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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctctttcctttctctttaggtaacacttgtttctgcaatacttcagcatgcggatttctgatcttttcttgaaattgttgaacagTGTACTGTACTTGAGGTCAAAGTTATTGAAGGCCATGGTACAACGATTGATGTTGTGTTGGTAAACGGTGAACTCCATGAAGGTGATCAAATCGTCGTTT

Basic information

species Arabidopsis thaliana
transcript AT1G76810.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G76810.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: LOC_Os05g51500.1 (Oryza sativa), 3'ss of exon 5
gtctctttcctttctctttaggtaacacttgtttctgcaatacttcagcatgcggatttctgatcttttcttgaaattgttgaacagTGTACTGTACTTGAGGTCAAAGTTATTGAAGGCCATGGTACAACGATTGATGTTGTGTTGGTAAACGGTGAACTCCATGAAGGTGATCAAATCGTCGTTT
               |  |   ||| | ||  || | || ||    |||||||    |||| ||||  | |      ||||   |||||||| || || || ||||| ||| ||||||| |||||||| ||  |||||||||||||||| ||||||  |||||||||||| |||||||| || || |
------------gtacggtgcataa-atttacttgt-cattataaaagcatgca---ttcttatctcgtttc-----tgttt--cagTGTACCGTGCTGGAAGTCAAGGTTGTTGAAGGTCATGGTACTACAGTTGATGTTGTGTTGGTCAACGGTATACTCCATGAAGGAGATCAAATAGTTGTGT

upper sequence: AT1G76810.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GRMZM2G023418_T01 (Zea mays), 3'ss of exon 4
gtctctttcctttctctttaggtaacacttgtttctgcaatacttcagcatgcggat---ttctgatc--ttttcttgaaattgttgaacagTGTACTGTACTTGAGGTCAAAGTTATTGAAGGCCATGGTACAACGATTGATGTTGTGTTGGTAAACGGTGAACTCCATGAAGGTGATCAAATCGTCGTTT
                  ||    ||  |  | | |   ||||     ||     ||   |||| |||  || |||||   ||||    |||||||||||||| || ||||| ||| |||||||||||||||| || ||||||||||| ||||| || |||  |||||||||||| |||||||| || ||||
-----------------gtaatgtactttgatctttattataccattacagaaaaatgcattcttatcgattgtcttg---ttgtgtttcagTGTACTGTACTGGAAGTCAAGGTTGTTGAAGGCCATGGTACTACAATTGATGTTGTTTTGGTCAATGGTATACTCCATGAAGGAGATCAAATAGTTGTTT

upper sequence: AT1G76810.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv18s0076g00310.t01 (Vitis vinifera), 3'ss of exon 6
gtct-ctttcctttctctttaggtaacacttgtt---tctg-caatacttcagcatgcggatttctgatcttttcttgaaattgttgaacagTGTACTGTACTTGAGGTCAAAGTTATTGAAGGCCATGGTACAACGATTGATGTTGTGTTGGTAAACGGTGAACTCCATGAAGGTGATCAAATCGTCGTTT
|||| ||||| |||| || ||  |     | |||   || |   |||       ||| |||||  |||| || | |||||| ||||   |||||||| ||  | |||||||| ||| | || |||||||| ||||| ||||||||||||||||| || ||||  || |||||||| ||||| || || ||||
gtcttctttcttttcactgtattttgagttagttgaatcagatgatagcaggttatgtggattg-tgattttgtgttgaaaatgtttgccagTGTACGGTGTTGGAGGTCAAGGTTGTCGAGGGCCATGGGACAACCATTGATGTTGTGTTGGTTAATGGTGTGCTTCATGAAGGGGATCAGATAGTTGTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctgcaatacttcagcatgcggatttctgatcttttcttgaaattgttgaacagTGTACTGTACTTGAGGTCAAAGTTATTGAAGGCCATGGTACAACGATTGATGTTGTGTTGGTAAACGGTGAACTCCATGAAGGTGATCAAATCGTCGTTT
                         ttctgat  putative branch site (score: 3)
                                      ttgaaatt  TA-rich tract