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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctctttttgttctcttacacatgtcttgtgttcctttttagctggccaagtcttctgtgatggtccgtctctgtttatttacagtcttgattttttttttctcttttttcagGAGTAACAATTTGGCTTCTCGCCGTTATTTACTTCATATCGGGTGTTCCAGGAGGCTATGTGTTATGGTATCGGCCTCTCTACCGTGCCTTCAG

Basic information

species Arabidopsis thaliana
transcript AT1G11180.2
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G11180.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: LOC_Os01g57220.2 (Oryza sativa), 3'ss of exon 6
gtctctttttgttctcttacacatgtcttgtgttcctttttagctggccaagtcttctgtgatggtccgtctctgtttatttacagtcttgattttttttttctcttttttcagGAGTAACAATTTGGCTTCTCGCCGTTATTTACTTCATATCGGGTGTTCCAGGAGGCTATGTGTTATGGTATCGGCCTCTCTACCGTGCCTTCAG
                 ||    || || | || ||||  ||  |    |  |  |   | |    || |||    | |          | ||  |    |||  ||   | ||| || |  || ||| | || ||| |||| ||||| ||||| ||||| || |||| |||||||||||||||||| || || |||  |||  | ||
----------------gtatggctgact-gagtaccttactatatatttatcttatggatcagctgccatctgcactgacacttcaaactaatcctgcggttcaattcaat-agGTGTTATGATCTGGTTGCTAGCCATTATCTACTTTATATCTGGTGTACCTGGAGCCTATGTGTTATGGTATCGCCCCCTTTACAATGCGATGAG

upper sequence: AT1G11180.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GRMZM2G100809_T01 (Zea mays), 3'ss of exon 6
----gtctctttttgttctctta-cacatgtcttgtgttcctttttagctggccaagtcttctgtgatggtccgtctctgtttatttacagtcttgattttttttttctcttttttcagGAGTAACAATTTGGCTTCTCGCCGTTATTTACTTCATATCGGGTGTTCCAGGAGGCTATGTGTTATGGTATCGGCCTCTCTACCGTGCCTTCAG
      ||  |  |||| | ||  |||||      | ||| |   ||||    || ||   || |  ||   | ||  | || |  ||        || |    | |||  ||    ||| || |  || ||||| || ||| |||| ||||||||||| ||||| || || |  ||||||||||||||||||||||| ||   |||  | ||
gtacaactaatcgtgttttattgtcacatcctccatcttcttccatagca---catgttacct-tactgacacttcaattttaaacta--------atatgacctatctacttcaaaagGTGTTATGATCTGGCTGCTTGCCATTATCTACTTCATATCTGGTGTGCCCGGGGCTTATGTGTTATGGTATCGGCCTCTTTATAATGCAATGAG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgatggtccgtctctgtttatttacagtcttgattttttttttctcttttttcagGAGTAACAATTTGGCTTCTCGCCGTTATTTACTTCATATCGGGTGTTCCAGGAGGCTATGTGTTATGGTATCGGCCTCTCTACCGTGCCTTCAG
                           tcttgat  putative branch site (score: 4)
                        cagtcttgattttttt  CT-rich tract
                tttatttacagtcttg  TA-rich tract