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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtcttgtgtgttactatcattgaagttattagttggtagtttttccaaattaagagataccacattttatcatttttatagctttccatgttttgtgtcagCTTCGAGAACACAGACATGGCTTTACACTATGGTGCTATGTTTAGGGAGTGTATCCGTCATCAGATTGTGGCTAA

Basic information

species Arabidopsis thaliana
transcript AT5G47540.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G47540.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GRMZM2G066051_T01 (Zea mays), 3'ss of exon 3
gtgagtcttgtgtgttactatcattgaagttattagttggtagtttttccaaattaagagataccacattttatcatttt-tatagctttccatgttttgtgtcagCTTCGAGAACACAGACATGGCTTTACACTATGGTGCTATGTTTAGGGAGTGTATCCGTCATCAGATTGTGGCTAA
 ||         ||  | || |  || |||   || |  |   ||      | |||    |  |    ||| ||| |    ||||  ||||  ||   |    ||| |  |||||||  ||||| |||||||| |||||||||||||| ||||| ||||| || || || |   | || | 
-tgttctggaactggaattagctgtgtagtg--taatatgggattagctttatttattttactcattgtttgatcttcccctatatatttctttgccgta---cagGTATGAGAACATGGACATCGCTTTACATTATGGTGCTATGTTGAGGGAATGTATTCGCCACCAAAGCATTGCAAG

upper sequence: AT5G47540.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GRMZM2G351417_T01 (Zea mays), 3'ss of exon 3
gtgagtcttgtgtgttactatcattgaagttattagttggtagtttttccaaattaagagataccacattttatcattt-ttatagctttccatgttttgtgtcagCTTCGAGAACACAGACATGGCTTTACACTATGGTGCTATGTTTAGGGAGTGTATCCGTCATCAGATTGTGGCTAA
    ||  ||    |  || |   |   |||  || |  |   ||      | |||    |  |   ||||  || |    ||||  ||||  |  |      ||| |  ||||| |  ||||| |||||||| |||||||||||||| ||||| ||||| || || || |   | || | 
-cttgttctggaattagctgtg--tagtgttgataatatgggattaggtttatttatttaactcattatttgttcttccactatatatttctttactgaa---cagGTATGAGAATATGGACATTGCTTTACATTATGGTGCTATGTTGAGGGAATGTATTCGCCACCAAAGCATTGCAAG

upper sequence: AT5G47540.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA17G01180.1 (Glycine max), 3'ss of exon 2
gtgagtcttgtgtgttactatcattgaagttattagttggtagtttttccaaattaagagatacca-cattttatcatttttatagctttccatgttttgtgtcagCTTCGAGAACACAGACATGGCTTTACACTATGGTGCTATGTTTAGGGAGTGTATCCGTCATCAGATTGTGGCTAA
 ||| | |    | |   |||  |||   |  ||      |  |  || |   |     ||| | |  ||  |||    |  | |   || |||  |||||   || |  || ||||||||||||||||||||||| ||||| ||||| |||||||| ||  | || |||||||| || ||
-tgaatgtgacttctgtatattgttgtgctctttgtgaaattatgctttcccttgggtcgattctagtatgctattgactgaacattgtttcat--tttgt---agATATGAAAACACAGACATGGCTTTACACTACGGTGCAATGTTGAGGGAGTGCATAAGACACCAGATTGTTGCAAA

upper sequence: AT5G47540.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv10s0405g00020.t01 (Vitis vinifera), 3'ss of exon 3
gtgagtcttgtgtgttactatcattgaagttattagttggtagtttttccaaattaagagataccacattttatcatttttatagctttccatgttttgtgt---cagCTTCGAGAACACAGACATGGCTTTACACTATGGTGCTATGTTTAGGGAGTGTATCCGTCATCAGATTGTGGCTAA
 |  ||| | ||    |   |  || | | |  || |   |  | |||     ||     |||    | |     ||| || ||  | || |  | | || |    || |  || |||||||||||||||||||| |||||||| ||| | || ||||| || || ||||||| ||| || | 
ttaggtcgtatg-aaaatctttgttaaggcttcta-tcaatgctattt----gttggtgtatattctaatcgg--attcttctaattctcaaattctggtttatttagTTATGACAACACAGACATGGCTTTACATTATGGTGCAATGCTGAGAGAGTGCATACGCCATCAGACTGTTGCCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaattaagagataccacattttatcatttttatagctttccatgttttgtgtcagCTTCGAGAACACAGACATGGCTTTACACTATGGTGCTATGTTTAGGGAGTGTATCCGTCATCAGATTGTGGCTAA
                 attttatcatttttat  TA-rich tract