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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactcgacctaacttattgattctactaaaaccatatccttcctgcttcttctgtttggtgcatttgtaaacttggttgtatccttcattaagcatcatatcttctgcagTGGCTAAAGAGCCTTGATCAGAGGATGCGTGAGAGCATTGATTATGCCATTTGCTTGAACAGTGTTGGTTCTTGGGACAGTGAACTATTGATCCATGTGT

Basic information

species Arabidopsis thaliana
transcript AT3G44330.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G44330.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: LOC_Os08g01180.1 (Oryza sativa), 3'ss of exon 6
gtactcgacctaacttattgattctactaaaaccatatccttcctgcttcttctgtttggtgcatttgtaaact--tggttgtatccttcattaagcatcatatcttctgcagTGGCTAAAGAGCCTTGATCAGAGGATGCGTGAGAGCATTGATTATGCCATTTGCTTGAACAGTGTTGGTTCTTGGGACAGTGAACTATTGATCCATGTGT
||     |      | | |  || |  |||||  || | |||  ||   | |||||||       || | ||||  ||| |||||| ||  | ||   |  ||       |||||||| |  ||  | |||||| |  |||||||||||||||| ||||| |||||||||||||| |||||||| ||||||| |||||| | ||| |||||||
gttagttattctcttcagttttttttttaaaaaaatctgctttgtgg--catctgttt-------ttatcaactcatggctgtatcttttttgaattttggta-------cagTGGCTTAGAAGTTTCGATCAGCGTGTGCGTGAGAGCATTGACTATGCAATTTGCTTGAACAGCGTTGGTTCCTGGGACAATGAACTCTGGATGCATGTGT

upper sequence: AT3G44330.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GRMZM2G451366_T02 (Zea mays), 3'ss of exon 6
gtactcgacctaacttattgattctactaaaaccatatccttcct-gcttcttctgtttggtgcatttgtaaacttggttgtatccttcattaagcatcatatcttctgcagTGGCTAAAGAGCCTTGATCAGAGGATGCGTGAGAGCATTGATTATGCCATTTGCTTGAACAGTGTTGGTTCTTGGGACAGTGAACTATTGATCCATGTGT
|||    ||| |  |    ||||   |   ||| |  |||||| | |  || ||||| |     | ||  |      | ||| |  || || ||  ||          |||||||||||   |  |||||||| |  | || ||||||||||| ||||| ||||||||||||||||||||||| |||  || ||| || | ||| ||||| |
gtaagt-acccatttgtgcgatttagc---aactaggtccttctttgtgtcatctgtgtaagcaacttaca------gctgt-tttttaatcaacgat----------gcagTGGCTAAGAGGTTTTGATCAGCGTGTACGCGAGAGCATTGACTATGCAATTTGCTTGAACAGTGTTGGTTCCTGGAGCAATGACCTCTGGATGCATGTAT

upper sequence: AT3G44330.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GRMZM2G021784_T01 (Zea mays), 3'ss of exon 6
gtactcgacctaacttattgattctactaaaaccatatccttcctgcttcttctgtttggtgcatttgtaaact-tggttgtatccttcattaagcatcatatcttctgcagTGGCTAAAGAGCCTTGATCAGAGGATGCGTGAGAGCATTGATTATGCCATTTGCTTGAACAGTGTTGGTTCTTGGGACAGTGAACTATTGATCCATGTGT
|||    ||| |  |  ||||||   |   ||| |  |||||  || || |    | ||     |  | ||  |   | ||| |  || | | |             |||||||||| | |||  |||||||| |  | || ||||||||||| || || ||||||||||||| ||||||||| |||| || ||| || | ||| ||||| |
gtaagt-acccatttgtttgatttagc---aactaggtcctttgtgattgtgtcatctg---tgtaagcaacttacagctgttttttttaatga-------------tgcagTGGCTTAGGAGTTTTGATCAGCGTGTACGCGAGAGCATTGACTACGCAATTTGCTTGAACAATGTTGGTTCCTGGGGCAATGACCTCTGGATGCATGTAT

upper sequence: AT3G44330.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA11G18710.1 (Glycine max), 3'ss of exon 6
gtactcgacctaacttattgattctactaaaaccatatccttcctgcttcttctgtttggtgcatttg----taaacttggttgtatccttcatta---agcatcatatcttctgcagTGGCTAAAGAGCCTTGATCAGAGGATGCGTGAGAGCATTGATTATGCCATTTGCTTGAACAGTGTTGGTTCTTGGGACAGTGAACTATTGATCCATGTGT
          | |  | |    | |   ||   ||| |  || ||| |    ||||   | ||| |      |    || ||| |    ||  |||   |  ||  |   || | |||||||| | |||| |||||||  |  |||||||||||||||| ||||| ||||||||| | ||| |||| |||||||| | |||| | | ||| ||||| |
---------gtgatatttcctgtttgg-aagttcatttatttgctgatagaactgtaacgcgcaatcaaccttcccttttgttatggttttggttacatacaattctgcatttttcagTGGCTTAGGAGCTTTGATCAACGTCTGCGTGAGAGCATTGACTATGCTATTTGCTTGGATAGTATTGGCTCTTGGGAAAATGAATTGTGGATTCATGTAT

upper sequence: AT3G44330.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA12G09710.1 (Glycine max), 3'ss of exon 6
gtactcgacctaacttattgattctactaaaaccatatccttcctgcttcttctgtttggtgcatttg----taaacttggttgtatccttcatta---agcatcatatcttctgcagTGGCTAAAGAGCCTTGATCAGAGGATGCGTGAGAGCATTGATTATGCCATTTGCTTGAACAGTGTTGGTTCTTGGGACAGTGAACTATTGATCCATGTGT
            | ||  || ||  |   |   ||| |  || ||| |    || |     | | |      |    || ||| |    ||  |||   |  ||  |   || | |||||||| | |||| |||||||  |  |||||||||||||||| ||||| ||||||||| | ||| |||| |||||||| | |||| | | ||| |||||||
-------gtaagatttcctgtttgga---agttcatttatttgctgatagaactttaacacgtagtcaaccttcccttttgttatgctttttgttacatacaattctgcatttttcagTGGCTTAGGAGCTTTGATCAACGTCTGCGTGAGAGCATTGACTATGCTATTTGCTTGGATAGTATTGGCTCTTGGGAAAATGAATTGTGGATTCATGTGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttggtgcatttgtaaacttggttgtatccttcattaagcatcatatcttctgcagTGGCTAAAGAGCCTTGATCAGAGGATGCGTGAGAGCATTGATTATGCCATTTGCTTGAACAGTGTTGGTTCTTGGGACAGTGAACTATTGATCCATGTGT
                                           tatcttct  CT-rich tract
       atttgtaaa  TA-rich tract