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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattaatcatccccttgttttcattattgtcaagtttgtgagttgaagtttgtataaacattattggtactatatctctttcagGCTTTTCTGCTCAATGCTTTGCTCGAACCCCAAGCTTGATTCGCACCGTTTCAAAGATATTATCGATGAGGCCATTGCAGCGG

Basic information

species Arabidopsis thaliana
transcript AT3G12170.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G12170.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: LOC_Os02g10220.1 (Oryza sativa), 3'ss of exon 5
---------gtaattaatcatccccttgttttcattattgtcaagtttgtgagttg-aagtttgta--taaacattattggtactatatct------cttt-----cagGCTTTTCTGCTCAATGCTTTGCTCGAACCCCAAGCTTGATTCGCACCGTTTCAAAGATATTATCGATGAGGCCATTGCAGCGG
           |||| |   |    |  |||||  ||  |  |||    ||| ||| ||||   ||  |       |||  || | ||  |      | ||     ||||||||| || |||||| |||||||  | || ||||||||||| || || || |||||||| || |||||||| ||||| |  |
gtggcttacaaaatttagtgttgattaattttctatacag--aaggcaatgaattgcaagtgaataattgggttccatttctattttaatttggtgcccttgtatgcagGCTTTTTTGTTCAATGATTTGCTCAGATCCAAAGCTTGATTCCCATCGCTTTAAAGATATAATTGATGAGGCAATTGCTGAAG

upper sequence: AT3G12170.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G090689_T01 (Zea mays), 3'ss of exon 3
-----------------------------gtaattaatcatccccttgttttcattattgtcaagtttgtgagttg-------aagtttgtataaacat---tattggtactatatctct---ttcagGCTTTTCTGCTCAATGCTTTGCTCGAACCCCAAGCTTGATTCGCACCGTTTCAAAGATATTATCGATGAGGCCATTGCAGCGG
                              |  ||  |||  || || |  | |     || ||   ||| |  ||       | | |||| | ||  |   |||||| | | |  |  |   ||||||||||||||| ||||| |||||||  | || ||||||||||| ||||| ||||| ||||| || |||||||| ||||  |  |
gtgatttctttgaattttaatttccttttatgcttgttcaaacctttatcctgaaa---gtgaaagctgtaaactggtccaacatgcttgttttaatttctatattggcattgttcccttctattcagGCTTTTCTGCACAATGATTTGCTCAGAACCAAAGCTTGATTCTCACCGCTTCAAGGATATAATTGATGAGGCGATTGGTGAAG

upper sequence: AT3G12170.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G006753_T01 (Zea mays), 3'ss of exon 3
-----------------------------gtaattaatcatccccttgttttcattattgtcaagtttgtgagttgaagtttgtataaacat---tattggtactatatctct---ttcagGCTTTTCTGCTCAATGCTTTGCTCGAACCCCAAGCTTGATTCGCACCGTTTCAAAGATATTATCGATGAGGCCATTGCAGCGG
                              |  ||  |||  || || |  | |    ||| || |     |    | | |||| | ||  |   |||||| | | |  |  |   ||||||||||||||| ||||| |||||||  | || ||||||||||| ||||| ||||| ||||| || |||||||| ||||  |  |
gtgatttctttgaattttaatttccttttatgcttgttcaaacctttatcctgaaagctgtaaactggtccaac--aggcttgttttaatttctatattggcattgttcccttctattcagGCTTTTCTGCACAATGATTTGCTCAGAACCAAAGCTTGATTCTCACCGCTTCAAGGATATAATTGATGAGGCGATTGGTGAAG

upper sequence: AT3G12170.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G129987_T01 (Zea mays), 3'ss of exon 5
---------gtaattaatcatccccttgttttcattattgtcaagtttgtgagttgaagtttgtataaacattat----tggtactatatctct---ttcagGCTTTTCTGCTCAATGCTTTGCTCGAACCCCAAGCTTGATTCGCACCGTTTCAAAGATATTATCGATGAGGCCATTGCAGCGG
          |  || ||||      |    | |   |||| ||||     |    | | |||| | ||  || |    ||  | | |  |  |   | ||||||||||||| ||||| |||||||  | || ||||||||||| ||||| ||||| ||||| ||||||| ||| ||||| |  |
tttccttttatgtttgatcaaaaatgtaaactgaaagttgtgaagtggtccaac--aggcttgttttaattttctacaatgacattcttcccatctatccagGCTTTTCTGCACAATGATTTGCTCAGAACCAAAGCTTGATTCCCACCGCTTCAAGGATATAATCGATGGGGCGATTGCTGAAG

upper sequence: AT3G12170.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G075485_T02 (Zea mays), 3'ss of exon 5
-----------------------------gtaattaatcatccccttgttttcattattgtcaagtttgtgagttgaagtttgtataaacat---tattggtactatatctcttt---cagGCTTTTCTGCTCAATGCTTTGCTCGAACCCCAAGCTTGATTCGCACCGTTTCAAAGATATTATCGATGAGGCCATTGCAGCGG
                              |  ||  |||  || || |  | |    ||| || |     |    | | |||| | ||  |   |||||| | | |  |  | |   ||||||||||||| ||||| |||||||  | || ||||||||||| ||||| ||||| ||||| || || ||||| ||||  |  |
gtgatttctttgaattttaatttccttttatgcttgttcaaacctttatcctgaaagctgtaaactggtccaac--aggcttgttttaatttctatattggcattgttcccttctatccagGCTTTTCTGCGCAATGATTTGCTCAGAACCAAAGCTTGATTCTCACCGCTTCAAGGATATAATTGACGAGGCGATTGGTGAAG

upper sequence: AT3G12170.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA19G32480.1 (Glycine max), 3'ss of exon 5
gtaattaatcatccccttgttttcattattgtcaagtttgtgagttgaagtttgtataaacattattggtactatatctcttt-cagGCTTTTCTGCTCAATGCTTTGCTCGAACCCCAAGCTTGATTCGCACCGTTTCAAAGATATTATCGATGAGGCCATTGCAGCGG
||||  || |||       ||   ||     | |    | |  |   | |||    |  | || |  ||   ||| || |||| ||||||||| || ||||||||||| ||  | || || |||||||| ||||| ||||| |||||| |||||||||| || ||  | |
gtaagaaagcattgtgaatttgagatgcgcatgagccgtatttgaaaaggttgagcttgatatca--ggagttatctccctttgcagGCTTTTTTGTTCAATGCTTTGTTCAGATCCTAAACTTGATTCACACCGATTCAAGGATATTCTCGATGAGGCTATAGCTTCAG

upper sequence: AT3G12170.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv08s0007g07960.t01 (Vitis vinifera), 3'ss of exon 5
gtaattaatcatccccttgttttcattattgtcaagtttgtgagttgaagtttgtataaacattattggtactatatctctttcagGCTTTTCTGCTCAATGCTTTGCTCGAACCCCAAGCTTGATTCGCACCGTTTCAAAGATATTATCGATGAGGCCATTGCAGCGG
|||   |||        ||||| | || || |    ||| |  | |       | || | | |   |  |    | ||  | ||||||||||||| ||||||||||| ||  |||| ||||| ||||| ||||| ||||| |||||| | |||||||| ||  |||| |
gta--caatagcaaatgtgtttcccttctttttttttttttaggcttg---ccggatcagcct--ctaatctgctttccttctcagGCTTTTCTGTTCAATGCTTTGTTCTGACCCTAAGCTGGATTCACACCGATTCAAGGATATTCTTGATGAGGCAATATCAGCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcaagtttgtgagttgaagtttgtataaacattattggtactatatctctttcagGCTTTTCTGCTCAATGCTTTGCTCGAACCCCAAGCTTGATTCGCACCGTTTCAAAGATATTATCGATGAGGCCATTGCAGCGG
                                           tatctctttc  CT-rich tract
                   tttgtataaacattat  TA-rich tract