgaggatttgtggagctttgtatctcattgaatcttgtaaattcatgtggaacagGATTATGTACCGACTGTTTTCGATAACTTTAGCGCAAATGTGGTTGTTAATGGAGCCACTGTGAATCTTGGGCTATGGGATACCGCAG
                                                                                                                         ||||  ||||| | ||       ||| |    || |   |||| |||      |    |||||    |||||||||| || || |||||||| |||||||| ||||| |||||||||||  ||||   |||||| || |||||||| ||||| || || |
--------------------------------------------------------------------------------------------------------------------gtgagatttcgttttgttctttcc----ttttt----ctctaactctc-ttgggctgggatcgttcat---caacagGATTACGTTCCCACTGTTTTTGATAACTTCAGCGCCAATGTGGTTGTCGATGGCAACACTGTCAACCTTGGGCTCTGGGACACTGCTG

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|125199253|gb|EL214207.1|EL214207
EST:     CACCAGCAACACTTTTCCTACG                         GATTATGTACCGACTGTTTTCGATAACTTTAGCGCAAATGTGGTTGTTAAT
genomic: CACCAGCAACACTTTTCCTACGgtataatgtt ... tgtggaacagGATTATGTACCGACTGTTTTCGATAACTTTAGCGCAAATGTGGTTGTTAAT
EST: gi|164209962|gb|ES063772.1|ES063772
EST:     GCAACACTTTTCCTACG                         GATTATGTACCGACTGTTTTCGATAACTTTAGCGCAAATGTGGTTGTTAAT
genomic: GCAACACTTTTCCTACGgtataatgtt ... tgtggaacagGATTATGTACCGACTGTTTTCGATAACTTTAGCGCAAATGTGGTTGTTAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaggatttgtggagctttgtatctcattgaatcttgtaaattcatgtggaacagGATTATGTACCGACTGTTTTCGATAACTTTAGCGCAAATGTGGTTGTTAATGGAGCCACTGTGAATCTTGGGCTATGGGATACCGCAG
                                  ttgtaaatt  TA-rich tract