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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacttgggttctagtctctctagcttggtcagtcagtatttgactttcttttctcatctctttgtggaattgatattgtatcttttcctcatttcttttatttgctcttgtgcagACTGACACGAAGAAAATATCGGCTGTATCCATCTTTTTTGAGACAATGCCATACAGATTGGATGAGAACACTGGTTACATTGATTATGACCAG

Basic information

species Arabidopsis thaliana
transcript AT5G26780.3
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G26780.3 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: LOC_Os03g52840.2 (Oryza sativa), 3'ss of exon 6
gtacttgggttctagtctctctagcttggtcagtcagtatttgactttcttttctcatctctttgtggaattgatattgtatcttttcctcatttcttttatttgctcttg--tgcagACTGACACGAAGAAAATATCGGCTGTATCCATCTTTTTTGAGACAATGCCATACAGATTGGATGAGAACACTGGTTACATTGATTATGACCAG
             ||| |||    | |   || |   || || |  |||   | | ||    |||  | | |   ||  |  |  |  || | || ||  | ||  |  ||  |||||||||| || ||||| || || || || || || || |||||||||||||| |||||||||||||| | |||||| |  ||||||||||| |||
-----------tgagtttcttccccct---caattcttagtt-atgttcagatataatgctcttg--gtactctcatcct-cccatggcttagttgttcaacttcttgatggttgcagACTGATACTAAGAAGATTTCAGCAGTTTCGATATTCTTTGAGACAATGCCCTACAGATTGGATGAAAGCACTGGCTTGATTGATTATGATCAG

upper sequence: AT5G26780.3 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GRMZM2G135283_T02 (Zea mays), 3'ss of exon 6
gtacttgggttctagtctctctagcttggtca-gtcagtatttgactttcttttctcatctctttgtggaattgatattgtatcttttcctcatttcttttatttgctcttgtgcagACTGACACGAAGAAAATATCGGCTGTATCCATCTTTTTTGAGACAATGCCATACAGATTGGATGAGAACACTGGTTACATTGATTATGACCAG
                 |||  |  |   | |  |       | | ||  |  |  |||     | ||    |     |    || |  ||||    || ||  | || || ||||||||||||| ||||| ||||| ||    || || ||||||||||||||||| |||||||||||||| | |||||| |  |||||||| || |||
----------------atctgcaaatgaatgacattttcccataaattcttagtaacattcagatatgatgctctagatactcctatagctcaaaggttctacctactgtt-tgcagACTGACACTAAGAAGATATCTGCAACTTCAATATTTTTTGAGACAATGCCTTACAGATTGGATGAAAGCACTGGATTGATTGATTACGATCAG

upper sequence: AT5G26780.3 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GRMZM2G135283_T01 (Zea mays), 3'ss of exon 6
gtacttgggttctagtctctctagcttggtca-gtcagtatttgactttcttttctcatctctttgtggaattgatattgtatcttttcctcatttcttttatttgctcttgtgcagACTGACACGAAGAAAATATCGGCTGTATCCATCTTTTTTGAGACAATGCCATACAGATTGGATGAGAACACTGGTTACATTGATTATGACCAG-------
                 |||  |  |   | |  |       | | ||  |  |  |||     | ||    |     |    || |  ||||    || ||  | || || ||||||||||||| ||||| ||||| ||    || || ||||||||||||||||| |||||||||||||| | |||||| |  |||||||| || |||       
----------------atctgcaaatgaatgacattttcccataaattcttagtaacattcagatatgatgctctagatactcctatagctcaaaggttctacctactgtt-tgcagACTGACACTAAGAAGATATCTGCAACTTCAATATTTTTTGAGACAATGCCTTACAGATTGGATGAAAGCACTGGATTGATTGATTACGATCAGGTCATTT

upper sequence: AT5G26780.3 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA02G38160.2 (Glycine max), 3'ss of exon 6
gtacttgggttctagtctctctagcttggtcagtcagtatttgactttcttttctcatctctttgtgg-aattgatattgtatcttttcc--tcatttctt--ttatttgctcttgt---gcagACTGACACGAAGAAAATATCGGCTGTATCCATCTTTTTTGAGACAATGCCATACAGATTGGATGAGAACACTGGTTACATTGATTATGACCAG
                      | |    |   | || | ||  | ||    |||  | |   ||| | |||   |    |||  |||      | || ||  ||||||| |  |||   |||||||||||| ||||| ||||| |||||||| || |||||||| |||||||||||||||||| |||||| ||||||||| || ||||||||||||
----------------------aacc--attcattagcaattccccttgcactcttttttaactgtagcaatgtgtgccatattctttgtaacaagtttttgattatttgtttgtgtcatgcagACTGACACCAAGAAGATATCAGCTGTATCTATATTTTTTGAAACAATGCCATACAGATTGAATGAGAGCACTGGTTATATCGATTATGACCAG

upper sequence: AT5G26780.3 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA14G36280.1 (Glycine max), 3'ss of exon 6
gtacttgggttctagtctctctagcttggtcagtcagtatttgactttcttttctcatctctttgtggaattgatattgtatcttttcctcatttcttttatttgctc---ttgtgcagACTGACACGAAGAAAATATCGGCTGTATCCATCTTTTTTGAGACAATGCCATACAGATTGGATGAGAACACTGGTTACATTGATTATGACCAG
             || || ||    || |  | ||    |    || | ||   |  |  |  ||||      ||||| | |  |  |   ||||   ||||||| |    |  ||||||||||||| ||||| |||||||||||||| || || ||||| |||||||||||||||||| |||||| ||||||||| || ||||||||||||
-------------agcctttca---ttagcaactccccttgcacctcttttaaattgtagcaatgtgtgcc--atattct-ttgtaacaagattttgattatttgtttgtatcatgcagACTGACACCAAGAAGATATCGGCTGTATCTATATTCTTTGAAACAATGCCATACAGATTGAATGAGAGCACTGGTTATATCGATTATGACCAG

upper sequence: AT5G26780.3 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv18s0001g07960.t01 (Vitis vinifera), 3'ss of exon 6
gtacttgggttctagtctctctagcttggtcagtcagtatttgactttcttttctcatctctttgtggaattgatattgtatcttttcctcatttcttttatttgctcttgtgcagACTGACACGAAGAAAATATCGGCTGTATCCATCTTTTTTGAGACAATGCCATACAGATTGGATGAGAACACTGGTTACATTGATTATGACCAG
  | ||| |   || | |||    |||  |   |   | |||||       || || ||       | |  |||| |  || |||||| |||||  ||| |  |     | ||||||| ||||| ||||| ||||| ||||| || || |||||||||||||||||||||||||||||||| || ||||| || ||||| |||||||||
--atttgaggaataatttctt---cttcctttttttttttttgataaaagcttgtcttc------agtatctgatgtgctagcttttcatcattcttttaacat-----tttgcagACCGACACCAAGAAGATATCTGCTGTGTCTATATTTTTTGAGACAATGCCATACAGATTGGATGAAAAAACTGGATATATTGACTATGACCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgtggaattgatattgtatcttttcctcatttcttttatttgctcttgtgcagACTGACACGAAGAAAATATCGGCTGTATCCATCTTTTTTGAGACAATGCCATACAGATTGGATGAGAACACTGGTTACATTGATTATGACCAG
       aattgat  putative branch site (score: 4)
               ttgtatcttttcctca  CT-rich tract
                            tcatttcttttattt  TA-rich tract