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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gcaagtatacctgagatacttttcctgataacaaaacttcattggaaatctatgtgattgtttttcagagtctctctgtaagttcaaatgctttcatgtattgactaactgagttcataatactctgtagGTTCTTTGCCTTGTTGCCATGGAGAAACCAATATCTCTTAAACCTGAGCATATCCGGGATGAGAAAGTGAAG

Basic information

species Arabidopsis thaliana
transcript AT5G40760.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G40760.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA19G24250.3 (Glycine max), 3'ss of exon 9
gcaagtatacctgagatacttttcctgataacaaaacttcattggaaatctatgtgattgtttttcagagtctctctgtaagttcaaatgctttcatgtattgactaactgagttcataatactctgtagGTTCTTTGCCTTGTTGCCATGGAGAAACCAATATCTCTTAAACCTGAGCATATCCGGGATGAGAAAGTGAAG
                        |  | | ||||   | | ||  | || ||   || |||  | |||    |  | | ||   ||    | |||   |||   ||| |   ||  ||  |      ||||||||||| | ||||| ||||| |||||| | ||||| |  |||||||| || ||||||||||||||||||
---------------------aaacaaacaccaaatgcttaatgtta-tccattaaatggttcattaga----cattatcagcctaatatatgtcaa--atttgttaattatttttctaccaactc--agGTTCTTTGCTTGGTTGCTATGGAAAAACCAGTTTCTCTCAGGCCTGAGCACATTCGGGATGAGAAAGTGAAG

upper sequence: AT5G40760.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA16G06850.1 (Glycine max), 3'ss of exon 9
gcaagtatacctgagatacttttcctgataacaaaacttcattggaaatctatgtgattgtttttcagagtctctctgtaagttcaaatgctttcatgtattgactaactgagttcataatactctgtagGTTCTTTGCCTTGTTGCCATGGAGAAACCAATATCTCTTAAACCTGAGCATATCCGGGATGAGAAAGTGAAG
                        |  | | ||||     | ||  | || ||   ||  ||  | |||   | || |      |  |||  | |    |||   | | |   ||  ||  |      ||||||||||| | ||||| ||||| |||||| | ||||| |  |||||||| || ||||||||||||||||||
---------------------aagcaaacaccaaatgcataatgtta-tccattaaataattcattagacattatcagc-----ctgatgtatgc-caaatttgttcattatttttttaccaactc--agGTTCTTTGCTTGGTTGCTATGGAAAAACCAGTTTCTCTCAGGCCTGAGCACATTCGGGATGAGAAAGTGAAG

upper sequence: AT5G40760.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA19G22690.1 (Glycine max), 3'ss of exon 9
gcaagtatacctgagatacttttcctgataacaaaacttcattggaaatctatgtgattgtttttcagagtctctctgtaagttcaaatgctttcatgt-attgactaactgagttcataatactctgtagGTTCTTTGCCTTGTTGCCATGGAGAAACCAATATCTCTTAAACCTGAGCATATCCGGGATGAGAAAGTGAAG
                            |||||| || | |||  | |  | | || ||  ||   ||  |   || |     || |||   |  || | ||| | ||  |   | || |||       ||||| ||||| | ||||| ||||| |||||| | ||||| || |||||||| || |||||||||||| |||||
------------------------aacctaacaagacct-attaaatagatctttggttacttcatagtttacatcagatcaatctaatatgtcaatcttattcattatttttctacaaaat------cagGTTTTTTGCTTGGTTGCTATGGAAAAACCAGTTTCTCTCAAGCCTGAGCACATTCGGGATGAGAAACTGAAG

upper sequence: AT5G40760.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: Vv14s0171g00490.t01 (Vitis vinifera), 3'ss of exon 9
gcaagtatacctgagatacttttcctgataacaaaacttcattggaaatctatgtgattgtttttcagagtctc--tctgtaagttcaaatgctttcatgtattgactaactgagttcataatactctgtagGTTCTTTGCCTTGTTGCCATGGAGAAACCAATATCTCTTAAACCTGAGCATATCCGGGATGAGAAAGTGAAG
                                   | | ||| |   |||   |  ||  ||    |||   |   | | ||   ||   | ||||||    ||   ||    ||||   | | || |  |||| |||||||| |||||||||||||| ||  | ||||| ||||||||||| ||||| |||||||||||||||
-------------------------------ttttattccatggagtatcatagcaatgtttgaatagaacttgaatgtatagcctcttcttctttcaatacttacatacgctagttttcactgct-tacagGTCCTTTGCCTGGTTGCCATGGAGAAGCCCGTCTCTCTCAAACCTGAGCACATCCGAGATGAGAAAGTGAAG

upper sequence: AT5G40760.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: PP1S192_39V6.4 (Physcomitrella patens), 3'ss of exon 9
gcaagtatacctgagatacttttcctgataacaaaacttcattggaaatctatgtgattgtttttcagagtctctctgtaagttcaaatgctttcatgtattgactaactgagttcataatactctgtagGTTCTTTGCCTTGTTGCCATGGAGAAACCAATATCTCTTAAACCTGAGCATATCCGGGATGAGAAAGTGAAG
                    | || |  |  | || ||   |||    | |   ||  ||| | |   | |||  ||| |   |   |    |  |||   || ||||  |   |     |     | || |||| || ||| | |||||||| |||||||| || || |  ||||||||||| |||||||||||||| |||
-------------------ctctcatactttcgaagct--gttgacgttat---tggctgtgtgtttaattctacctggataatagta---atcaatg---tggctaagaggagtgtctctgtgaggcagATTCTGTGTCTTTTGGCCATGGAAAAACCAATTTCCCTCAGTCCTGAGCATATTCGGGATGAGAAAGTCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgtaagttcaaatgctttcatgtattgactaactgagttcataatactctgtagGTTCTTTGCCTTGTTGCCATGGAGAAACCAATATCTCTTAAACCTGAGCATATCCGGGATGAGAAAGTGAAG
                           gactaac  putative branch site (score: 1)
                                      ttcataata  TA-rich tract