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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaataatctcgggtttttgaatttttgcaaaaattggaatttcgttgactttgagatgaattggtttctaattattgtatcgatgtctgcaattttggtatttggatgatgacatcagatgatcttctgtttggaattgttggatatgattgtgaaaatagatggtgaaggtgtttgttatattttgtgtgtagGAAGAGTGAATCTGATAGGAGAGCACATTGACTATGAAGGATACTCAGTGTTGCCGATGGCTATTCGTCAGGATACAATTATAGCGATTCGGAAATGTGA

Basic information

species Arabidopsis thaliana
transcript AT3G06580.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G06580.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: LOC_Os03g61710.1 (Oryza sativa), 3'ss of exon 1
gtaaataatctcgggtttttgaatttttgcaaaaattggaatttcgttgactttgagatgaattggtttctaattattgtatcgatgtctgcaattttggtatttggatgatgacatcagatgatcttctgtttggaattgttggatatgattgtgaaaatagatggtgaaggtgtttgttatattttgtgtgtagGAAGAGTGAATCTGATAGGAGAGCACATTGACTATGAAGGATACTCAGTGTTGCCGATGGCTATTCGTCAGGATACAATTATAGCGATTCGGAAATGTGA
                                                                                          | |  || | ||  ||||||  |  | ||    |  ||  | | |||   ||| ||| ||||  ||| ||  |||||     ||||  ||     | |||||| |||  | |||||||||||||| |||||||| ||||| || || ||||| |||||||| ||||| || || ||||| |  ||  | || ||  |||     ||
------------------------------------------------------------------------------------------gtaggtt-gatagatggatg--ggtaccactctaggtttcggt-ggatgcgtttgatttgatc-tgacaa-ggatggattgcgtgtgcgtg----tgtgtgtgcagGGCGGGTGAATCTGATAGGGGAGCACATCGACTACGAGGGGTACTCGGTGTTGCCCATGGCCATCCGGCAGGACATGATCGTCGCCATCAGGAGGGCAGA

upper sequence: AT3G06580.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GRMZM2G458549_T02 (Zea mays), 3'ss of exon 1
gtaaataatctcgggtttttgaatttttgcaaaaattggaatttcgttgactttgagatgaattggtttctaattattgtatcgatgtctgcaattttggtatttggatgatgacatcagatgatcttc-tgtttggaatt--gttggatatgattgtgaaaatagat--ggtgaaggtgtttgttatattttgtgtgtagGAAGAGTGAATCTGATAGGAGAGCACATTGACTATGAAGGATACTCAGTGTTGCCGATGGCTATTCGTCAGGATACAATTATAGCGATTCGGAAATGTGA
                                                                                                      |  |   |    | ||   ||  || | ||| ||   ||  | ||    ||| | |||   | |    |  |  |  |   | |   | |||  || ||| || || |||||||| || |||||||| ||||| || || ||||| |||||||||||||| || || ||||| |  ||  | || || || |      |
-----------------------------------------------------------------------------------------------------gtccgtccgcctccgtcccctggactgcgtgtgtgtgcttgagctgaggctgagtctgagtctggccccgccggcgccgcgggctggctgttgc-tgcagGGAGGGTCAATCTGATCGGGGAGCACATCGACTACGAGGGCTACTCGGTGTTGCCGATGGCCATCCGCCAGGACATGATCGTCGCCATCCGAAGGGCCAA

upper sequence: AT3G06580.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv05s0077g00690.t01 (Vitis vinifera), 3'ss of exon 1
gtaaataatctcgggtttttgaatttttgcaaaaattggaatttcgt-tgactttgagatgaattgg-tttctaattattgtatcgatgtctgcaattttggtatttggatgatgacatcagatgatcttctgtttggaattgttggatatgattgtgaaaatagatggtgaaggtgtttgttatattttgtgtgtagGAAGAGTGAATCTGATAGGAGAGCACATTGACTATGAAGGATACTCAGTGTTGCCGATGGCTATTCGTCAGGATACAATTATAGCGATTCGGAAATGTGA
||   ||| | || || ||   | |||| |      | |  | | || ||||   || | | |   | ||| |     || | |   ||  ||     | || |||    || ||   |  ||||||            |||| ||||   |  |  | |  |   || ||    | ||| |||| ||||| ||| ||| || |||||| ||||||||||||||||||| |||||||| || || |||||||||||||| || || ||||| || ||  | |||||||||||   |||
gtcggtaa-cacgcgtgttcatagtttttctgttggtcgtgtattgtatgacgaggaaaaggaggagatttttggagtttttgtgagtgggtgtgtggtggggatt---gtggtgggtttggatgatt----------gattgatgga---gtatcgggaggtttttgatggttttattttttat-ttttgggtgcagGGAGGGTGAATTTGATAGGAGAGCACATTGATTATGAAGGCTATTCGGTGTTGCCGATGGCAATACGGCAGGACACGATCGTGGCGATTCGGAAGCATGA

upper sequence: AT3G06580.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: PP1S89_154V6.3 (Physcomitrella patens), 3'ss of exon 2
------gtaaataatctcgggtttttgaatttttgcaaaaattggaatttcgttgactttgagatgaattggtttctaattattgtatcgatgtctgcaattttggtatttggatgatgacatcagatgatcttctgtttggaattgttggata--tgattgtgaaaatagatggtgaaggtgtttgttatattttgtgtgtagGAAGAGTGAATCTGATAGGAGAGCACATTGACTATGAAGGATACTCAGTGTTGCCGATGGCTATTCGTCAGGATACAATTATAGCGATTCGGAAATGTGA
       |  | ||   |       | | ||||  |     || ||   |  |    |   |  | ||  |  ||| | || || |    | |   |||   |   | | |   |       ||   |     |||  ||| |   | | | ||  |  ||||||| ||      ||| ||| || |  || |     ||||||| ||||||||||| |||||||||||||| || || || || || || ||| | || ||||| ||||| || || ||  |  | || ||  | |   | ||
gtttgattttacaaatgcaaccccatcatttttctctg--tttagataattatgtgttcataattaaacagagttcgagttttttttaacaggaaagcatactctctctctctctctctctctc---tctctctctcattgaagcagattgttacttacttgtgaagattctgtctgagggttttcgcgattt-----gtgtagGGAGAGTGAATCTAATAGGAGAGCACATCGATTACGAGGGTTATTCCGTGCTTCCAATGGCAATTCGCCAAGACACGGTGGTTGCTATCGGTAGGCGAGA

upper sequence: AT3G06580.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: PP1S20_285V6.1 (Physcomitrella patens), 3'ss of exon 2
gtaaataatctcgggtttttgaatttttgcaaaaattggaatttcgttgactttgagatgaattggtttctaattattgtatcgatgtctgcaattttggtatttggatgatgacatcagatgatcttctgtttggaattgttggatatgattgtgaaaatagatggtgaaggtgtttgttatattttgtgtgtagGAAGAGTGAATCTGATAGGAGAGCACATTGACTATGAAGGATACTCAGTGTTGCCGATGGCTATTCGTCAGGATACAATTATAGCGATTCGGAAATGTGA
                                                                  |||| |  |   ||    | |  || | |||    ||||| | ||||   |   | ||  | |  |   |      || |||   |  |||||||   | | |    |||||                ||| || |||||||| ||||||||||| |||||||| ||||| ||||||||| | || ||||| ||||||||||||||| || | || ||| | ||  | ||
------------------------------------------------------------------tttcgatgttaagtccgaagggatgtagtttc---atttgtaagatgcttt---acgagttcccatccag------tgcatactttgctgaaaat---tcgcgtgattgttt---------------cagGGAGGGTGAATCTTATAGGAGAGCATATTGACTACGAAGGTTACTCAGTGCTTCCAATGGCAATTCGTCAGGATACAGTTGTTGCTATTGGTAAGAGAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttggatatgattgtgaaaatagatggtgaaggtgtttgttatattttgtgtgtagGAAGAGTGAATCTGATAGGAGAGCACATTGACTATGAAGGATACTCAGTGTTGCCGATGGCTATTCGTCAGGATACAATTATAGCGATTCGGAAATGTGA
                                tgtttgttatatttt  TA-rich tract