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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtttttctttttttgggtttatcaaatgttggtttgtgcttgcttcctttttacttgtttagtaaatcctaacacaattttgtctctagGGGACAGGCTGAGAAGGAATTCCGGGTTGAAGTTGAGGCTATTGGTCATGTACGGCACAAGAATCTTGTAAGGCTTCTAGGATATTGCATAGAGGGTGTT

Basic information

species Arabidopsis thaliana
transcript AT3G59110.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G59110.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: LOC_Os10g35450.1 (Oryza sativa), 3'ss of exon 2
gtaagtttttctttttttgggtttatcaaatgttggtttgtgcttgc--ttcctttttac-ttgtttagtaaatcctaacacaattttgt-ctctagGGGACAGGCTGAGAAGGAATTCCGGGTTGAAGTTGAGGCTATTGGTCATGTACGGCACAAGAATCTTGTAAGGCTTCTAGGATATTGCATAGAGGGTGTT
|||||   | ||         | |||     |||     |  ||||    ||||| | |     |    | |||  |      || | || ||  ||||| ||||| || ||||| ||| |||||||||||||||||||||| || ||  |||| |||||||||||  | ||||||||||||||  | |||||  | 
gtaagagatcctg-----aaatctattctgcgttttacagaacttgtgactccttctgatgccatcatattaattttcttttgatatggtgctgcagGGGCCAGGCAGAAAAGGAGTTCAGGGTTGAAGTTGAGGCTATTGGCCACGTCAGGCATAAGAATCTTGTCCGCCTTCTAGGATATTGTGTTGAGGGAATC

upper sequence: AT3G59110.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: LOC_Os01g41730.1 (Oryza sativa), 3'ss of exon 1
--------------------------------gtaagtttttctttttttgggtttatcaaatgttggtttgtgcttgcttcctttttacttgtttagtaaatcctaac-acaattttgtctctagGGGACAGGCTGAGAAGGAATTCCGGGTTGAAGTTGAGGCTATTGGTCATGTACGGCACAAGAATCTTGTAAGGCTTCTAGGATATTGCATAGAGGGTGTT
                                   ||| ||||||    |     | |  |||| |    | || ||| |  || || ||        || |  ||    |   |||||     || || ||||| || || || |||  ||||||||||||| |||||||||||||  ||||||||||||| ||  | |||||||| || ||||| |||||    
gtaagagacactgaagttgattttagccaaaaaggagtgtttcttccgataatgctttttaatgatttgctatggttgttcactattgacc------atatactctggttatggttttgc----agAGGGCAGGCAGAAAAAGAGTTCAAGGTTGAAGTTGAGTCTATTGGTCATGTTAGGCACAAGAATCTGGTGCGACTTCTAGGTTACTGCATTGAGGGAAGC

upper sequence: AT3G59110.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GRMZM2G031400_T01 (Zea mays), 3'ss of exon 2
gtaagtttttctttttttgggtttatcaaatgttggtttgtgcttgctt--cctttttacttgtttagtaaatcctaacaca----attttgtctctagGGGACAGGCTGAGAAGGAATTCCGGGTTGAAGTTGAGGCTATTGGTCATGTACGGCACAAGAATCTTGTAAGGCTTCTAGGATATTGCATAGAGGGTGTT
                           || |||    |   |||   ||  |||| | |  | || | | |   || | |      || | || |  ||||| ||||| |||||||||||| | ||||||||||| || || |||||||| |||||||||||||| ||  | ||||| ||||||||| | || ||  | 
-------------------------gtaagtgtacagtctcgctgagtttaccttgtaatgtattgacttagagctgagatttggtatctggtttgcagGGGGCAGGCAGAGAAGGAATTCAGAGTTGAAGTTGAAGCCATCGGTCATGTTCGGCACAAGAATCTGGTCCGCCTTCTGGGATATTGCGTGGAAGGGATA

upper sequence: AT3G59110.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GRMZM2G026301_T01 (Zea mays), 3'ss of exon 2
-----------gtaagtttttctttttttgggtttatcaaatgttggtttgtgcttgcttcctttttacttgtttagtaaatcc-taacaca-attttgtc--tctagGGGACAGGCTGAGAAGGAATTCCGGGTTGAAGTTGAGGCTATTGGTCATGTACGGCACAAGAATCTTGTAAGGCTTCTAGGATATTGCATAGAGGGTGTT
              ||||| | |||          | ||  |      | |  | ||     || ||      | || | | ||  ||       | ||||  | |||||| || || || ||||| ||| |||||||||||||||| ||||| |||||  |||| |||||||||||  | ||||| ||||||||| | |||||  | 
gtaagaacccccggagtttatttttaacctaaagga-caccttccatatcggacatgaaatattgttctgctctcagcatacccacaatgtttgatatgtcattgtagGGGCCAAGCAGAAAAGGAGTTCAGGGTTGAAGTTGAGGCAATTGGACATGTCAGGCATAAGAATCTTGTCCGCCTTCTTGGATATTGCGTGGAGGGAATA

upper sequence: AT3G59110.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA18G12830.1 (Glycine max), 3'ss of exon 1
-------------------------------gtaagtttttctttttttgggtttatcaaatgttggtttgtgcttgctt---------cctttttacttgtttagtaaatcctaacacaattttgtctctagGGGACAGGCTGAGAAGGAATTCCGGGTTGAAGTTGAGGCTATTGGTCATGTACGGCACAAGAATCTTGTAAGGCTTCTAGGATATTGCATAGAGGGTGTT-
                                |  | |||| |  | | |   |||||  ||  |  ||  | ||||| |         | |||  ||||| || |||| | |  |     ||   |    |||||||| |||||||| |||||| |||| ||||| ||||||||||| |||||  | || || ||||||||  |  | || || |||||| |||| || ||| 
taagaacacttgatggtagcattgatgccatctttgattttatcctatggctcttatcttattatcattatttcttgcatgaacaatgacatttgaacttgcttcgtaattgcataatgtgttgaattcacaggGGACAAGCTGAGAAAGAATTCAGGGTGGAAGTAGAGGCTATTGGCCATGTCAGACATAAAAATCTTGTGCGCTTACTTGGTTATTGCGTAGAAGGAGTTC

upper sequence: AT3G59110.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA08G42170.2 (Glycine max), 3'ss of exon 1
--------------------------------gtaagtttttctttttttgggtttatcaaatgttggtttgtgcttgctt---------cctttttacttgtttagtaaatcctaacacaattttgtctctagGGGACAGGCTGAGAAGGAATTCCGGGTTGAAGTTGAGGCTATTGGTCATGTACGGCACAAGAATCTTGTAAGGCTTCTAGGATATTGCATAGAGGGTGTT
                                 |    |||| |  | | |  ||||||  ||      |  | |||||||         |||||  ||||| |   | | | |  |     ||   |    |||||||| || ||||| |||||| |||| ||||| ||||||||||| |||||  | || || ||||||||| |  | || || |||||| |||| || |||
gtaagaacacttgatggtatcattggttccatcttttattttatcctatggcttttatcttattgcccctatttcttgcttgaacaatgacctttgaacttgctccttgattgcataatgtgttgaattcacagGGGACAAGCAGAGAAAGAATTCAGGGTGGAAGTAGAGGCTATTGGCCATGTTAGACATAAAAATCTTGTACGATTACTTGGTTATTGCGTAGAAGGGGTT

upper sequence: AT3G59110.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv12s0028g00310.t01 (Vitis vinifera), 3'ss of exon 3
gtaagtttttctttttttgggtttatcaaatgttggtttgtgcttgcttcctttttacttgtttagtaaatcctaacacaattttgtctctagGGGACAGGCTGAGAAGGAATTCCGGGTTGAAGTTGAGGCTATTGGTCATGTACGGCACAAGAATCTTGTAAGGCTTCTAGGATATTGCATAGAGGGTGTT
|||||  |   |          || ||  |  |   ||| || |   ||  ||   | ||| ||  | | | |      || |  ||    ||||||||||| || || || ||| ||||||||||||||||||| || ||||| ||||| || ||||||||  | ||| | || ||||||||||| || |||
gtaagaatagatcaaaagcaccttctctcactt---tttatgatgctttggttgaaatttggtttatgactgcattatgaaatgggttcacagGGGACAGGCAGAAAAAGAGTTCAGGGTTGAAGTTGAGGCTATAGGCCATGTTCGGCATAAAAATCTTGTGCGACTTTTGGGCTATTGCATAGAAGGAGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtgcttgcttcctttttacttgtttagtaaatcctaacacaattttgtctctagGGGACAGGCTGAGAAGGAATTCCGGGTTGAAGTTGAGGCTATTGGTCATGTACGGCACAAGAATCTTGTAAGGCTTCTAGGATATTGCATAGAGGGTGTT
                                tcctaac  putative branch site (score: 1)
                                           ttttgtctct  putative PPT
             tttttacttgttta  TA-rich tract