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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattattattttcttctcaagagttatttatttcgtgtttaagagatgccctgtctcgttgcggtgcctaacaagtatattggaatgaatatggtagGATGGTGATCCTCGTCTCTCATGTTTTGGCTTGATGAAGAACAGTAGGGATGGTAAAAGTTATAGCACAAATTTAGCTTATACACCACCTGAATATCTAA

Basic information

species Arabidopsis thaliana
transcript AT4G35230.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G35230.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: LOC_Os03g04050.1 (Oryza sativa), 3'ss of exon 3
--------gtattattattttcttctcaagagttatttattt-cgtgtttaag-agatgccctgtctcgttgcggtgcctaacaagtatattggaatgaatatggtagGATGGTGATCCTCGTCTCTCATGTTTTGGCTTGATGAAGAACAGTAGGGATGGTAAAAGTTATAGCACAAATTTAGCTTATACACCACCTGAATATCTAA
         |   || || || ||| || ||     |  ||  | || |||   |||||   |    ||||    |  ||||   || || || | | |   | | || |||||||||||||||| ||||| |||||| ||||||| ||||| |||||||| |||||||||||||||||  | || |||||||| || || ||| | |
aaatcgctttcccatgatgttgttcacatgaacctctccttcacatggttatccagatgttat---ccgtt----tatctaaatcgt-taatgtatttatatttgcagAATGGTGATCCTCGTCTTTCATGCTTTGGCCTGATGAAAAACAGCAGGGATGGCAAAAGTTATAGCACAAACCTTGCATATACACCTCCAGAGTATTTGA

upper sequence: AT4G35230.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: LOC_Os10g39670.1 (Oryza sativa), 3'ss of exon 3
-gtattattattttcttctcaagagt-tatttatttcgtgtttaagagatgccctgtctcgttgcggtgcctaacaagtat---attggaatgaatatggtagGATGGTGATCCTCGTCTCTCATGTTTTGGCTTGATGAAGAACAGTAGGGATGGTAAAAGTTATAGCACAAATTTAGCTTATACACCACCTGAATATCTAA
 |  | |   |   |||   ||||   || ||  || |  || || | || |    |  | |   | ||    | |||| |   |||    |   ||| | || |||||||||||||||| ||||| ||||| |||||||| ||||| |||||||| ||||||||||| |||||  | || |||||||| || |||||||| |
tgagtcaa-gtaggctttgtaagatcatagttgatt-gcattcaaca-attcagcatgccatcatgttgtaagaaaagtttctaattaactttcttatcgcagAATGGTGATCCTCGTCTATCATGCTTTGGTTTGATGAAAAACAGCAGGGATGGGAAAAGTTATAGTACAAACCTGGCATATACACCTCCAGAATATCTGA

upper sequence: AT4G35230.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GRMZM2G099598_T01 (Zea mays), 3'ss of exon 3
--------gtattattattttcttctcaagagttatttatttcgtgtttaagagatgccctgtctcgttgcggtgcctaacaagtatattggaatgaatatggtagGATGGTGATCCTCGTCTCTCATGTTTTGGCTTGATGAAGAACAGTAGGGATGGTAAAAGTTATAGCACAAATTTAGCTTATACACCACCTGAATATCTAA
         |   ||   || | | | |      | ||  | ||| | | | |  |  |   ||  |    || ||  |||||  |   |  |||   | | | || ||||||||||||| || ||||| |||||| ||||||| |||||||||||||| ||||| |||||||||||| | || |||||||| || |||||| |||
tctttgcgatgacatcgattgcgttttacag--cactttatacgtttctcaaactttactaatcctgc-atgg-gctaaacaaccaa--tataatttcttttgcagAATGGTGATCCTCGCCTTTCATGCTTTGGCCTGATGAAAAACAGTAGGGATGGGAAAAGCTATAGCACAAATCTTGCATATACACCTCCAGAATATTTAA

upper sequence: AT4G35230.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GRMZM2G127050_T02 (Zea mays), 3'ss of exon 3
---gtattattattttcttctcaagagttatttattt-cgtgtttaagagatgccctgtctcgttgcggtgcctaacaagtatattggaatgaatatggtagGATGGTGATCCTCGTCTCTCATGTTTTGGCTTGATGAAGAACAGTAGGGATGGTAAAAGTTATAGCACAAATTTAGCTTATACACCACCTGAATATCTAA
    | | || |      |  || |    |||  ||| | |||||   | |         || ||   |||   |||||  |   |  |||   |   | || |||||||||||||||| ||||| |||||| ||||||| ||||| |||||||| ||||| |||||||||||  | || |||||||| || |||||| | |
tctttgtgatgacaacgattgcatgttacattactttgcatgtttctcaaactgtaataatccttcatgtgatgaacaaccaa--tataatttcttctgcagAATGGTGATCCTCGTCTTTCATGCTTTGGCCTGATGAAAAACAGCAGGGATGGGAAAAGCTATAGCACAAACCTTGCATATACACCTCCAGAATATTTGA

upper sequence: AT4G35230.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv03s0038g03270.t01 (Vitis vinifera), 3'ss of exon 3
---gtattatt-attttcttctcaaga-------gttatttatttcgtgtt-taagagatgccctgtctcgttgcggtgcctaacaagtatattggaatgaatatggtagGATGGTGATCCTCGTCTCTCATGTTTTGGCTTGATGAAGAACAGTAGGGATGGTAAAAGTTATAGCACAAATTTAGCTTATACACCACCTGAATATCTAA
    ||| ||  ||| | ||||||| |       |||  |||| |  |||| ||    ||    ||| | | |  ||||   | | | ||| || || || |  | |||||||||||| || || || |||||||||||||||||||| || ||||| ||||| |||||||||||||||||| | || || ||||| || ||||||||||
gtgctataatggattcttttctcaaaattttaaagtttattatctactgttatacataatttgatgtttagcta-ggtgataatctaatat-tttgattggactttgtagGATGGTGACCCACGGCTTTCATGTTTTGGCTTGATGAAAAATAGTAGAGATGGGAAAAGTTATAGCACAAATCTTGCCTACACACCTCCGGAATATCTAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gagatgccctgtctcgttgcggtgcctaacaagtatattggaatgaatatggtagGATGGTGATCCTCGTCTCTCATGTTTTGGCTTGATGAAGAACAGTAGGGATGGTAAAAGTTATAGCACAAATTTAGCTTATACACCACCTGAATATCTAA
                       gcctaac  putative branch site (score: 2)
                              aagtatatt  TA-rich tract