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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctagctcctaattgtaactcttgtattctggcatgggaaaacctgcgtgactcagctatttatttgtactgcctgatgattttaagctttcatctctctaccttagGCTACTGATGGAGAAAGACTTCCCTTGTCTGTTAAAGAGTTGGGGACCTGTGATCTTTATCCACAA

Basic information

species Arabidopsis thaliana
transcript AT3G15980.3
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G15980.2 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: LOC_Os02g11840.2 (Oryza sativa), 3'ss of exon 1
gtctagctcctaattgtaactcttgtattctggcatgggaaaacctgcgtgactcagctatttatttgtactgcctgatgattttaagctttcatctctctaccttagGCTACTGATGGAGAAAGACTTCCCTTGTCTGTTAAAGAGTTGGGGACCTGTGATCTTTATCCACAA
                    | || | |||   ||||  || |  |     |||    || |  ||| |  | | | ||| ||   | | |     ||| |   | ||  | | ||||| ||  |  | |||||  |||| || |||||||| |||||||||||||||||||||
-------------------gttttctgttc-accatgctaatatgttgaaaacttg--taatactttcttatacgtcatgtttcctaacctgt---tctatttttcagATTGCAGATGGTGAGCGCTTACCCTTAGCTGTGAAGGAGTTGGGAACCTGTGATCTTTATCCACAA

upper sequence: AT3G15980.2 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: LOC_Os02g11830.2 (Oryza sativa), 3'ss of exon 10
gtctagctcctaattgtaactcttgtattctggcatgggaaaacctgcgtgactcagctatttatttgtactgcctgatgattttaagctttcatctctctaccttagGCTACTGATGGAGAAAGACTTCCCTTGTCTGTTAAAGAGTTGGGGACCTGTGATCTTTATCCACAA
                    | |  | |||   ||||  || |  |     |||    || ||  || |||  | || | | |      || ||| | ||      ||  | | ||||| ||  |  | ||||||  ||| || |||||||| |||||||||||||||||||||
------------------gttttcttgttc-accatgctaatatgttgaaaacttgtatactttcttatacgtcttgtttactaacctgttccatttttc------agATTGCAGATGGTGAGCGCTTACCCTTGGTTGTGAAGGAGTTGGGAACCTGTGATCTTTATCCACAA

upper sequence: AT3G15980.2 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA07G03890.1 (Glycine max), 3'ss of exon 10
gtctagctcctaattgtaactcttgtattctggc--atgggaaaacctgcgtgactcagctatttatttgtactgcctgatgattttaagctttcatctctctaccttagGCTACTGATGGAGAAAGACTTCCCTTGTCTGTTAAAGAGTTGGGGACCTGTGATCTTTATCCACAA
|| | |   | | || || || || |  || | |  ||  | || |    |||    |    |   || ||    | ||    |  || | |||            ||||  | ||||||||||||| || || ||| ||||||| |||||||| ||||||||||| |||||||||
gtatgggctc-atttttacctttttttatccgtctaatatgtaagcaaaagtgg---aaacttgctttagtgacacatgcaagtactatgtttt------------ttagATTGCTGATGGAGAAAGGCTACCATTGGCTGTTAAGGAGTTGGGCACCTGTGATCTCTATCCACAA

upper sequence: AT3G15980.2 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA08G22140.1 (Glycine max), 3'ss of exon 10
gtctagctcctaattgtaactcttgtattc-tggcatgggaaaacctgcgtgactcagctatttatttgtactgcctgatgattttaagctttcatctctctaccttagGCTACTGATGGAGAAAGACTTCCCTTGTCTGTTAAAGAGTTGGGGACCTGTGATCTTTATCCACAA
|| | |   | | || || |  || | | | ||  ||  | || |    |||    |    |   || ||    | ||    | ||| | |||            ||||  | |||||||||||||  | || ||| ||||||| |||||||| ||||||||||| ||||| |||
gtatgggctc-atttttaccctttttgtccgtgtaatatgtaagcaaaagtgg---aaacttgctttagtgacacatgcaagtattatgtttt------------ttagATTGCTGATGGAGAAAGGTTACCATTGGCTGTTAAGGAGTTGGGCACCTGTGATCTCTATCCTCAA

upper sequence: AT3G15980.2 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 10
gtctagctcctaattgtaactcttgt-attctggcatgggaaaacctgcgtgactcagctatttatttgtactgcctgatgattttaagctttcatctctctaccttagGCTACTGATGGAGAAAGACTTCCCTTGTCTGTTAAAGAGTTGGGGACCTGTGATCTTTATCCACAA
|| |       ||||     | || | ||| |||  |   |  || |  |   || |  |    | |  |   |  | |   || |    |  |||  ||    || ||| |||||||||||||||| | || ||| ||||||| ||||| || |||||||||||||| ||||||
gtttgaacttaaattcagcttattctcattttgg--ttacatgacat-tgaagcttaagtgagaaatccttaaggttcacatttctttcttgccatgcct---tctcagGTTACTGATGGAGAAAGATTGCCTTTGGCTGTTAAGGAGTTAGGAACCTGTGATCTTTACCCACAA

upper sequence: AT3G15980.2 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv11s0016g04180.t01 (Vitis vinifera), 3'ss of exon 10
gtctagctcctaat---tgtaactcttgtattctggcatggga--------aaacctgcgtgactcagctattta-tttgtactgcctgatgattttaagctttcatctctctaccttagGCTACTGATGGAGAAAGACTTCCCTTGTCTGTTAAAGAGTTGGGGACCTGTGATCTTTATCCACAA
|| ||  |||  |    || |  | |  | || | |  || ||        ||||     |  |||  || |||  |||||    | |  | | |||    |  ||||| |    || ||| ||| |||||||||||| | || ||| |||| ||||||||||| |||||||| |||||||| |||
gtttatttccctacatgtgcagatttcatctttttggctgagatggatgagaaactattttttctcttctttttgctttgtctaacatagtcaatttgg--taacatctattattctcagGTTACAGATGGAGAAAGATTGCCTTTGGCTGTGAAAGAGTTGGGAACCTGTGACCTTTATCCTCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcagctatttatttgtactgcctgatgattttaagctttcatctctctaccttagGCTACTGATGGAGAAAGACTTCCCTTGTCTGTTAAAGAGTTGGGGACCTGTGATCTTTATCCACAA
                   gcctgat  putative branch site (score: 4)
                                   ctttcatctctctacc  putative PPT
     tatttatttgtact  TA-rich tract