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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctagtgaagcaatcaactatctgagtaaatttgtagcgtatcatttttcttttttggtgttctgaccatccatttacttctccaatttgttacagAGATATCAAGCCTGATAATCTGCTACTCGACAGAAGCGGTCACATGAAGTTATCCGATTTTGGATTATGTAAGCCATTAGATTGTAGTATTCTCCAGGAA

Basic information

species Arabidopsis thaliana
transcript AT3G23310.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G23310.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA10G32480.1 (Glycine max), 3'ss of exon 4
--------------------gtctagtgaagcaatcaactatctgagtaaatttgtagcgta-tcatttttcttttttggtgttctgaccatccat----ttacttctccaatttg--ttacagAGATATCAAGCCTGATAATCTGCTACTCGACAGAAGCGGTCACATGAAGTTATCCGATTTTGGATTATGTAAGCCATTAGATTGTAGTATTCTCCAGGAA
                    |||  || |  | || ||  |||| | || |||  |    |  |  | ||| ||| |||    ||  |  |   ||    ||  |  |   || ||  || |||||||||||||||||| ||| |||| || || ||||  ||||||||||| ||||| || |||||||||||||| ||| | || || |||| ||| ||||||
gtaagctcaagcttcaaatagtcatgttacaccatgaaa-atcttattatattaatcttatggtggtctttttttcttgcacatcaaaaaaggtataatattcttattttgatatgcattccagAGATATCAAGCCTGACAATTTGCTGCTAGATAGAAATGGTCACATGAAATTATCAGACTTTGGATTATGTAAACCACTGGACTGCAGTAATCTTCAGGAA

upper sequence: AT3G23310.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA20G35110.1 (Glycine max), 3'ss of exon 4
--------------------gtctagtgaagcaatcaac-tatctgagtaaatttgtagcgtatcatttttcttttt--tggtgttctgaccatcca----tttacttctccaatttgttacagAGATATCAAGCCTGATAATCTGCTACTCGACAGAAGCGGTCACATGAAGTTATCCGATTTTGGATTATGTAAGCCATTAGATTGTAGTATTCTCCAGGAA
                    |||  || |  | || ||  | |   | |||  || | | |      |||||||     |         |  ||  |    | || || |   ||   || |||||||||||||||||| ||  |||| || || ||||  ||||||||||| ||||| || |||||||||||||| ||| |||| || |||| ||| ||||||
gtaagctcaagctgcaaatagtcatgttacaccatgaaaatcttatattaatcttatggtggtcttgttttcttgcacataaaaaaaaaaagatataatattctaattttgatatgcattccagAGATATCAAGCCTGACAACTTGCTGCTAGATAGAAATGGTCACATGAAATTATCAGACTTTGGATTATGTAAACCACTAGACTGCAGTAATCTTCAGGAA

upper sequence: AT3G23310.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA10G00830.1 (Glycine max), 3'ss of exon 4
-----------------------------------------gtctagtgaagcaatcaactatctgagtaa--atttgtagcgtatcatttttcttttttggtgttctgac-catccatttacttctccaatttgttacagAGATATCAAGCCTGATAATCTGCTACTCGACAGAAGCGGTCACATGAAGTTATCCGATTTTGGATTATGTAAGCCATTAGATTGTAGTATTCTCCAGGAA
                                          | | |  |  |  | |       ||  ||  ||   ||  |     || ||||   |   |  |      ||   || |  || |  |||   || |||||||||||||||||| ||  |||| || || ||||  || |||||||| ||||| ||||||||||||||||| ||  |||| || ||||  || || |||
gtaagctcaaagctgtaaaaaataacgtcaaatgatggtaaattttgctatacttttatgacatggatcaatgatacttattgcggtcttcttctggatcaatacttaatttcaataatctgatttttaaatgcattccagAGATATCAAGCCTGACAACTTGCTGCTAGATAGAAATGGCCACATGAAATTATCAGATTTTGGATTATGTAAACCGCTAGACTGCAGTAACCTTCAAGAA

upper sequence: AT3G23310.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA02G00580.2 (Glycine max), 3'ss of exon 5
------------------------------------------gtctagtgaagcaatca----actatctgagtaaatttgtagcg--tatcatttttcttttttggtgttctgaccatccatttacttctccaatttgttacagAGATATCAAGCCTGATAATCTGCTACTCGACAGAAGCGGTCACATGAAGTTATCCGATTTTGGATTATGTAAGCCATTAGATTGTAGTATTCTCCAGGAA
                                           | | |  | ||  | |    ||      |  | | || | |||    || | |   |   |   | || | |  |   || |  || |  |||   || |||||||||||||||||| ||  |||| || || ||||  || |||||||| ||||| ||||||||||||||||| ||  |||| || |||| ||| || |||
gtaagctcaaagctgtaaaaaaataacgtcaaatgatggtaaattttggtatgcttttatgacacggatcaatgatacttatggcggtcttcgtctggatcaataaatatttttaata---atctgatttttaaatgcattccagAGATATCAAGCCTGACAACTTGCTGCTAGATAGAAATGGCCACATGAAATTATCAGATTTTGGATTATGTAAACCGCTAGACTGCAGTAATCTTCAAGAA

upper sequence: AT3G23310.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv05s0049g01220.t01 (Vitis vinifera), 3'ss of exon 4
gtctagtgaagcaatcaactatctgagtaaatttgtagcgtat-catttttcttttttggtgttctgaccatccatttacttctcca-----atttgttacagAGATATCAAGCCTGATAATCTGCTACTCGACAGAAGCGGTCACATGAAGTTATCCGATTTTGGATTATGTAAGCCATTAGATTGTAGTATTCTCCAGGAA
|| | ||| |  | |  |  ||    |||  |  | | | ||| |||  ||||  |    ||   | |  | | ||   | ||||||     | || |||||||||||||||||| || ||| | || ||||| |||   || || ||||| || || ||||||||||||||||| ||||| ||||| |||| ||| || || 
gttt-gtgtaagattttatcatgattgtatgtgggaaccatatgcatgcttctgatc--atgacttaagaagcaataaccctctccatatttacttattacagAGATATCAAGCCCGACAATTTACTGCTCGATAGATATGGACATATGAAATTGTCAGATTTTGGATTATGTAAACCATTGGATTGCAGTAATCTTCATGAG

upper sequence: AT3G23310.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: PP1S87_129V6.1 (Physcomitrella patens), 3'ss of exon 4
gtctagtgaagcaatcaactatctgagtaaatttgt--agcgtatcatttttcttttttggtgttctgaccatccattta---cttctccaatttgttacagAGATATCAAGCCTGATAATCTGCTACTCGACAGAAGCGGTCACATGAAGTTATCCGATTTTGGATTATGTAAGCCATTAGATTGTAGTATTCTCCAGGAA
  | |   |||   |     |||| |||  | | ||  |   |  ||    | |||||  |  |  |  |  |  |||     ||  ||   ||| |  ||| ||||||||||| |||||||||||  | || |  | ||| |||||||||||||||||||||||  | |||||||| ||||| |||   |   | |  | |
--ccacaaaagagttatgacatctcagtttactggtccatgtttccaaacatgtttttgagattcttttctgttgattctggtctattctggtttttctcagGGATATCAAGCCGGATAATCTGCTCTTGGATAAGAACGGACACATGAAGTTATCCGATTTTGGCCTTTGTAAGCCTTTAGACTGTTCCAACTTGCCTGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcatttttcttttttggtgttctgaccatccatttacttctccaatttgttacagAGATATCAAGCCTGATAATCTGCTACTCGACAGAAGCGGTCACATGAAGTTATCCGATTTTGGATTATGTAAGCCATTAGATTGTAGTATTCTCCAGGAA
                   ttctgac  putative branch site (score: 2)
     tttctttttt  TA-rich tract