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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagaaaaaaacattattttttcttaacttgcacaatttttttcactcaaatttatatccagaatatagcatggatatcacccttcatatttgcctgcagTGTTTCATTGTGAGCACAGTCAATGCTTTGCAGACGCCAATGATCAATGCAAGTATG

Basic information

species Arabidopsis thaliana
transcript AT1G06820.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G06820.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: LOC_Os11g36440.1 (Oryza sativa), 3'ss of exon 4
gtgagaaaaaaacattattttttcttaacttgcacaatttttttcactcaaatttatatccagaatatagcatggatatcacccttcata-tttgcctgcagTGTTTCATTGTGAGCACAGTCAATGCTTTGCAGACGCCAATGATCAATGCAAGTATG
||| || | |    | | |||      |||||  |||||||| |  |    |   || |     ||      |  | | ||   |    | ||||  || |||| || |||||||||||||||||||| ||||| || || ||||| |||||||| |||
gtgtgagatatttgtgagtttactc--acttgttcaatttttctttcgtcgacc-atgt----gattctctgttaacaccagtttattcactttgtttgtagTGCTTTATTGTGAGCACAGTCAATGCCTTGCAAACACCCATGATTAATGCAAGCATG

upper sequence: AT1G06820.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GRMZM2G108457_T02 (Zea mays), 3'ss of exon 4
gtgagaaaaaaacattattttttcttaacttgcacaattttttt-cactcaaatttatatccagaata---tagcatggatatcacccttcatatttgcct-gcagTGTTTCATTGTGAGCACAGTCAATGCTTTGCAGACGCCAATGATCAATGCAAGTATG
||| || | |          ||| | |  |  | || |||||   || || |  || | || | | |    |||        |||   ||  || |||  | | ||||||| |||||||||||||||||||| ||||| || || ||||| |||||||| |||
gtgtgagaga----------tttgtgagttgactcactttttaagcattccatcttctgtcaatactggtttagttgaagactcatgattattaattgttttgtagTGTTTTATTGTGAGCACAGTCAATGCCTTGCAAACACCCATGATAAATGCAAGCATG

upper sequence: AT1G06820.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GRMZM2G106531_T01 (Zea mays), 3'ss of exon 4
gtgagaaaaaaacattattttttcttaacttgcacaatttttttcactcaaattt---atatccag--------aatatagcatggatatcacccttcatatttgcc--tgcagTGTTTCATTGTGAGCACAGTCAATGCTTTGCAGACGCCAATGATCAATGCAAGTATG
||  || | |    | | ||   || |  || || | ||||  ||  |  |   |   || | |||        | | |||     |  |||   ||  || ||  |  || ||||||| |||||||||||||||||||| ||||| || || ||||| |||||||| |||
gtatgagagatttgtgagttga-ctcacttttca-agttttcctctttggagcctgtgatcttcagtcaatactagtttagtgaaaagttcatgattattaattatctttgtagTGTTTTATTGTGAGCACAGTCAATGCCTTGCAAACACCCATGATAAATGCAAGCATG

upper sequence: AT1G06820.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA02G34060.1 (Glycine max), 3'ss of exon 4
gtgagaaaaaaacattattttttcttaacttgcacaattt-ttttcactcaaatttat-atccagaatatagcatggatatcacccttcatatttgcctgcagTGTTTCATTGTGAGCACAGTCAATGCTTTGCAGACGCCAATGATCAATGCAAGTATG
 |      |||  |||  ||    | |  | |||| | |  ||| |||     || || || ||     | |        |        || | |   |||||||||| || |||||||||||||||||||||||||| ||||||||||||||    |||
-tttttctaaactatt--ttcaagtgagatagcaccactgatttacacattgtttgattattcaattattggtgcatgattggtaaaatatgtgttattgcagTGTTTTATAGTGAGCACAGTCAATGCTTTGCAGACACCAATGATCAATGCTGCCATG

upper sequence: AT1G06820.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA10G10990.1 (Glycine max), 3'ss of exon 4
gtgagaaaaaaacattattttttcttaacttgcacaattt-ttttcactcaaatttat-atccagaatatagcatggatatcacccttcatatttgcctgcagTGTTTCATTGTGAGCACAGTCAATGCTTTGCAGACGCCAATGATCAATGCAAGTATG
 |    |||||  |||  ||    | |  | |||| | |  ||| |||    ||| || || |||    | |        |        || | |   |||||||||| || |||||||||||||||||||||||||| ||||||||||||||    |||
-tttctaaaaactatt--ttcaagtgagatagcaccactgatttacacattgattaattattcagttattggtgcatgattggtaaaatatgtgttattgcagTGTTTTATAGTGAGCACAGTCAATGCTTTGCAGACACCAATGATCAATGCTGCCATG

upper sequence: AT1G06820.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv08s0032g00800.t01 (Vitis vinifera), 3'ss of exon 4
---------------gtgagaaaaaaacattattttttcttaacttgcacaatttttttcactcaaatt-tatatccagaatatagcatggatatcacccttcat----atttgcctgcagTGTTTCATTGTGAGCACAGTCAATGCTTTGCAGACGCCAATGATCAATGCAAGTATG
                | | |    |   | | |||||||||  |||     |||    |  ||| ||   ||||||      |  ||||   ||||   || |      | || ||||||||||| || ||||||||||| |||||||||||||| |||||||||||||| || |||
gtttgccgcagttatttcatagttgatgttgagtttttctta--ttgatagctttggaaccttcatatggcatatcccactactttcatgagcatcaatgttaactatggtatgtctgcagTGTTTTATAGTGAGCACAGTTAATGCTTTGCAGACACCAATGATCAATGCGAGCATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcaaatttatatccagaatatagcatggatatcacccttcatatttgcctgcagTGTTTCATTGTGAGCACAGTCAATGCTTTGCAGACGCCAATGATCAATGCAAGTATG
                                            tttgcct  CT-rich tract
     atttatat  TA-rich tract