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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagttgttaccccaaatctaacaacgtatctgcatgaatagttctaatgtgatatgtatctgtcaaattatgaaggtgcaagaaaatgaacaaacatctcactttacattatggtgtttaatagGTTCTCTATAATACAAATGGCTTCCTGGAAAAGAACAGAGATCCGCTGCATGTTGATCTTATCCAACTTTTATCATTGTGCAAATGTCAATTATTGAACC

Basic information

species Arabidopsis thaliana
transcript AT4G27370.1
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G27370.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GLYMA13G35790.1 (Glycine max), 3'ss of exon 18
gtcagttgttaccccaaatctaacaacgtatctgcatgaatagttctaatgtgatatgtatctgtcaaattatgaaggtgcaagaaaatgaacaaacatctcactttacattatggtgtttaatagGTTCTCTATAATACAAATGGCTTCCTGGAAAAGAACAGAGATCCGCTGCATGTTGATCTTATCCAACTTTTATCATTGTGCAAATGTCAATTATTGAACC
     |||||   |  |  ||  ||  |||| || |  || | | | |      | |  |||  ||   || | | | | |                  ||    | | |||  |   |||| |||||| | ||| |||||| ||||||||| ||||||||||||||||| || |    ||||   || |||||  | |||| ||| |  ||| || |  |  |  
----tttgtttttcttagcctttcag-gtatatgtagaaagaatacca------tgtaaatcaatcttgtttttatgtttcgga---------------ctattctaatatttggtcctttattagGTTTTGTATGATACAAGTGGCTTCCTAGAAAAGAACAGAGATCCACTACCATCTGATTCCATTCAACTACTGTCATCGTGTAGTTGTGAACTGCTACAGT

upper sequence: AT4G27370.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GLYMA12G22300.1 (Glycine max), 3'ss of exon 17
gtcagttgttaccccaaatctaacaacgtatctgcatgaatagttctaatgtgatatgtatctgtcaaattatgaaggtgcaagaaaatgaacaaacatctcactttacattatggtgtttaatagGTTCTCTATAATACAAATGGCTTCCTGGAAAAGAACAGAGATCCGCTGCATGTTGATCTTATCCAACTTTTATCATTGTGCAAATGTCAATTATTGAACC
                    |  | |  | ||||  |||       |  ||||   ||  | |||    | ||| |     |      |  |   ||||  |   | | ||   | | | || |||||||| ||| ||||||||||||| || ||||||||||||||   | ||  |  ||||   || ||| |  | ||||  || || ||| || |  || |  
--------------------tttctaattttctgtctgatccacctttgtgtggactgagtatgt---gtcatggaaaccaatttcgtttgatgcacattac---taatatctggatctctattagGTTCTGTATGATACAAATGGCTTTCTAGAAAAGAACAGAGACATGTTGTCTTCTGATTCCATTCAATTCCTGTCATCATGTAATTGTGAACTGCTGCAGT

upper sequence: AT4G27370.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GLYMA12G34780.1 (Glycine max), 3'ss of exon 19
gtcagttgttaccccaaatctaacaacgtatctgcatgaatagttctaatgtgatatgtatctgtcaaattatgaaggtgcaagaaaatgaacaaacatctcactttacattatggtgtttaatagGTTCTCTATAATACAAATGGCTTCCTGGAAAAGAACAGAGATCCGCTGCATGTTGATCTTATCCAACTTTTATCATTGTGCAAATGTCAATTATTGAACC
     |||||   |  |  ||  || ||||| || | ||||   |   |||  |         |||||  |       || |  ||  |     |  ||   |    | |||  |   |||| |||||| | ||| |||||| ||||||||| ||||||||||||||||| || |    ||||   || |||||  | ||||  || |  ||| || |  |  |  
----tttgtttttcttagcctttca-cgtatatgta-gaatgcataccatggaa---------gtcaatct-------tgtattaatgtttctgactattcta----atatttggtcctttattagGTTTTGTATGATACAAGTGGCTTCCTAGAAAAGAACAGAGATCCACTACCATCTGATTCCATTCAACTACTGTCATCATGTAGTTGTGAACTGCTACAGT

upper sequence: AT4G27370.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: Vv19s0014g03640.t01 (Vitis vinifera), 3'ss of exon 17
gtcagttgttaccccaaatctaacaacgtatctgcatgaatagttctaatgtg---atatgtatctgtcaaattatgaaggtgcaagaaaatgaacaaacatctcactttacattatggtgtttaatagGTTCTCTATAATACAAATGGCTTCCTGGAAAAGAACAGAGATCCGCTGCATGTTGATCTTATCCAACTTTTATCATTGTGCAAATGTCAATTATTGAACC
                           ||   ||  |||   |   | ||      ||    | |  |||||  || | | |  |      || ||   ||| |    | ||||   |  ||||  |||||||| ||| |||||| ||||||| ||||||||||||||||||| || ||   ||||   ||||||||  | ||||  || |  ||  |  |     |  
------------------------cctgtgcttgtctgagctggcttgattcattcatgaaaaaccttcaaaa-atcaggatttatcgttgtgtacg--cattt--actgacatctggaggtttgttagGTTCTTTATGATACAAGTGGCTTCTTGGAAAAGAACAGAGATCCTCTTCACTCTGATTCGATCCAACTCCTCTCATCATGTAGTTGCAAGCTTCCTCAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgaaggtgcaagaaaatgaacaaacatctcactttacattatggtgtttaatagGTTCTCTATAATACAAATGGCTTCCTGGAAAAGAACAGAGATCCGCTGCATGTTGATCTTATCCAACTTTTATCATTGTGCAAATGTCAATTATTGAACC
                          atctcac  putative branch site (score: 3)
                                 tttacattat  TA-rich tract