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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagcttgcaagaacaaacatacctgagaaatttcattcttctatgattccataactactcgcttttcttcatgcagTTCTTTGTACATGAAGTATAACAGTGAGCATCAAGCACCATACTGGAGAGGTGCTATATGGATGAACATGAACTACATGATTCTTTCTTCCCTGCACCAT

Basic information

species Arabidopsis thaliana
transcript AT1G24320.1
intron # 18
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G24320.1 (Arabidopsis thaliana), 3'ss of exon 18
lower sequence: LOC_Os01g69210.1 (Oryza sativa), 3'ss of exon 19
------------------gtgagcttgcaagaacaaacatacctgagaaatttcattcttctatgattcca----taactactcgcttttcttcatgcagTTCTTTGTACATGAAGTATAACAGTGAGCATCAAGCACCATACTGGAGAGGTGCTATATGGATGAACATGAACTACATGATTCTTTCTTCCCTGCACCAT
                   | | | |   |    | ||||| |       |||  |  ||   | | ||       || ||   | | | | |  | ||||||  | || ||||||   |||| ||||||| |  | ||||| ||||||||||| || ||||| |||||||||||||||||||||||    || ||||| 
gcttgttaatgaattaaaatcaacataacaatgtatacatagcattattgtttggtcttttggttactctgatctgaattatctgttgtccatggtccagTTCAATATATATGAAGCGCAACACTGAGCATGATCCCCCATATTGGAGAGGTGCCATTTGGATAAACATGAACTACATGATTCTTTCAGGACTACACCAC

upper sequence: AT1G24320.1 (Arabidopsis thaliana), 3'ss of exon 18
lower sequence: GRMZM2G071675_T01 (Zea mays), 3'ss of exon 2
------------------gtgagcttgcaagaacaaacatacctgagaaatttcattcttcta----tgattccataactactcgctttt-cttcatgcagTTCTTTGTACATGAAGTATAACAGTGAGCATCAAGCACCATACTGGAGAGGTGCTATATGGATGAACATGAACTACATGATTCTTTCTTCCCTGCACCAT
                  || || |    |      | ||| ||     ||||  |  | | |    ||  | |  || ||     |||| | |  | ||||||  | || ||||||  ||| |  |||||| |  | || || ||||||||||| || ||||| ||||||||||||||| |||||||  | || || || 
tcccaatgccttattactgt-agttcaagatggtttatatagctatattatttggtcatccaacaactgggttctgaagtatctatttttacatggtccagTTCAATATATATGAAGCGTAATACAGAGCATGACCCCCCTTATTGGAGAGGTGCCATTTGGATAAACATGAACTACATGGTTCTTTCGGCACTACATCAC


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cctgagaaatttcattcttctatgattccataactactcgcttttcttcatgcagTTCTTTGTACATGAAGTATAACAGTGAGCATCAAGCACCATACTGGAGAGGTGCTATATGGATGAACATGAACTACATGATTCTTTCTTCCCTGCACCAT
                           ccataac  putative branch site (score: 3)
                                 ctactcgcttttcttc  CT-rich tract
      aaatttcatt  TA-rich tract