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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttcttaactctgtgtactaattgtaattgttgataacaaactctaaaaattttgtgctacttttttccagTTTGCCCAACAACAATGAAACGCATTTGCCGACAACACGGGATCTCACGGTGGCCATCTCGAAAAATCAACAAGGTGAACCGATCTCTCACACGACTTAA

Basic information

species Arabidopsis thaliana
transcript AT1G64530.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G64530.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: LOC_Os01g13540.1 (Oryza sativa), 3'ss of exon 4
-----------------------gtatgttcttaactctgtgtactaattgta--attgttgataacaaactctaaa-aattttgtgctacttttttccagTTTGCCCAACAACAATGAAACGCATTTGCCGACAACACGGGATCTCACGGTGGCCATCTCGAAAAATCAACAAGGTGAACCGATCTCTCACACGACTTAA
                         ||| |   |||  | | |  || ||  |  ||||   | |   | |  |||  |||| | |  | || |||  |||| || || ||||| ||||||||||| ||| | ||||| ||||| || || ||||||||||||||||| |||||||| ||||| |||||| ||  ||| ||
gatgcgtagaatattgaatcttccaatgataacaacatttt-tggtagttcgactattggatacagttagcattaactaattctatttttctatttgacagTATGTCCCACAACCATGAAACGCATCTGCAGGCAACATGGGATTTCTCGTTGGCCATCTCGAAAAATTAACAAGGTCAACCGGTCTCTCTCAAAACTAAA

upper sequence: AT1G64530.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GRMZM2G475305_T01 (Zea mays), 3'ss of exon 4
-------------------gtatgttct-taactctgtgtactaattgtaattgttgataacaaactctaa-----aaattttgtgctacttttttccagTTTGCCCAACAACAATGAAACGCATTTGCCGACAACACGGGATCTCACGGTGGCCATCTCGAAAAATCAACAAGGTGAACCGATCTCTCACACGACTTAA
                   ||   || |  |    |||       |     |||  |||    | |  |||       | ||| |  |  ||  |  ||||||| || ||||| ||||| ||||||||||| || || ||||| || || |||||||||||||||||||| ||||| |||||||||||| |   ||| ||
gagtagaggcggcaacacagtggattttgcagtggtgtaagtggttgactcttggagattgtgagcattaactggtgtactttttcttggttcctggcagTTTGTCCTACAACTATGAAGCGCATTTGCCGGCAGCATGGGATTTCTCGTTGGCCATCTCGAAAAATCAATAAGGTCAACCGATCTCTCTCGAAACTAAA

upper sequence: AT1G64530.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GRMZM2G176655_T01 (Zea mays), 3'ss of exon 4
-------------------gtatgttcttaactc---tgtgtactaattgtaattgttgataacaaactctaaaa-attttgtgctac--ttttttccagTTTGCCCAACAACAATGAAACGCATTTGCCGACAACACGGGATCTCACGGTGGCCATCTCGAAAAATCAACAAGGTGAACCGATCTCTCACACGACTTAA
                    | || | | |   |     |||  | ||||  |     || |    || ||   | ||| |     |   |||||| |||| || || ||||||||||| ||||||||  | ||||| || || || || |||||||||||| |||||| |||||| |||||  || |  ||  | | ||
cattcatgtgtttatatttatttgatttgagtccattcatgtcatgattgggaaaaaagaaagtcgacacttggatattctaaatcatgtttttttacagTATGTCCTACAACAATGAAGCGCATTTGTAGGCAACATGGTATTTCTCGCTGGCCATCTCGACAAATCAGCAAGGTTAACCGTACTGTTTCAAAATTAAA

upper sequence: AT1G64530.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA10G37860.1 (Glycine max), 3'ss of exon 4
-----------------------gtatgttcttaactctgtgtactaattgtaattgttgat---aacaaactctaaaaattttgtgctacttttttccagTTTGCCCAACAACAATGAAACGCATTTGCCGACAACACGGGATCTCACGGTGGCCATCTCGAAAAATCAACAAGGTGAACCGATCTCTCACACGACTTAA
                        | | || |  |  | |   |   |  |||| |  || |   ||||  || |    |  |  |  |  |  | | |||||||||| || |||||||| ||||| ||| | || || ||||| || || |||||||||||||| ||||||||||| ||||| || ||  |    || ||
ttctttccccctagtagtagcagctcttttatctaaacagaaaaaggaaagtaagtagtgtttcaaacatgctgttcttagat-atatttttgctgtacagTTTGCCCTACCACAATGAAGCGCATCTGCAGGCAGCATGGGATATCCCGTTGGCCATCTCGAAAGATCAACAAGGTTAACCGTTCCCTGTCGAAGCTCAA

upper sequence: AT1G64530.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA20G29960.1 (Glycine max), 3'ss of exon 6
-------------------gtatgttcttaactctgtgtactaattgtaattgt-tgataacaaactctaaaaattttgtgctacttttttcc-----agTTTGCCCAACAACAATGAAACGCATTTGCCGACAACACGGGATCTCACGGTGGCCATCTCGAAAAATCAACAAGGTGAACCGATCTCTCACACGACTTAA
                   | |  |  ||  |   | |    ||  | || |   |  |  |  |  |  |   || |  | ||  ||||| |     ||||||||| || |||||||| ||||| ||| | || || ||||| || || ||||||||| |||| ||||||||||| ||||| || ||  |    || ||
tttcccccaagtagtagcagcagctcttttgcctagagagaaaaaggaaagtaagtagtgtctcaaacatactgttcttagatatatttttactgtacagTTTGCCCTACCACAATGAAGCGCATCTGCAGGCAGCATGGGATATCCCGTTGGCCATCTAGAAAGATCAACAAGGTTAACCGTTCCCTGTCGAAGCTCAA

upper sequence: AT1G64530.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA09G25230.1 (Glycine max), 3'ss of exon 5
--------------------------gtatgttcttaactctgtgtactaattgtaattgttgataacaaactctaaaaattttgtgctacttttttccagTTTGCCCAACAACAATGAAACGCATTTGCCGACAACACGGGATCTCACGGTGGCCATCTCGAAAAATCAACAAGGTGAACCGATCTCTCACACGACTTAA
                           |  |   ||  || |   || ||  | | ||| ||  ||  |    || | |   |  |  |  |  | | |||||||||| || |||||||| ||||| ||  | || || ||||| ||||| |||||||||||||| || || ||||| ||||| || ||  |    || ||
tatatcaatcaataaaaaaacacaaaattggccattgtctattactagtagctttcatttttattagtagcagctcata-cataatattcttgctatacagTTTGCCCTACTACAATGAAGCGCATCTGTAGGCAGCATGGGATATCACGCTGGCCATCTCGAAAGATAAAAAAGGTTAACCGTTCCCTGTCCAAGCTCAA

upper sequence: AT1G64530.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv02s0025g02070.t01 (Vitis vinifera), 3'ss of exon 4
------------------------------------------------------------------------gtatgttcttaact-ctgtgtactaattgtaattgttgataacaaactcta--aaaattttgtgctacttttttccagTTTGCCCAACAACAATGAAACGCATTTGCCGACAACACGGGATCTCACGGTGGCCATCTCGAAAAATCAACAAGGTGAACCGATCTCTCACACGACTTAA
                                                                         ||        | |  | | |   ||| | |||||     ||  ||   ||  || ||| |    |     ||| |||||||||| || |||||||| || || ||| | || || || ||||| |||||||||||||| || ||||||||||| || || || ||| |    || ||
gtacgtttctacacttaaaaaagttgtttgcaatcttgctctgttatttccaaaatgctgaattaatcatctatagaaatcggattgttctattgcaatagcaattgaaatgaattaatcttatcaagattcttgcttttacatttacagTTTGCCCTACTACAATGAAGCGTATATGCAGGCAGCATGGAATCTCCCGGTGGCCATCTCGTAAGATCAACAAGGTTAATCGTTCCCTCTCTAAGCTAAA

upper sequence: AT1G64530.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: PP1S302_9V6.1 (Physcomitrella patens), 3'ss of exon 2
------------------------gtatgttcttaactc--tgtgtactaattgtaattgttgataacaaactctaaaaattttgtgctacttttttccagTTTGCCCAACAACAATGAAACGCATTTGCCGACAACACGGGATCTCACGGTGGCCATCTCGAAAAATCAACAAGGTGAACCGATCTCTCACACGACTTAA
                        || |  ||| ||     || | | |  || || || |      | |  | ||    | |||   |  ||||| | ||| || ||||||||  | ||  | || ||  |||||||||| |||||| ||||||| |||||||||||||| || || |  |||||  | | |  | |  |
gttgcttttgagccgagtagtccagtctactctcaatatgttgggaattttttctatttttctgactccatgtttactgttgttgcaatgatttttgc-agTATGTCCAACAACGCTCAAGAGAATATGTAGACAACACGGAATCTCAAGGTGGCCTTCTCGAAAAATCAATAAAGTTAGTCGATCGTTGAAAAAATTGCA

upper sequence: AT1G64530.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: EFJ05895 (Selaginella moellendorffii), 3'ss of exon 2
-------------gtat-gttcttaactctgtgtactaattgtaattgttgataacaaactctaaaaat--tttgtgctacttttttccagTTTGCCCAACAACAATGAAACGCATTTGCCGACAACACGGGATCTCACGGTGGCCATCTCGAAAAATCAACAAGGTGAACCGATCTCTCACACGACTTAA
             | || ||| ||   |   | | |||      |     | |  | ||||  |||||   ||| |  |  |  | |||||| || || || ||| ||||||| || || |||||  | |||||||| |||||||| |||||||| || ||||||||||| ||||| ||||     ||  |
gttggtaaaacttggatagtttttcgttagatttcctagcaaagagaagagttctctaacttcaaaaaccgtttttctttttcgtctccagTGTGTCCGACGACATTGAAACGGATATGTCGACAGTATGGGATCTCGCGGTGGCCGTCTCGAAAGATAAACAAGGTGAATCGATCGCTCATGAAGCTGCA

upper sequence: AT1G64530.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: EFJ26837 (Selaginella moellendorffii), 3'ss of exon 2
-------------gtat-gttcttaactctgtgtactaattgtaattgttgataacaaactctaaaaatt-ttgtgctacttttttccagTTTGCCCAACAACAATGAAACGCATTTGCCGACAACACGGGATCTCACGGTGGCCATCTCGAAAAATCAACAAGGTGAACCGATCTCTCACACGACTTAA
             | || ||| ||   |   | | |||      |     | |  | ||||   ||||   || | ||  |  | |||||| || || || ||| ||||||| || || |||||  | |||||||| |||||||| |||||||| || ||||||||||| ||||| ||||     ||  |
gttggtaaaacttggatagtttttcgttagatttcctagcaaagagaagagttctctaacttcgaaaaccgtttttcttttcgtctccagTGTGTCCGACGACATTGAAACGGATATGTCGACAGTATGGGATCTCGCGGTGGCCGTCTCGAAAGATAAACAAGGTGAATCGATCGCTCATGAAGCTGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actaattgtaattgttgataacaaactctaaaaattttgtgctacttttttccagTTTGCCCAACAACAATGAAACGCATTTGCCGACAACACGGGATCTCACGGTGGCCATCTCGAAAAATCAACAAGGTGAACCGATCTCTCACACGACTTAA
                                       tgctacttttttcc  CT-rich tract
                 ataacaaactctaaaa  TA-rich tract