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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtattttgctaccttttgcttttgtgtacaatacctctgattcaggtctcagttcgttgtgctcactagggttagcagaagctaaagtttccttctttttcagttgttatgtggctaaacaagttcatctaaaatatttcctaatataactaatttctttttctgagcagATTCTATTCTCTTTCCGGAAGCTCCGATTGCATTGCGATTGTCTAGTCATCTTCTGCTTGGTGTTGTGCGTATATATTCGAGAAAGGTGAATTACCTCTT

Basic information

species Arabidopsis thaliana
transcript AT5G16270.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G16270.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA18G48020.1 (Glycine max), 3'ss of exon 1
gtgagtattttgctaccttttgcttttgtgtacaatacctctgattcaggtctcagttcgttgtgctcactagggttagcagaagctaaagtttccttctttttcagttgttatgtggctaaacaagttcatctaaaatatttcctaatataactaatttctttttctgagcagATTCTATTCTCTTTCCGGAAGCTCCGATTGCATTGCGATTGTCTAGTCATCTTCTGCTTGGTGTTGTGCGTATATATTCGAGAAAGGTGAATTACCTCTT
                                                                 ||   |||| |   |   | |    | | | ||   | |    |  | | ||   | |     |||||| | |      || || ||   ||||| | |   ||| ||||||| ||||| || || ||||  || |||||| | || ||||| || |||||||| |||||||| ||| | |||||||| ||||||||||||||||| ||
----------------------------------------------------------------cctttgtaggttgtacgtgaac--gtgctgcatttggtgttgtctaattt-tgatcatattttatcatctcata------cttatttagtcaattt-tatgaatgaacagATTCCATTCTTTTCCCTGAAGTACCAATTGCACTCCGTTTGTCCAGCCATCTTCTACTTGGTGTGGTGAGGATATATTCTAGAAAGGTGAATTACCTTTT

upper sequence: AT5G16270.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA09G38310.1 (Glycine max), 3'ss of exon 1
gtgagtattttgctaccttttgcttttgtgtacaatacctctgattcaggtctcagttcgttgtgctcactagggttagcagaagctaaagtttccttctttttcagttgttatgtggctaaacaagttcatctaaaatatttcctaatataactaat---ttctttttctgagcagATTCTATTCTCTTTCCGGAAGCTCCGATTGCATTGCGATTGTCTAGTCATCTTCTGCTTGGTGTTGTGCGTATATATTCGAGAAAGGTGAATTACCTCTT
                                                                           |     | || |    | |     |  | || ||||| | |  ||||    | |||| |    |  |  |  |  ||  || |   || | |   || |||||||| ||||| ||||| |||   || || ||| | || ||||| || |||||||| |||||||| ||| | |||||||| || |||||||||||||| ||
---------------------------------------------------------------------------tccttcgtaggttgtatgtgaacgtgctgcatttgttgtat--ctaattttgatcatattttgtcatctcatacttatttagtcaattgtatgaatgtgcagATTCCATTCTTTTTCCTGAAATACCAATCGCACTCCGTTTGTCCAGCCATCTTCTACTTGGTGTGGTGAGGATATATTCTAGGAAGGTGAATTACCTTTT

upper sequence: AT5G16270.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv00s0220g00080.t01 (Vitis vinifera), 3'ss of exon 1
gtgagtattttgctaccttttgcttttgtgtacaatacctctgattcaggtctcagttcgttgtgctcactagggttagcagaagctaaagtttccttctttttcagttgttatgtggctaaacaagttcatctaaaatatttcctaatataactaatttctttttctgagcagATTCTATTCTCTTTCCGGAAGCTCCGATTGCATTGCGATTGTCTAGTCATCTTCTGCTTGGTGTTGTGCGTATATATTCGAGAAAGGTGAATTACCTCTT
                                                                  |||||   | |        ||  | | |   |||  || | ||   |||    |   |    |||||||| || |  |    |  || |  ||| | ||||| | ||||||| ||||| ||||| || |  || |||||| | || ||||| || ||||||||||| ||||| ||| | |||||||| |||||||| |||||||| ||
--------------------------------------------------------------aacttcacttctgcttt------ctttattatatatctcattaatttaaaatgcactt---cttactcatctaacatgtacc---gttcaatttttttttctttctcaacagATTCAATTCTTTTTCCTGATGTACCAATTGCACTACGTTTGTCCAGCCATCTTCTGCTGGGTGTGGTGAGGATATATTCTAGAAAGGTTAATTACCTTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taaacaagttcatctaaaatatttcctaatataactaatttctttttctgagcagATTCTATTCTCTTTCCGGAAGCTCCGATTGCATTGCGATTGTCTAGTCATCTTCTGCTTGGTGTTGTGCGTATATATTCGAGAAAGGTGAATTACCTCTT
                                aactaat  putative branch site (score: 2)
                                  ctaatttctttttct  CT-rich tract
           atctaaaatatttcct  TA-rich tract