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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgctttcaaatcttaacttattaaaataagttgaatattatcagctaaactgtgttttttttgttgttggttaaaagGATGGGATTGAAGAATGTCGTAAGTTATGTGGTGGACATGGATACTTGTGGTGTAGTGGGCTTCCTGAATTGTTTGCTGTATATGTTCCTGCTTGCACAT

Basic information

species Arabidopsis thaliana
transcript AT2G35690.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G35690.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os06g01390.1 (Oryza sativa), 3'ss of exon 8
---------------gtatgctttcaaatcttaacttattaaaataa--gttgaatattatcagctaaactgtgttttt-tttgttgttggttaaa--agGATGGGATTGAAGAATGTCGTAAGTTATGTGGTGGACATGGATACTTGTGGTGTAGTGGGCTTCCTGAATTGTTTGCTGTATATGTTCCTGCTTGCACAT
                  || |   | |   || |   || | ||||    |||||   |  |  |  | |||  |      |||| ||  ||||   ||||||| ||||||||||| || ||  | |||||||||||||| ||| ||    | || ||||||||||||||||||||| | ||||||||||||||||| |
tgagtttacacgcatagctggtccaacagtctagccagtttatataacgagtgaattacacaattttcattgttctcaaacctgtttttttttaatgcagGATGGAATTGAAGAATGCCGAAAACTCTGTGGTGGACATGGTTACCTGAACAGCAGCGGGCTTCCTGAATTGTTTGCTATCTATGTTCCTGCTTGCACTT

upper sequence: AT2G35690.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM5G864319_T01 (Zea mays), 3'ss of exon 8
--------------gtatgctttcaaatcttaacttattaaaataagttgaatattatcagctaaactgtgttttttttgt------tgttggtta-aaagGATGGGATTGAAGAATGTCGTAAGTTATGTGGTGGACATGGATACTTGTGGTGTAGTGGGCTTCCTGAATTGTTTGCTGTATATGTTCCTGCTTGCACAT
              | ||| | | |     ||     |    |  | |  |  | | |  || |  |  |||| || | ||      |||    |    ||||||  |||||||||||| | ||| | ||||| |||||||| ||| ||    | |||||||||||||||||||||||||| ||||||||||||||||| |
ttatctagccatatgcatgttctgatggtctagtcagtatgtacga-tgaaggacttttggcaattcattgttcttatggtgactcctgtcttctgtgcagGATGCCATTGAAGAATGTAGAAAGCTCTGTGGCGGACATGGTTACCTGAACAGCAGTGGGCTTCCTGAATTGTTTGCTGTCTATGTTCCTGCTTGCACTT

upper sequence: AT2G35690.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G052389_T02 (Zea mays), 3'ss of exon 8
-------------gtatgctt-tcaaatcttaacttattaaaataagttgaatattatcagctaaactgtgttttt-------tttgttgttggttaaaagGATGGGATTGAAGAATGTCGTAAGTTATGTGGTGGACATGGATACTTGTGGTGTAGTGGGCTTCCTGAATTGTTTGCTGTATATGTTCCTGCTTGCACAT
             || || |  || | ||   |  |||  ||| ||     | |||  ||    |    |||||         ||| |   || ||   ||||||  ||||||||||| || ||| | |||||||||||||| ||||||    | |||||||||||||| |||||||| || |||||||| |||||||| |
gtagtaggttctggtctgatggtctagtcactatatatataaacaaaggacacatttacaatccattgttgtttaaggggagatttctctctgttttgcagGATGCAATTGAAGAATGCCGAAAGCTCTGTGGTGGACATGGTTACTTGAACAGCAGTGGGCTTCCTGAGTTGTTTGCGGTCTATGTTCCCGCTTGCACTT

upper sequence: AT2G35690.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G052389_T01 (Zea mays), 3'ss of exon 8
------------gtatgctt-tcaaatcttaacttattaaaataagttgaatattatcagctaaactgtgttttt-------tttgttgttggttaaaagGATGGGATTGAAGAATGTCGTAAGTTATGTGGTGGACATGGATACTTGTGGTGTAGTGGGCTTCCTGAATTGTTTGCTGTATATGTTCCTGCTTGCACAT
            || || |  || | ||   |  |||  ||| ||     | |||  ||    |    |||||         ||| |   || ||   ||||||  ||||||||||| || ||| | |||||||||||||| ||||||    | |||||||||||||| |||||||| || |||||||| |||||||| |
tagtaggttctggtctgatggtctagtcactatatatataaacaaaggacacatttacaatccattgttgtttaaggggagatttctctctgttttgcagGATGCAATTGAAGAATGCCGAAAGCTCTGTGGTGGACATGGTTACTTGAACAGCAGTGGGCTTCCTGAGTTGTTTGCGGTCTATGTTCCCGCTTGCACTT

upper sequence: AT2G35690.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA14G14990.1 (Glycine max), 3'ss of exon 7
----------------gtatgctttcaaatcttaacttattaaaataagt-----tgaatattatcagctaaactgtgttttttttgttgttggttaaaagGATGGGATTGAAGAATGTCGTAAGTTATGTGGTGGACATGGATACTTGTGGTGTAGTGGGCTTCCTGAATTGTTTGCTGTATATGTTCCTGCTTGCACAT
                || |   |       ||    |||||   |  ||     ||||| ||    | | || |  ||||   ||    |   ||   ||||||| ||||||||||| |||||  |||||||||| ||||| ||| | ||  | ||||| || ||||| || |||||||| ||||||||||| ||||| |
catttaaatggatgaagtgtttctgttgtcgttgtgctattatcctttgtaactctgaattttgat-gttcaattaagtttaaattaacttcaatttccagGATGGAATTGAAGAATGCCGTAAACTATGTGGTGGTCATGGTTACCTTTGTAGCAGTGGTCTCCCTGAGTTATTTGCTGTTTATGTTCCTGCCTGCACGT

upper sequence: AT2G35690.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA11G03800.1 (Glycine max), 3'ss of exon 8
----------------gtatgctttcaaatcttaacttattaaaataagt-----tgaatattatcagctaaactgtgttttttttgttgttggttaaaagGATGGGATTGAAGAATGTCGTAAGTTATGTGGTGGACATGGATACTTGTGGTGTAGTGGGCTTCCTGAATTGTTTGCTGTATATGTTCCTGCTTGCACAT
                || |   | |     ||    |||||   |  ||     ||||| ||    | | || |  ||||   ||    |   ||   ||||||| ||||||||||| |||||  |||||||||| ||||| ||| | ||  | ||||| || ||||| || |||||||| ||||||||||| ||||| |
catttaaatggatgaagtgtttctgctgtcgttgtgctattatcctttgtaactctgaattttgat-gttcaattaagtttaaattaacttcaatttccagGATGGAATTGAAGAATGCCGTAAACTATGTGGTGGTCATGGTTACCTTTGTAGCAGTGGTCTCCCTGAGTTATTTGCTGTTTATGTTCCTGCCTGCACGT

upper sequence: AT2G35690.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA01G41600.1 (Glycine max), 3'ss of exon 8
---------------gtatgctttcaaatcttaacttattaaaataagt-----tgaatattatcagctaaactgtgttttttttgttgttggttaaaagGATGGGATTGAAGAATGTCGTAAGTTATGTGGTGGACATGGATACTTGTGGTGTAGTGGGCTTCCTGAATTGTTTGCTGTATATGTTCCTGCTTGCACAT
               ||||   |       ||    |||||   |  ||     ||||  || |  | | |  |    ||   ||    |   ||   ||||||| ||||||||||| |||||  ||||||| || ||||| ||| | ||  | ||||| || ||||| || |||||||| ||||||||||| ||||| |
atttaactggatgaagtatttctgttgtggttgtgctattatcctttgtaactctgaactttttatgttcagttaaagttaaattaacttcaatttccagGATGGAATTGAAGAATGCCGTAAACTATGTGGCGGTCATGGTTACCTTTGTAGCAGTGGTCTCCCTGAGTTATTTGCTGTTTATGTTCCTGCCTGCACGT

upper sequence: AT2G35690.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv00s0389g00020.t01 (Vitis vinifera), 3'ss of exon 6
---------------------gtatgctttcaaatcttaacttattaaaataagttgaatattatcagctaaactgtgttttttttgttgttggttaaaagGATGGGATTGAAGAATGTCGTAAGTTATGTGGTGGACATGGATACTTGTGGTGTAGTGGGCTTCCTGAATTGTTTGCTGTATATGTTCCTGCTTGCACAT
                       ||    |  |||   | |   ||| | ||    | ||  |   ||     ||   ||| | ||    ||| ||  | |||||||||||||||||| || ||  |||||||||| ||||| ||| | ||  ||||||||||||| || || ||||| || ||||| ||||| || ||||
tgaactattgagtcctgatcttaatagcctacaattcaagcaagttatactagtaggtatgcttggagtgctgctaattttctgttcactttgattgta-gGATGGGATTGAAGAATGCCGAAAACTATGTGGTGGCCATGGTTACCTATGTAGTAGTGGGCTTCCCGAGTTATTTGCCGTGTATGTCCCTGCCTGTACAT

upper sequence: AT2G35690.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: EFJ24114 (Selaginella moellendorffii), 3'ss of exon 8
gtatgctttcaaatcttaacttattaaaataagttgaatattatcagctaaactgtgttttttttgttgttggttaaaagGATGGGATTGAAGAATGTCGTAAGTTATGTGGTGGACATGGATACTTGTGGTGTAGTGGGCTTCCTGAATTGTTTGCTGTATATGTTCCTGCTTGCACAT
                ||| |   | ||| ||  |   | ||  ||      ||  | |   | | |||||  |    |||| || ||||| |||||  | ||||| |||||||| ||||||||| | || |  ||||| ||||| ||||||| ||||| |||||||||||| ||||| |
---------------gtaagtc--tgaaaaaacgtagcttttggcattct--ctaaggtcactgt-ttgttcttctgcagGACGGAATTGAGGAATGCAGGAAGTTGTGTGGTGGGCATGGATACCTCTGCTCCAGTGGTCTTCCAGAATTGTATGCTGCATATGTTCCTGCGTGCACCT

upper sequence: AT2G35690.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: EFJ35164 (Selaginella moellendorffii), 3'ss of exon 8
gtatgctttcaaatcttaacttattaaaataagttgaatattatcagctaaactgtgttttttttgttgttggttaaaagGATGGGATTGAAGAATGTCGTAAGTTATGTGGTGGACATGGATACTTGTGGTGTAGTGGGCTTCCTGAATTGTTTGCTGTATATGTTCCTGCTTGCACAT
               | |   |   ||||    |    |   ||   ||||  |   | ||| || || |        |||| || |||||||||||  | ||||| |||||||| ||||||||| | || |  ||||| ||||| ||||||| ||||| |||||||||||| ||||| |
--------------gtaagtctgaaaaaacgtatcttttggcattctctaaggtcactgtttgttcttct------gcagGACGGAATTGAAGAATGCAGGAAGTTGTGTGGTGGGCATGGATACCTCTGCTCCAGTGGTCTTCCAGAATTGTATGCTGCATATGTTCCTGCATGCACCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaataagttgaatattatcagctaaactgtgttttttttgttgttggttaaaagGATGGGATTGAAGAATGTCGTAAGTTATGTGGTGGACATGGATACTTGTGGTGTAGTGGGCTTCCTGAATTGTTTGCTGTATATGTTCCTGCTTGCACAT
                    agctaaa  putative branch site (score: 3)
                                ttttttttgttgtt  putative PPT
     aagttgaatattat  TA-rich tract