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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagcttctccgttttgttctaatcaagcaaatgtgttttgattttgttgttggggcatgtcttatagttgattttggttgtgttgtgcagTTTGATTGTGGGATTCATCCTGCGTACTCGGGCATGGCTGCGTTGCCTTACTTCGATGAGATTGATCCTTCTTCCATTGATGTCCTCTTGATTACTCA

Basic information

species Arabidopsis thaliana
transcript AT1G61010.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G61010.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: LOC_Os03g63590.1 (Oryza sativa), 3'ss of exon 1
------------------------------------gtcagcttct-ccgttttgttctaatcaagcaaatgtgttttgattttgttgttggggcatgtcttatagttgattttggttgtgttgtgcagTTTGATTGTGGGATTCATCCTGCGTACTCGGGCATGGCTGCGTTGCCTTACTTCGATGAGATTGATCCTTCTTCCATTGATGTCCTCTTGATTACTCA
                                       ||||||  | | ||| || |  | | |  |||   || || |||||||  |    |||||  | | ||    ||||| | | |||   |||| ||||| || || || || || ||||| |||||||| ||| | || |||||||||||||| ||||| ||  |||||||||||||| | || || ||
gtgagcatccaatccccccactctttccctccaaaccctagcttccactgctttctttt--ttatgataat---ttctgcttttgtttgt----catgtggtgtggtgtggtttggat-tcttggatagTTCGATTGCGGCATCCACCCGGCTTACTCCGGCATGGCGGCGCTCCCCTACTTCGATGAGATCGATCCCTCCACCATTGATGTCCTCCTAATCACCCA

upper sequence: AT1G61010.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv12s0035g00190.t01 (Vitis vinifera), 3'ss of exon 1
---------------gtcagcttctccgttttgttctaatcaa-gcaaatgtgttttgat-tttgttgttggggcatgt-cttatagttgattttggttgtgttgtg-cagTTTGATTGTGGGATTCATCCTGCGTACTCGGGCATGGCTGCGTTGCCTTACTTCGATGAGATTGATCCTTCTTCCATTGATGTCCTCTTGATTACTCA
                |  |||| | | ||   | ||| |      |  |   ||||||  ||| || ||      | |  || || ||  ||   ||| | |  ||  ||||||| ||||| |||||||| || ||||||||||||||||| ||||| ||||| |||||||||||||||||  ||||||||||||| ||| | || ||
gtagaccataatgcactatgcttttactttggttgctagtttttatactttcattttgacatttttttttaatttgtttgtttctattttgttcccgttctatgatgatagTTTGACTGTGGAATTCATCCCGCATACTCGGGCATGGCTGCTTTGCCATACTTTGATGAGATTGATCCTTCGACCATTGATGTCCTTTTGGTGACACA

upper sequence: AT1G61010.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv12s0035g00170.t01 (Vitis vinifera), 3'ss of exon 1
-------gtca-gcttctccgttttgttctaatca--agcaaatgtgttttgattttg---ttgttggggcatgtcttatagttgattttggttgtgttgtg-cagTTTGATTGTGGGATTCATCCTGCGTACTCGGGCATGGCTGCGTTGCCTTACTTCGATGAGATTGATCCTTCTTCCATTGATGTCCTCTTGATTACTCA
        | | || |     |||| || |  |    ||    | |  |||| |||     || ||    | |   || || ||  ||   ||| | |   |  || |||| ||||| |||||||  || ||||| ||||||||||| |||||  ||||  ||||||||||||||||  ||||||||||||| ||| | || ||
gtataccataatgcattattcttttattttggttgctagtttttatactttgttttcaacattttttttactttgtttctattttgttcctgttctatgacgatagATTGACTGTGGAATTCATCGCGCATACTCAGGCATGGCTGCTTTGCCAAACTTTAATGAGATTGATCCTTCAACCATTGATGTCCTTTTGGTGACACA

upper sequence: AT1G61010.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv12s0035g00030.t01 (Vitis vinifera), 3'ss of exon 1
--------------gtcagcttctccgttttgtt-ctaatcaagcaaatgtgtttt-gattttgttgttggggcatgt-cttatagttgattttggttgtgttgtg-cagTTTGATTGTGGGATTCATCCTGCGTACTCGGGCATGGCTGCGTTGCCTTACTTCGATGAGATTGATCCTTCTTCCATTGATGTCCTCTTGATTACTCA
               | |     |   ||| ||| ||| |      | | |||||| ||| || ||  |      | |  || || ||  ||   ||| |||  ||  ||||||| ||||| |||||||| || ||||| ||||||||||| ||||| ||||| |||||||||||||||||  ||||||||||||| ||| | || ||
gtataccataatgcattattcgtttattttggttgctagtttttatactttgttttcgatattttttataatttgtttgtttctattttgttcctgttctgtgatgatagTTTGACTGTGGAATTCATCCCGCATACTCAGGCATGGCTGCTTTGCCATACTTTGATGAGATTGATCCTTCAACCATTGATGTCCTTTTGGTGACACA

upper sequence: AT1G61010.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: PP1S77_275V6.1 (Physcomitrella patens), 3'ss of exon 2
gtcagcttct-ccgttttgttctaatcaagcaaatgtgtt--ttgattttgttgttggggcatg----tcttatagttgattttggttgtgtt---gtgcagTTTGATTGTGGGATTCATCCTGCGTACTCGGGCATGGCTGCGTTGCCTTACTTCGATGAGATTGATCCTTCTTCCATTGATGTCCTCTTGATTACTCA
   |  |||| | | |||| |   ||   | ||  ||  |   |  || | ||  |  |    |    | |   | || || | | || || |   ||||||||||||||||| ||||||||||  ||||| || ||||| ||| | || || ||||||||||| ||||||     ||| || || ||  |  | || ||
--taatttctactggtttggttcgatagtgtaatggtaatgtctagttctcttcctaagcagcgatgatgtcgcatttcatgtcgcttttgcttctgtgcagTTTGATTGTGGAATTCATCCTGGCTACTCTGGAATGGCAGCGCTTCCCTATTTCGATGAGATAGATCCTATCAGCATAGACGTTCTACTCGTGACGCA

upper sequence: AT1G61010.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: PP1S23_196V6.1 (Physcomitrella patens), 3'ss of exon 1
----gtcagcttctccgttttgttctaatcaagcaaatgtgtt-ttgattttgttgttggggcatgtcttatagttgattttggttgtgt---tgtgcagTTTGATTGTGGGATTCATCCTGCGTACTCGGGCATGGCTGCGTTGCCTTACTTCGATGAGATTGATCCTTCTTCCATTGATGTCCTCTTGATTACTCA
     |  |       | |||| |  | | |    ||  |||  ||   ||     |  | |   ||  | |   | ||   | || |||   |||||||||||| ||||| || |||||||  ||||| |||||||| ||| |||| |||||||||||||| ||||||     ||| |||||  |  |  | || ||
aatgttttgtagagttgatttgctagagtgagaggaacctgtagttcgcttcccgatcagagatagtgctgtgtgtcatgccgcttttgtacgtgtgcagTTTGACTGTGGAATCCATCCTGGCTACTCTGGCATGGCAGCGCTGCCCTACTTCGATGAGATAGATCCTATCAGCATAGATGTTTTACTCGTGACGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttgattttgttgttggggcatgtcttatagttgattttggttgtgttgtgcagTTTGATTGTGGGATTCATCCTGCGTACTCGGGCATGGCTGCGTTGCCTTACTTCGATGAGATTGATCCTTCTTCCATTGATGTCCTCTTGATTACTCA
                          ttatagttgatttt  TA-rich tract