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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtaatatccttactgtttcagaaacacttgtgagtttttgtttattccgttttttcggtgaagagctaaagaactcatatctatatcaccatggaaaatgattctcagtttattgatactttatgatttgcagACTAGTAGCGATTTTGATGCCAAACCAATGGTAATGCTTTTGGGTCAATATTCCACCGGAAAAACAACATTTATAAAACACTTGCTCGGATGTGACTACC

Basic information

species Arabidopsis thaliana
transcript AT4G05520.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G05520.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GRMZM2G065012_T03 (Zea mays), 3'ss of exon 8
gtgagtaatatccttactgtttcagaaacacttgtgagtttttgtttattccgttttttcggtgaagagctaaagaactcatatctatatcaccatggaaaatgattctcagtttattgatactttatgatttgcagACTAGTAGCGATTTTGATGCCAAACCAATGGTAATGCTTTTGGGTCAATATTCCACCGGAAAAACAACATTTATAAAACACTTGCTCGGATGTGACTACC
    ||||| | |  |||  ||  |    |  ||     |||  ||| |||         ||| ||    |    || |  | |   |  | || | |    | ||| || |          ||| |       |||||||| |||||||| ||||| || |||||||| ||||| ||||||||||| ||||| || ||||||||||| ||||| || || ||   |      || |
----gtaattttc--actccttt-gttttatctgcag--tttaatttgttctacaacaaaggtaaatctgttgtaaagtgttgt--gtcgctcctttgctggtaatt-tctgcccccctccccttcaaa-----cagACTAGCAGCGATTTCGATGCGAAGCCAATGGTCATGCTGTTGGGTCAATACTCCACGGGGAAAACAACATTCATAAAGCATTTACTAAAAACAAGTTATC

upper sequence: AT4G05520.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA15G11970.1 (Glycine max), 3'ss of exon 7
-----gtgagtaatatccttactgtttcagaaacacttgtgagtttttgtttattccgttttttcggtgaaga----------gctaaagaactcatatctatatcaccatg--gaaaatgattctcagtttattgatactttatgatttgcagACTAGTAGCGATTTTGATGCCAAACCAATGGTAATGCTTTTGGGTCAATATTCCACCGGAAAAACAACATTTATAAAACACTTGCTCGGATGTGACTACC
      || ||  |   |  | ||| | |  || |  |   |  ||||||| | |  |||| |  |   | |            || |  |  || |||    || |  |||  || | | | |   ||  ||||     || ||   || ||||| |  |  ||||||||||| ||||||||||| |||||| | ||||||||||| || |||||||| |||||||||||||| ||| |   |||||| || |
gtaagttgcgttttgcacccaatgtataaataaaagatactaaattttgttaactgtgtttgtgagagcatggtaccggctctacttagcaggtcttattcgcataaatatgatgatattaacttcaagaatattttggtttcatccctttcagACCAACACTGATTTTGATGCTAAACCAATGGTCATGCTTCTTGGTCAATATTCAACAGGAAAAACTACATTTATAAAACATTTGTTAAAATGTGATTATC

upper sequence: AT4G05520.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA09G01160.1 (Glycine max), 3'ss of exon 6
gtgagtaatatccttactgtttcagaaacacttgtgagtttttgtttattccgttttttcggtgaagagctaaagaactcatatctatatcaccatgg-aaaatgattctcagtttattgata-ctttatgatttgcagACTAGTAGCGATTTTGATGCCAAACCAATGGTAATGCTTTTGGGTCAATATTCCACCGGAAAAACAACATTTATAAAACACTTGCTCGGATGTGACTACC
|| ||||  ||    ||    |    ||   |||| |  | |  ||      |  |  |   ||     || |  |  || |||    || |  |||   | || |   |||   ||||  |   ||  |   || ||||| |  |  ||||||||||| ||||||||||| |||||| | ||||||||||| || |||||||| |||||||||||||| ||| |   |||||| || |
gtaagtagcatttgcacccaatgtataaattttgttaactgtgtttctgagagcatggtacttgttctacttagcatatcttattcgcataaatatgatgatattaacttcaagatattcttggtttcttccctttcagACCAACACTGATTTTGATGCTAAACCAATGGTCATGCTTCTTGGTCAATATTCAACAGGAAAAACTACATTTATAAAACATTTGTTAAAATGTGATTATC

upper sequence: AT4G05520.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA17G01310.1 (Glycine max), 3'ss of exon 8
gtgagtaatatccttactgtttcagaaacacttgtgagtttttgtttattccgttttttcggtgaagagctaaagaactcatatctatatcaccatggaaaatgattctcagtttattgatactttatgatttgcagACTAGTAGCGATTTTGATGCCAAACCAATGGTAATGCTTTTGGGTCAATATTCCACCGGAAAAACAACATTTATAAAACACTTGCTCGGATGTGACTACC
             ||| ||   || | ||||     | |  ||    ||  | | || |   |  | |  | |  |  |||||   || | |  ||    | | | | | ||  | |   |  | | |   || ||||| |  || ||||||||||| ||||||||||| |||||  | |||||||||||||| || |||||||| ||||||||||| || ||  ||||||| || |
------------gttagtga--catatacacccaatattaattaac-atgacatattattcatacaaatgtgatta-ttcatacaaatgtgattat----attaagtttaagaatgtctgtggtgtgt--ctttcagACCAACAGTGATTTTGATGCTAAACCAATGGTCATGCTCCTTGGTCAATATTCCACTGGGAAAACAACCTTTATAAAACATTTACTAAGATGTGATTATC

upper sequence: AT4G05520.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA07G39450.1 (Glycine max), 3'ss of exon 8
----gtgagtaatatccttactgtttcagaaacacttgtgagtttttgtttattccgttttttcggtgaagagctaaagaac-tcatatctatatcaccatggaaaatgattctcagtttattgatacttta----tgatttgcagACTAGTAGCGATTTTGATGCCAAACCAATGGTAATGCTTTTGGGTCAATATTCCACCGGAAAAACAACATTTATAAAACACTTGCTCGGATGTGACTACC
    ||||   |||  |  | | | | |  || |  || || |||||||  | | |   | ||   |    |   |||  || |  |||  ||   |   ||    || ||  | ||||||   ||  |||     ||  || ||||| |  || ||||||||||| ||||||||||| |||||  | |||||||||||||| || |||||||| || |||||||| || ||  ||||||| || |
gttagtgacatatacacccaatatataaataaaatatg-gaatttttgtgaactacacatgtt-aatatcaattaaaatgacattttattcatgcaaatgtg----attatattaagtttaagaatggttttggtttgtctttcagACCAACAGTGATTTTGATGCTAAACCAATGGTCATGCTCCTTGGTCAATATTCCACAGGGAAAACAACCTTCATAAAACATTTACTAAGATGTGATTATC

upper sequence: AT4G05520.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv00s0516g00020.t01 (Vitis vinifera), 3'ss of exon 9
--------------------------------------------------------gtgagtaatatccttactgtttca-gaaacacttgt------gagtttttgtttat-tccgttttttcggtgaagagctaaagaactcatatctatatcaccatggaaaatgattctcagtttattgatactttatgatttgcagACTAGTAGCGATTTTGATGCCAAACCAATGGTAATGCTTTTGGGTCAATATTCCACCGGAAAAACAACATTTATAAAACACTTGCTCGGATGTGACTACC
                                                         ||||   | ||     | |   | | ||||| |||       | | |    |||| |  | | | |    | |||  |      ||     |   |   | ||   | |  ||    |  || ||  || ||| |  |||||||||   ||| || |||||||||||||| ||||| |||||||||||||| ||||| || || ||||| ||||| |||||||| || ||||||||| | | ||
gtaagtggactgagtattttagtttgtttatgatgagatgcctaaatttgttaatgatgagatgtctctcccttttcctatgtaacacatgttctaaaaaatgtgatattatgtatgctctgttctcgtagatttctgactctagctccagaagttctatttgagagtatggaaatattttt--tattttttcttttgcagACACATAGTGACTTTGATGCCAAACCCATGGTTATGCTTTTGGGTCAGTATTCAACTGGGAAAACTACATTCATAAAACATTTACTCGGATGTAATTTCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atctatatcaccatggaaaatgattctcagtttattgatactttatgatttgcagACTAGTAGCGATTTTGATGCCAAACCAATGGTAATGCTTTTGGGTCAATATTCCACCGGAAAAACAACATTTATAAAACACTTGCTCGGATGTGACTACC
                                tattgat  putative branch site (score: 3)
                              tttattgatactttat  TA-rich tract