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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagtgcgtcctttgatttttccttgacattggtattttatgtttctctgcattttttatccaaattgttttctaataagcttttgcatatttgggtgatgcagGTTATGGTGAATGGACTTCTCTTTCAGCTGTCTCTTCCTCTAAATTTTTTGGGTAGTGTTTACCGTGAAACAATTCAGAGCCTTGTGGACATGAAATCAA

Basic information

species Arabidopsis thaliana
transcript AT5G58270.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G58270.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA14G38800.1 (Glycine max), 3'ss of exon 9
gtcagtgcgtcctttgatttttccttgacattggtattttatgtttctctgcattttttatccaaattgttttctaataagcttttgcatatttgggtgatgcagGTTATGGTGAATGGACTTCTCTTTCAGCTGTCTCTTCCTCTAAATTTTTTGGGTAGTGTTTACCGTGAAACAATTCAGAGCCTTGTGGACATGAAATCAA
 ||   |      |   ||||| ||| | ||   ||  | |  ||  ||   | | | |||  || |  || |    | |  | |    ||  |     |||||||| ||||||||||| |||||||| || || |||||||| || |||||  | ||||||||||| ||||| || |||||||| || || |||||||| || |
-tcttagtcaaaatgatttttttcttaaaataattaaataaaattattc---aatctatatttaa-taattattacctgaattgtaatttaaattcaacatgcagGTAATGGTGAATGGGCTTCTCTTCCAACTATCTCTTCCACTCAATTTCCTTGGTAGTGTTTATCGTGAGACTATTCAGAGTCTAGTTGACATGAAGTCCA

upper sequence: AT5G58270.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA02G40490.1 (Glycine max), 3'ss of exon 9
gtcagtgcgtcctttgatttttccttgacattggtattttatgtttctctgcattttttatccaaattgttttctaataagcttttgcatatttgggtgatgcagGTTATGGTGAATGGACTTCTCTTTCAGCTGTCTCTTCCTCTAAATTTTTTGGGTAGTGTTTACCGTGAAACAATTCAGAGCCTTGTGGACATGAAATCAA
     |  ||| |     ||||  ||   |     |||  ||     | | || | | |||  || |  || |    |    | |    ||  |     |||||||| |||||||||||||| ||||| || || |||||||| || |||||  | ||||||||||| ||||| || |||||||| || || |||||||| || |
----ctttgtcataatgattttttttcttaaaataattaaataaaattattcaatctatatttaa-taattattacctggattataatctaaattcaatatgcagGTAATGGTGAATGGACTACTCTTCCAACTATCTCTTCCACTCAATTTCCTTGGTAGTGTTTATCGTGAGACTATTCAGAGTCTAGTTGACATGAAGTCCA

upper sequence: AT5G58270.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv06s0004g08350.t01 (Vitis vinifera), 3'ss of exon 12
gtcagtgcgtcctttgatttttccttgacattggtat--tttatgtttctctgcattttttatccaaattgttttctaataagcttttgcatatttgggtg-atgcagGTTATGGTGAATGGACTTCTCTTTCAGCTGTCTCTTCCTCTAAATTTTTTGGGTAGTGTTTACCGTGAAACAATTCAGAGCCTTGTGGACATGAAATCAA
    |||     ||   || ||| |  ||| | |||    || |     | || |    | ||  | | || | ||| |||    |  |  ||||| |||   | ||||||||||||||||| ||||| |||||||| |||||||| || || ||| | || ||||| || |||||||| || || || ||||| ||||||||||| |
----gtgaaaaattc--ttcttcataaacactagtagaacttctacgcatttggaaaaatgattaagaatgatctctcatat-tatgggtttattttggtatgtacagGTTATGGTGAATGGGCTTCTATTTCAGCTATCTCTTCCACTCAACTTTCTCGGCAGTGTGTATCGTGAAACTATACAAAGTCTTGTTGACATGAAATCCA

upper sequence: AT5G58270.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: EFJ24035 (Selaginella moellendorffii), 3'ss of exon 8
gtcagtgcgtcctttgatttttccttgacattggtattttatgtttctctgcattttttatccaaattgttttctaataagcttttgcatatttgggtgatgcagGTTATGGTGAATGGACTTCTCTTTCAGCTGTCTCTTCCTCTAAATTTTTTGGGTAGTGTTTACCGTGAAACAATTCAGAGCCTTGTGGACATGAAATCAA
                        |    |      ||||  |||| ||||  | || |       || || | |  | | | |||   | ||||     ||||||||||||| |||||  | ||||||||| ||||||| || || |||||| |||||| ||| || ||||||||    ||||||||| | |||||| |   ||
-----------------------gtaagtacaatcgttttccgttt-tctg-gtgttatgcttggttttttattttgtcatcctttc--tttttg-----tgcagGTTATGGTCAATGGTTTGCTCTTTCAGTTGTCTCTGCCCCTTAATTTTCTGGGTACTGTCTATCGTGAAACGCGACAGAGCCTTATAGACATGCATGAAA

upper sequence: AT5G58270.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: EFJ24600 (Selaginella moellendorffii), 3'ss of exon 8
gtcagtgcgtcctttgatttttccttgacattggtattttatgtttctctgcattttttatccaaattgttttctaataagcttttgcatatttgggtgatgcagGTTATGGTGAATGGACTTCTCTTTCAGCTGTCTCTTCCTCTAAATTTTTTGGGTAGTGTTTACCGTGAAACAATTCAGAGCCTTGTGGACATGAAATCAA
                        |    |      ||||  ||||    |  || | | |     || |||| |  |  |   |    | |||   |  ||||||||||||| |||||  | ||||||||| ||||||| || || |||||| |||||| ||| || ||||||||    ||||||||| | |||||| |   ||
-----------------------gtaagtacaatcgttttccgttttctggtgttatgttttggtgttttttttttttttgtcatcctttcttt---ttgtgcagGTTATGGTCAATGGTTTGCTCTTTCAGTTGTCTCTGCCCCTTAATTTTCTGGGTACTGTCTATCGTGAAACGCGACAGAGCCTTATTGACATGCATGAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcattttttatccaaattgttttctaataagcttttgcatatttgggtgatgcagGTTATGGTGAATGGACTTCTCTTTCAGCTGTCTCTTCCTCTAAATTTTTTGGGTAGTGTTTACCGTGAAACAATTCAGAGCCTTGTGGACATGAAATCAA
                     ttctaat  putative branch site (score: 2)
             aaattgttttctaata  TA-rich tract