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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcaatctttcattttccttgtgcttcccttcttcttagttcctttctcattggtcatttccttttacttataaagtttagtcgaactgtcttctaatgagaaatcgttattctgaaaatggcaagTGTGGGAGACCCTTTCAAGGACACAGCAGGACCGTCGATTCACGTTCTCATCAAAATGTTGGCGACTATCACGCTTGTCATGGCTCCTATCTTTCTCTGA

Basic information

species Arabidopsis thaliana
transcript AT1G16780.1
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G16780.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GRMZM2G069410_T01 (Zea mays), 3'ss of exon 6
gtaagcaatctttcattttccttgtgcttcccttcttcttagttcctttctcattggtcatttccttttacttataaagtttagtcgaactgtcttctaatgagaaatcgttattctgaaaatggcaagTGTGGGAGACCCTTTCAAGGACACAGCAGGACCGTCGATTCACGTTCTCATCAAAATGTTGGCGACTATCACGCTTGTCATGGCTCCTATCTTTCTCTGA
               |||| | |||       |  |||| |  || |  |   | | | ||||  |   | |    | | || ||  ||     | | || |  | ||  || || ||      ||| | || |||||||| ||||| ||||| || ||||||||| | || ||||| ||||| ||| | || || |||||||| ||||||||||| || ||  | |||
---------------tttttcctgtagcgaaatagttctga--tcatggcgtgtggcttattt--tgcgattctggatgattggtacaa-----tccgaaagccatatatttgttgtg----ctgcagG-GTTGGAGACCCATTCAAAGACACTGCTGGACCGTCGCTGCATGTTCTTATCAAGATGCTCGCCACAATCACGCTGGTCATGGCTCCGATATTCTTGTGA

upper sequence: AT1G16780.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GRMZM2G075900_T01 (Zea mays), 3'ss of exon 14
gtaagcaatctttcattttccttgtgcttcccttcttcttagttcctttctcattggtcatttccttttacttataaagtttagtcgaactgtcttctaatgagaaatcgttattctgaaaatggcaagTGTGGGAGACCCTTTCAAGGACACAGCAGGACCGTCGATTCACGTTCTCATCAAAATGTTGGCGACTATCACGCTTGTCATGGCTCCTATCTTTCTCTGA
              |   | |   |  |  | |    |||  || |    ||  |||    ||      ||  | ||  |||    | |||    | ||| ||| |   ||| | ||| |          || |||||||| ||||| ||||| |||||||| ||| | |||||||| ||||| ||| | || || ||||| || ||||||||||| || ||  | |||
--------------acagttccgatcatggcgtgtgactttatttcggagtc--tggatgattggcacaacccaaaagttttttatgcact----tataa-gagtatgtgttgtgctgcagG--------GTTGGAGACCCATTCAAAGACACTGCAGGACCATCGCTGCACGTTCTTATCAAGATGCTCGCCACGATCACACTGGTCATGGCTCCCATATTCTTGTGA

upper sequence: AT1G16780.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: Vv09s0054g00700.t01 (Vitis vinifera), 3'ss of exon 14
gtaagcaatctttcattttccttgtgcttcccttcttcttagttcctttctcattggtcatttccttttacttataaagtttagtcgaactgtcttctaatgagaaatcgttattctgaaaatggcaagTGTGGGAGACCCTTTCAAGGACACAGCAGGACCGTCGATTCACGTTCTCATCAAAATGTTGGCGACTATCACGCTTGTCATGGCTCCTATCTTTCTCTGA
              |  || |     | |   ||      |   || || |||     |||| |||   | ||||    |||   | ||   |    ||| |      | || | ||     ||   |||||||||||||| ||||| ||||| || ||||||||| | || ||||| |||||||||||||| || ||||| || |||||||| ||  ||||||| |||
--------------aactttcaaaaacctgtttttagtagaaaaccattttca---agcattccct---aattattgtattt---ccaaaaattacataacg----cccattttccttggtgtg--cagTGTGGGAGACCCCTTCAAAGACACGGCTGGACCGTCGCTCCATGTTCTAATCAAAATGTTGGCAACCATCACTCTGGTCATGGCACCGGTCTTTCTGTGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taaagtttagtcgaactgtcttctaatgagaaatcgttattctgaaaatggcaagTGTGGGAGACCCTTTCAAGGACACAGCAGGACCGTCGATTCACGTTCTCATCAAAATGTTGGCGACTATCACGCTTGTCATGGCTCCTATCTTTCTCTGA
                    ttctaat  putative branch site (score: 2)
                    ttctaat  TA-rich tract