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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcgtatcatttcttgcatcaaacattgaagttaagacttcggtttggattgatacatcggtttttaacttttttcaatcttggctattagCTGGTGTTGCAAGTGGAGCAACCAGAGCAGCTCTAACACAGCACTTTGCTCTTCAAGACAATGCAGCGGATATATCTGCTAAG

Basic information

species Arabidopsis thaliana
transcript AT1G13770.2
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G13770.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os03g11500.1 (Oryza sativa), 3'ss of exon 8
gtgcgtatcatttcttgcatcaaa--cattgaagttaagacttcggtttggattgatacatcggtttttaacttttttcaatcttggctattagCTGGTGTTGCAAGTGGAGCAACCAGAGCAGCTCTAACACAGCACTTTGCTCTTCAAGACAATGCAGCGGATATATCTGCTAAG
||  |     || | || || ||   |||     || | | ||   |||  | || |   ||| |   ||| || ||| | | |  |    ||||||||||||| ||||||||||| ||||||||  |||| ||||| ||||| |||    | |||||||| ||||||||||| |||
gtaagcggatttacatg-atgaatttcataaccttttaaattttcttttaaaatgtttgttcgttaactaa-ttatttgactatctgta--tagCTGGTGTTGCTAGTGGAGCAACTAGAGCAGCGTTAACCCAGCATTTTGCACTTGCCAATAATGCAGCTGATATATCTGCAAAG

upper sequence: AT1G13770.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM5G846548_T01 (Zea mays), 3'ss of exon 8
gtgcgtatcatttcttgcatcaaacatt-gaagttaagacttcggtttggattgatacatcggtttttaacttttttcaatcttggctattagCTGGTGTTGCAAGTGGAGCAACCAGAGCAGCTCTAACACAGCACTTTGCTCTTCAAGACAATGCAGCGGATATATCTGCTAAG
    |||   |||      | | |  |  ||| | | |     |   |   |      || ||    ||| || ||    |  |   |  ||||||||||||| ||||||||||| |||||||| ||||| ||||| ||||| |||  | | |||||||| ||||| ||||| |||
----gtaagtttttgaattttagaagtcagaactcatgttgatgaacttcctgaggttattgggggctaatttattgt--ttctatgttctagCTGGTGTTGCTAGTGGAGCAACTAGAGCAGCACTAACGCAGCATTTTGCACTTGCAAATAATGCAGCTGATATTTCTGCAAAG

upper sequence: AT1G13770.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA02G13010.1 (Glycine max), 3'ss of exon 4
gtgcgtatcatttcttgcatcaaacattgaagttaagacttcggtt-tggattgatacatcggtttttaacttttttcaatc-----ttggctat----tagCTGGTGTTGCAAGTGGAGCAACCAGAGCAGCTCTAACACAGCACTTTGCTCTTCAAGACAATGCAGCGGATATATCTGCTAAG
        ||||| ||   | | |  |     || | | ||   || || | | ||   |   | ||||  |||| || |||      ||  |||    |||||||||||||||||||||| || ||||||||| | || ||||| ||||||||||| || ||||| || ||||||||||| |||
--ttaaggcattttttttcttatatttcctgattgatagtttatttgtgtactaatttttttttgtttatattttctctatcaaaatatgattatgaactagCTGGTGTTGCAAGTGGAGCCACTAGAGCAGCTTTGACTCAGCATTTTGCTCTTCAGGATAATGCTGCAGATATATCTGCAAAG

upper sequence: AT1G13770.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA01G07190.2 (Glycine max), 3'ss of exon 8
gtgcgtatcatttcttgcatcaaacattgaagttaagacttcggtt-tggattgataca---tcggtttttaacttttttcaatcttggctat----tagCTGGTGTTGCAAGTGGAGCAACCAGAGCAGCTCTAACACAGCACTTTGCTCTTCAAGACAATGCAGCGGATATATCTGCTAAG
 |    |   ||| ||   |   |  |     || | | ||   || || | ||||      ||  |||||  || | |  ||   ||  |||    ||||||||||||||||||| || || ||||||||| | || ||||| ||||||||||| || ||||| || ||||||||||| |||
attaagacttttttttttcttttatttcctgattgatattttatttgtgtactgattttttttccttttttctctctatcaaaatatgattatgaactagCTGGTGTTGCAAGTGGTGCCACTAGAGCAGCTTTGACTCAGCATTTTGCTCTTCAGGATAATGCTGCAGATATATCTGCAAAG

upper sequence: AT1G13770.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv01s0011g00500.t01 (Vitis vinifera), 3'ss of exon 8
----gtgcgtatcatttcttgcatcaaacattgaagttaagacttcggtttggattgatacatcggtttttaact----tttttcaatcttggctattagCTGGTGTTGCAAGTGGAGCAACCAGAGCAGCTCTAACACAGCACTTTGCTCTTCAAGACAATGCAGCGGATATATCTGCTAAG
    ||  ||   |||      |       |  |    || | | |   |||  ||||||  ||   |   || |    |||| || ||||    ||||||||||||||||||||||||||| ||||| ||  | ||||| || |||||||||||| | ||||| || ||||||||||| |||
tattgtcagtggaattgaaaatacttctgctgaataagaataatgcacattgtgttgatatttctcatcaaaaatctaattttacactcttcaaaattagCTGGTGTTGCAAGTGGAGCAACTAGAGCTGCATTGACACAACATTTTGCTCTTCAAAATAATGCTGCAGATATATCTGCCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acttcggtttggattgatacatcggtttttaacttttttcaatcttggctattagCTGGTGTTGCAAGTGGAGCAACCAGAGCAGCTCTAACACAGCACTTTGCTCTTCAAGACAATGCAGCGGATATATCTGCTAAG
                          ttttaac  putative branch site (score: 2)
                                cttttttcaatctt  CT-rich tract
                         tttttaacttttttca  TA-rich tract