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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtgtttccagagaccttaaaggaacattccctgaactccaaaaactctgcaactcttaagttgaatggaagaaacatatgctaataaagaacattctctctggaaaaattgtttgttcagGAAAGCAACAGATTGGAGTACCTGATACCAAAAAGAACATCGTTGAGACATCGGCTGCCAATGGGAGACCAAGGATTCACAGACTTTGTGGCTCATCTTC

Basic information

species Arabidopsis thaliana
transcript AT1G73460.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G73450.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: LOC_Os03g51020.1 (Oryza sativa), 3'ss of exon 6
--gttagtgtttccagagaccttaaaggaacattccctgaactccaaaaactctgcaactcttaagttgaatggaag--aaacatatgctaataaagaacattctctctggaaaaattgtttgttcagGAAAGCAACAGATTGGAGTACCTGATACCAAAAAGAACATCGTTGAGACATCGGCTGCCAATGGGAGACCAAGGATTCACAGACTTTGTGGCTCATCTTC
   | | |  ||| | |||  ||         ||||| |     || |        || | |  ||  || |       |||| |  ||   |       |  || ||   |   ||||||    ||||||||||||||| |||||||| |||| |||||||  ||||| ||| | || ||  |||| ||||  |||||||| || |  || ||||| ||  | ||||
gtttgaattcttctatagatgttttttttgttttcccagtcacacagatgtaactgaattttatagcagatttatccttaaactttagcccttctgtgttaacctttc--aattcattgttc-cccagGAAAGCAACAGACTGGAGTACTTGATTCCAAAAAAGACATCTTTGCGGCACCGCTTGCCCATGGCTGACCAAGGTTTTATCGAGTTTGTTGCATACCTTC

upper sequence: AT1G73450.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA05G33560.1 (Glycine max), 3'ss of exon 6
gttagtgtttccagagaccttaaaggaacattccctgaactccaaaaactctgcaactcttaagttgaatggaagaaacatatgctaataaagaacattctctctggaaaaattgtttgttcagGAAAGCAACAGATTGGAGTACCTGATACCAAAAAGAACATCGTTGAGACATCGGCTGCCAATGGGAGACCAAGGATTCACAGACTTTGTGGCTCATCTTC
 ||    |||    ||  ||||  |    ||      |          |||||||  | |||  |||||||           ||  | ||||    ||| | | |  |         | | ||||||| |||| | || || ||| || |||||||||  ||||| ||||| ||| |  ||||||||||||||||||| ||||  |||||||| |||||  | |
-ttgacatttt---agttcttaccgtgctatattaaaattgtgtttgcctctgcattttttac-ttgaatgat---------tgtcagtaaatt-tattgtttattaa---------tctacagGAAACCAACCGGTTAGAATACTTGGTACCAAAAAAGACATCCTTGAGGCATAGATTGCCAATGGGAGACCAAGGCTTCATTGACTTTGTTGCTCACTTGC


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggaagaaacatatgctaataaagaacattctctctggaaaaattgtttgttcagGAAAGCAACAGATTGGAGTACCTGATACCAAAAAGAACATCGTTGAGACATCGGCTGCCAATGGGAGACCAAGGATTCACAGACTTTGTGGCTCATCTTC
             tgctaat  putative branch site (score: 2)
                                              tttgttc  putative PPT
                taataaagaacatt  TA-rich tract