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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatgggaaatattctttggcgttttggagtatttgtagtttgtgatgaaaatacattcgctgcagaattcaccaaacttctatattagctcactcattattttgttctgatctttgtagATTATGATTGGGATTCTCTTTTTTCTATTTGAGTTCTATGATGATCAATTGCTTGCGTTTCTTGTTTTGACTCTTGTATGGTTATGCGAGCTATTCACGA

Basic information

species Zea mays
transcript GRMZM5G814310_T02
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G814310_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os03g45770.1 (Oryza sativa), 3'ss of exon 10
gtaatgggaaatattctttggcgttttggagtatttgtagtttgtgatgaaaatacattcgctgcagaattcaccaaacttctatattagctcactcattattttgttctgatctttgtagATTATGATTGGGATTCTCTTTTTTCTATTTGAGTTCTATGATGATCAATTGCTTGCGTTTCTTGTTTTGACTCTTGTATGGTTATGCGAGCTATTCACGA
     |    ||||| |||  | ||   |||  |    | ||||||       || ||          | ||| || | ||||    || || ||| |||  |||||| ||||| ||| |||| ||||||||||| |||||||||||||||||||||||||||||||| |||||||| ||||| |||||||||||||||||||| || |||||||| ||||
-----gtatgatattttttttccttaatgagc-tgaaaattttgtggctgtt-tagatgtatct----actcaacagatttctca--tatcttactaatttctttgttgtgatcattgcagATAATGATTGGGATCCTCTTTTTTCTATTTGAGTTCTATGATGATCAGTTGCTTGCATTTCTAGTTTTGACTCTTGTATGGTTGTGTGAGCTATTTACGA

upper sequence: GRMZM5G814310_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA15G05080.1 (Glycine max), 3'ss of exon 10
gtaatgggaaatattctttggcgttttggagtatttgtagtttgtgatgaaaatacat--tcgctgcagaattcaccaaacttctatattagctcactcattattttgttctgatctttgtagATTATGATTGGGATTCTCTTTTTTCTATTTGAGTTCTATGATGATCAATTGCTTGCGTTTCTTGTTTTGACTCTTGTATGGTTATGCGAGCTATTCACGA
||||  | |   ||| |      |||     | |    ||||| |  | ||| |   |  |   ||    |||    |  ||  ||  || ||| |   |||  |   |  |||| | || ||||||||||||| ||||| |||||||| |||||||| |||||||||||  | ||||| ||  | || |||| |||||| ||||| || || || || ||  
gtaa--gcactcattttaatttatttacttttgtcaaaagtttctatttaaattgtctcgtatttgtgctatttcttattctattagctttgctgatgaattgct---tattgatttctgcagATTATGATTGGCATTCTGTTTTTTCTCTTTGAGTTTTATGATGATCAGCTACTTGCCTTCATGGTCTTGATTCTTGTCTGGTTGTGTGAACTTTTTACTC

upper sequence: GRMZM5G814310_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA08G19970.1 (Glycine max), 3'ss of exon 10
gtaatgggaaatattctttggcgttttggagtatttgtagtttgtgatgaaaatacat--tcgctgcagaattcaccaaacttctatattagctcactcattattttgttctgatctttgtagATTATGATTGGGATTCTCTTTTTTCTATTTGAGTTCTATGATGATCAATTGCTTGCGTTTCTTGTTTTGACTCTTGTATGGTTATGCGAGCTATTCACGA
||||      || ||  |||   |  |    | |    ||||| |  | ||| |   |  |   ||    |||    |   |  ||  || ||| |   ||| ||   |  |||| | || ||||||||||||| ||||| |||||||| |||||||| |||||||||||  | ||||| ||  | || |||| |||||| ||||| || || || || ||  
gtaagcactcattttaattgatttactt--ttgtcaaaagtttctatttaaattgtctcgtgtttgtgctatttcttattttattagctttgctgataaattgtt---tattgatttctgcagATTATGATTGGCATTCTGTTTTTTCTCTTTGAGTTTTATGATGATCAGCTACTTGCTTTCATGGTCTTGATTCTTGTCTGGTTGTGTGAACTTTTTACTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaattcaccaaacttctatattagctcactcattattttgttctgatctttgtagATTATGATTGGGATTCTCTTTTTTCTATTTGAGTTCTATGATGATCAATTGCTTGCGTTTCTTGTTTTGACTCTTGTATGGTTATGCGAGCTATTCACGA
                                        ttctgat  putative branch site (score: 3)
                                              tctttgt  CT-rich tract
         aaacttctatatta  TA-rich tract