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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcttctttacttatctatatcaatagaaatgaacttagcaaaaaggatttgcatagaaagttaatagtttcatcattttgttgattttgctactacaaccaaaatcagGTTTGTGGAGATTATGGCTCCTGTTTTCTCCCGCAAGGCATGGCGCTGTGTGTGGCATATGATTCAG

Basic information

species Arabidopsis thaliana
transcript AT3G27470.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G27470.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GRMZM2G162881_T01 (Zea mays), 3'ss of exon 3
gtatgcttctttacttatctatatcaatagaaatgaacttagcaaaaa-ggatttgcatagaaagttaatagtttcatcattttgttgattttgctactacaaccaaaat-cagGTTTGTGGAGATTATGGCTCCTGTTTTCTCCCGCAAGGCATGGCGCTGTGTGTGGCATATGATTCAG
                                         | |  |  | | |    ||  |  ||| |   ||    |  ||  || ||||   |    | |  | || ||||||||| || || |||||  |||| |||||  |  | |||||||||||||| |||||||||||||||
-----------------------------------------gtaggagtgcaatcatttattagattattttcttatcgaaatttctgtttttcacatgtaatctgatatgcagGTTTGTTGAAATAATGGCAACTGTATTCTCAAGGGATGCATGGCGCTGTGTATGGCATATGATTCAG

upper sequence: AT3G27470.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv14s0066g00310.t01 (Vitis vinifera), 3'ss of exon 8
gtatgcttctttacttatctatatcaatagaaatgaacttagcaaaaaggatttgcatagaa--agttaatagtttcatcattttgttgattttgctactacaaccaaaatcagGTTTGTGGAGATTATGGCTCCTGTTTTCTCCCGCAAGGCATGGCGCTGTGTGTGGCATATGATTCAG
    |  | |  ||  || ||  | ||    |    | || | |||   |   || |  |||    || || | ||||      | || |||    || |||    | |  ||| ||||| ||||| |||||| |||| || || || || |||||||| ||||| |||||||||||||||
----gtatgtgcacagatttaatttaagtacagaacattttgaaaatttgtactgtaaggaactgttttatggattcaaataaatctttattg-attattacttaaatatgcagCTTTGTTGAGATCATGGCTACTGTGTTTTCTCGAAATGCATGGCGTTGTGTTTGGCATATGATTCAG

upper sequence: AT3G27470.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: PP1S70_58V6.1 (Physcomitrella patens), 3'ss of exon 10
gtatgcttctttacttatctatatcaatagaaatgaacttagcaaaaaggatttgcatagaaagttaatagtttcatcattttgttgattttgctactacaaccaaaatcagGTTTGTGGAGATTATGGCTCCTGTTTTCTCCCGCAAGGCATGGCGCTGTGTGTGGCATATGATTCAG
         |||| ||  |     |  |||||    | ||||    ||| || || ||    |  |    | | ||| ||||||  | |      | | |   |||   ||| ||||||||||||||||| ||||||||||| ||    || ||| | ||||| ||||||||||| |||
--------ttttagttgccagctacgttagaatc--atttagacttaagaatctgtatcatgatgtgtgtgctgcattattttg--ggtcacctaattccgcgcaactgcagATTTGTGGAGATTATGGCACCTGTTTTCTCACGATCAGCCTGGAGATGTGTTTGGCATATGATACAG

upper sequence: AT3G27470.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: EFJ04271 (Selaginella moellendorffii), 3'ss of exon 5
gtatgcttctttacttatctatatcaatagaaatgaacttagcaaaaaggatttgcatagaaagttaat--agtttcatcatttt--gttgattttgctactacaaccaaaatcagGTTTGTGGAGATTATGGCTCCTGTTTTCTCCCGCAAGGCATGGCGCTGTGTGTGGCATATGATTCAG---------------------------------
                                               | | ||||  |  |   |  ||  |  ||| |   ||   | |  || |        |        ||| ||||||||||| |||||||| ||||| || |||||||| ||||||||||||||||||||||||||                                  
---------------------------------------------gtaagttttgtgtttagtttctatttatcttccttgcttctagctatttctatcgactgagtttgctacagATTTGTGGAGATCATGGCTCCAGTTTTTTCGCGCAAGGCCTGGCGCTGTGTGTGGCATATGATTCAAAATGACTTGGTGCATGGCTGGGGACTAGACTTT

upper sequence: AT3G27470.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: EFJ32148 (Selaginella moellendorffii), 3'ss of exon 6
gtatgcttctttacttatctatatcaatagaaatgaacttagcaaaaaggatttgcatagaaagttaat--agtttcatcatttt--gttgattttgctactacaaccaaaatcagGTTTGTGGAGATTATGGCTCCTGTTTTCTCCCGCAAGGCATGGCGCTGTGTGTGGCATATGATTCAG---------------------------------
                                               | | ||||  |  |   |  ||  |  |||||   ||   | |  || |        |        ||| ||||||||||| |||||||| ||||| || |||||||| ||||||||||||||||||||||||||                                  
---------------------------------------------gtaagttttgtgtttagtttctatttatcttcattgcttctagctatttctatcgactgagtttgctacagATTTGTGGAGATCATGGCTCCAGTTTTTTCGCGCAAGGCCTGGCGCTGTGTGTGGCATATGATTCAAAATGACTTGGTGCATGGCTGGGGACTAGACTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagaaagttaatagtttcatcattttgttgattttgctactacaaccaaaatcagGTTTGTGGAGATTATGGCTCCTGTTTTCTCCCGCAAGGCATGGCGCTGTGTGTGGCATATGATTCAG
                         tgttgat  putative branch site (score: 4)
                     attttgttgatttt  TA-rich tract