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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcgttttgacaccattttaaatcattttgttcttatcttttctgatctttctgtaaggattgtggattttcttggttgcagCACATCCATGGGTTAGAGAAGGAGGAGATGCATCTGAGATTCCCATAGACATATCTGTTCTGAACAACATGCGTCAGTTTGTGAAATTTAGCCGCCTTAA

Basic information

species Arabidopsis thaliana
transcript AT2G17890.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G17890.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os02g03410.2 (Oryza sativa), 3'ss of exon 7
---------------------gtaagcgttttgacaccattttaaatcattttgttcttatcttttctgatctttctgtaaggattgtggattttcttggttgcagCACATCCATGGGTTAGAGAAGGAGGAGATGCATCTGAGATTCCCATAGACATATCTGTTCTGAACAACATGCGTCAGTTTGTGAAATTTAGCCGCCTTAA
                        |  || || | || ||  ||    || ||  ||      | ||    ||| ||||   | || ||  ||    || ||  ||| ||||||||||| |||||||||||||| ||||||||||| ||  | || ||||||||  ||  |||||||||||||||||| || |  |||||  ||||
gtaagttcctacatctaatctaagatagtcttaatacaatagtagtgaatcttcgtcag---ctgtcaatccttactgtcctgtttatgctttgatatgttt--agCGCATCCATGGGTAAGAGAAGGAGGAGAAGCATCTGAGATCCCTGTTGATATATCTGTATTGTCCAACATGCGTCAGTTTGTCAAGTACAGCCGTTTTAA

upper sequence: AT2G17890.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA01G37100.1 (Glycine max), 3'ss of exon 8
---------------gtaagcgttttgacaccattttaaatcattttgttcttatcttttctgatct-ttctgtaaggattgtggattttcttggttgcagCACATCCATGGGTTAGAGAAGGAGGAGATGCATCTGAGATTCCCATAGACATATCTGTTCTGAACAACATGCGTCAGTTTGTGAAATTTAGCCGCCTTAA
                |||    |||  |   || | ||   | ||    |  | || | |   | | || |||     |   | ||| |  |  || ||||||||||||||||||||||||||||||| ||||  |||||||| || || |||||||| |||||||||||||| ||||||||||||| ||| ||  | ||
aactgtattctaactataatttgtttc-ctttatctaaacgtagttaaaacaaagctatacccttatgttgtgttgtactgacgaattctgatatttccagCACATCCATGGGTTAGAGAAGGAGGAGAGGCATTAGAGATTCCTATTGATATATCTGTCCTGAACAACATGCGACAGTTTGTGAAATATAGTCGGTTGAA

upper sequence: AT2G17890.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA11G08180.1 (Glycine max), 3'ss of exon 8
--------------gtaagcgttttgacaccattttaaatcattttgttcttatct-tttctgatctttctgtaaggattgtggattttcttggttgcagCACATCCATGGGTTAGAGAAGGAGGAGATGCATCTGAGATTCCCATAGACATATCTGTTCTGAACAACATGCGTCAGTTTGTGAAATTTAGCCGCCTTAA
               |     ||||  |   || | ||   ||||    |  | || |  |  |   || |||     |  || ||| |  |  ||  |||||||||||||||||||||||||||||| ||||  |||||||| || || |||||||| |||||||||||||| ||||||||||||| ||| ||  | ||
taactgtattctaactggagtttttttccttatctaaacatatttaaaacaaagctataccctaatgttgtgttgtactgatgaattctgatatttctagCACATCCATGGGTTAGAGAAGGAGGAGAGGCATTAGAGATTCCTATTGATATATCTGTCCTGAACAACATGCGACAGTTTGTGAAATATAGTCGGTTGAA

upper sequence: AT2G17890.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA16G23870.1 (Glycine max), 3'ss of exon 9
--------------gtaagcgttttgacaccattttaaatcattttgttcttatcttttctgatctttctgtaaggattgtggattttcttggt--tgcagCACATCCATGGGTTAGAGAAGGAGGAGATGCATCTGAGATTCCCATAGACATATCTGTTCTGAACAACATGCGTCAGTTTGTGAAATTTAGCCGCCTTAA
              ||   | |||  |    | |  || |  |||| |   ||  | |  ||   | | | | ||  || ||  |   | |  |  | ||||||||||||||||||||||||||||||| ||||  |||||||| || || |||||||| |||| ||||||||| ||||||||||||| ||| ||  | ||
aagttacacttattgtcttcttttatatgtaactaaaagtgcttttatgtgtaattgtgttgcattatgt-tgagtgttttgattaaacctaatatttcagCACATCCATGGGTTAGAGAAGGAGGAGAAGCATTGGAGATTCCTATTGATATATCTGTCCTGAGCAACATGCGGCAGTTTGTGAAATATAGTCGATTCAA

upper sequence: AT2G17890.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA02G05440.1 (Glycine max), 3'ss of exon 7
-------------gtaagcgttttgacaccattttaaatcattttgttcttatcttttctgatctttctgtaaggattgtggattttcttggt--tgcagCACATCCATGGGTTAGAGAAGGAGGAGATGCATCTGAGATTCCCATAGACATATCTGTTCTGAACAACATGCGTCAGTTTGTGAAATTTAGCCGCCTTAA
              |      ||  |    ||   || |  |||| |   ||  | |  ||   | | |  ||   || ||  |   | |  |  | |||||||||||||||||||||||||||| || ||||  |||||||| || || |||||||| || | ||||||||| ||||||||||||| ||| ||  | ||
acttattgtcttctttttttcttatatgtaatcaaaagtgcttttatgtgtaattgtgttgcattatgttgaactgttttgattaaacctaatatttcagCACATCCATGGGTTAGAGAAGGAGGTGAAGCATTGGAGATTCCTATTGATATATCTGTCCTCAGCAACATGCGGCAGTTTGTGAAATATAGTCGAATGAA

upper sequence: AT2G17890.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv04s0023g03420.t01 (Vitis vinifera), 3'ss of exon 7
-gtaagcgttttgacaccattttaaatcatt-----ttgttcttatcttttctgatctttctgtaaggattgtggattttcttgg---------ttgcagCACATCCATGGGTTAGAGAAGGAGGAGATGCATCTGAGATTCCCATAGACATATCTGTTCTGAACAACATGCGTCAGTTTGTGAAATTTAGCCGCCTTAA
 || |   | |     | || ||  |   ||     |||    ||| |||| ||   | | |||  |  ||       |   |||         || |||||||||||||||||||||||||||||||||| ||||||||||| || || || |||||||||  |||||||||| | ||||| || |  || | | | ||
ggttattatatgtgatctatgttggactgttatggtttgcctctatgttttttgccttctgtgtttgatttagcatcctgactgggaataactttttcagCACATCCATGGGTTAGAGAAGGAGGAGATGCCTCTGAGATTCCGATTGATATTTCTGTTCTGTCCAACATGCGTGAATTTGTCAAGTACAGTCACTTGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgttcttatcttttctgatctttctgtaaggattgtggattttcttggttgcagCACATCCATGGGTTAGAGAAGGAGGAGATGCATCTGAGATTCCCATAGACATATCTGTTCTGAACAACATGCGTCAGTTTGTGAAATTTAGCCGCCTTAA
             ttctgat  putative branch site (score: 3)
                                        ttttctt  putative PPT
      ttatctttt  TA-rich tract