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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttcagatggtttaatcttgtttttattctgtttatggattgctatactatcttttcatatagacttgtctgatcttgtgttaacttgatgatggatgtagGAGATACTTCCTCCCACAGACTCTAGGCTCAGACCAGATCAACGGCATCTTGAGAATGGTGAATATGAGAAGGCGAACTTAGAGAAACAACGGTTAGAAA

Basic information

species Arabidopsis thaliana
transcript AT4G22540.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G22540.3 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: LOC_Os08g05870.1 (Oryza sativa), 3'ss of exon 7
gtatgttcagatggtttaatcttgt-ttttattctgtttatggattgctatactatcttttcatatagacttgtctgatcttgtgttaacttgatgatggatgtagGAGATACTTCCTCCCACAGACTCTAGGCTCAGACCAGATCAACGGCATCTTGAGAATGGTGAATATGAGAAGGCGAACTTAGAGAAACAACGGTTAGAAA
||||||       || || || ||  |  |   |    | || |||| | ||||   | |  | |   | |  ||  |  |||  || | ||| | |||     |||| | ||| ||||| || || ||  |||| || ||||| || |||||||| ||||| ||||||||||||||||| |||   ||||| |   |||| ||| 
gtatgt-------gtgtagtcatgaatactccacaagctttgaattgtt-tacttgatatcaagactcaatgatcctaa-ttgaattga-ttggtcatgttcaaagGACAAACTCCCTCCTACTGATTCACGGCTAAGGCCAGACCAGCGGCATCTAGAGAACGGTGAATATGAGAAGGCAAACGCGGAGAAGCTGAGGTTGGAAC

upper sequence: AT4G22540.3 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GRMZM2G061099_T01 (Zea mays), 3'ss of exon 8
gtatgttcagatggtttaatcttgtttttattctgtttatggattgctatactatcttttcatatagacttgtctgat-cttgtgttaacttgatgatggatgtagGAGATACTTCCTCCCACAGACTCTAGGCTCAGACCAGATCAACGGCATCTTGAGAATGGTGAATATGAGAAGGCGAACTTAGAGAAACAACGGTTAGAAA
    || || ||||    | | |   | ||| |  |     || | || |  || || || |  || |    |  ||  | | | |||   |  || |      ||||||  || || || || || || ||||| ||||||||||||||||| || |||||||| || || |||||||| ||    || ||||  ||  | || |
----gtacacatgg----aacatacatatatcccataatctgagttctgt--tagctcttaacctaaaaggctacgacacatcttttacgctcttgtta-----agGAGAAGCTGCCACCGACGGATTCAAGGCTGAGACCAGATCAACGGCACCTGGAGAATGGGGAGTACGAGAAGGCCAATGCTGAAAAACTGCGCCTCGAGA

upper sequence: AT4G22540.3 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA01G41940.1 (Glycine max), 3'ss of exon 8
----------gtatgttcag--atggtttaatcttgtttttattc--tgtttatggattgctatactatcttttcatatagacttgtctgatcttgtgttaacttgatgatggat-gtagGAGATACTTCCTCCCACAGACTCTAGGCTCAGACCAGATCAACGGCATCTTGAGAATGGTGAATATGAGAAGGCGAACTTAGAGAAACAACGGTTAGAAA
           | | ||     ||  ||| ||     ||  | |   | | ||||  | |   |   ||  ||   |||||  || |||||||  | ||  | ||||| | ||||   |||||| ||| || ||||| || || |||||||||||||||||||||||||| |||||||| ||||| |||||||| || || ||||||||| |||| ||||
gtatataatgatgtattagatcattatttgatacgcattccacttcttatatatgcgtcgtc-tctaattgttgtttatagctttttctgatcccgggt--atttgatcacggattaaagGAGAAACTCCCGCCCACGGATTCCAGGCTCAGACCAGATCAACGGCATCTAGAGAATGGGGAATACGAGAAGGCCAATTTGGAGAAACAAAGGTTGGAAA

upper sequence: AT4G22540.3 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA05G04340.2 (Glycine max), 3'ss of exon 9
--------gtatgttcag--atggtttaatcttgtttttattctgtttatggattgctatactatcttttcatatagacttgtctgatcttgtgttaacttgatgatggat-gtagGAGATACTTCCTCCCACAGACTCTAGGCTCAGACCAGATCAACGGCATCTTGAGAATGGTGAATATGAGAAGGCGAACTTAGAGAAACAACGGTTAGAAA
         | | || |   ||  ||  || |   |||| || | | |    ||   | |   ||  |||  ||||| ||| |||||||  | || || ||||| | ||||   ||||||  ||||| ||||| || || ||||| ||||||||||| |||||||| |||||||| ||||| |||||||| ||  | || |||||| |||| ||||
gtataatgatgtattaaatcattattcgatgtgcgttttcttttttcttcttatgcatctctaattctttgttatagccttttctgatcccgggt-aatttgatcacggattaaagGAGAAGCTTCCACCCACGGATTCCAGGCTGAGACCAGATCAGCGGCATCTAGAGAATGGGGAATACGAGAAGGCTAATATGGAAAAACAAAGGTTGGAAA

upper sequence: AT4G22540.3 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA11G03420.1 (Glycine max), 3'ss of exon 10
----------gtatgttcag--atggtttaatcttgttt-ttattctgtttatggattgctatactatcttttcatatagacttgtctgatcttgtgttaacttgatgatggat-gtagGAGATACTTCCTCCCACAGACTCTAGGCTCAGACCAGATCAACGGCATCTTGAGAATGGTGAATATGAGAAGGCGAACTTAGAGAAACAACGGTTAGAAA
           | | ||     ||  ||| ||  |     ||   ||  ||||  ||   | |   ||  ||   |||||  || |||||||  | ||  | ||||| | ||||   ||||||  || || ||||| || || ||||||||||||||||||||| |||| |||||||| |||                                     
gtatataatgatgtattagatcattatttgatagtacgcattccacttcttatatatgcgtctctaattgttgtttatagCTTTTTCTGATCCCGGGT--ATTTGATCACGGATTAAAGGAGAAGCTCCCGCCCACGGATTCCAGGCTCAGACCAGATCAACGGGATCTAGAGAATGGGGAA-------------------------------------

upper sequence: AT4G22540.3 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv02s0154g00250.t01 (Vitis vinifera), 3'ss of exon 7
---------gtatgttcagatggtttaatcttgtttttattctgtttatggat-tgc-tatactatcttttcatatagacttgtctgatcttgtgttaacttgatgatggatgtagGAGATACTTCCTCCCACAGACTCTAGGCTCAGACCAGATCAACGGCATCTTGAGAATGGTGAATATGAGAAGGCGAACTTAGAGAAACAACGGTTAGAAA
          | | || |     |||  |  |||   |||||  |||     | ||| |||   ||  | |  |||||   |||||||||  | ||  | ||||| | ||||  ||||||  || || ||||| || || || || |||||||||||||| ||||| |||||||| |||||||| ||||| ||   ||| |||| ||||||||| |
gtagagataatgtattgaatcaatttttttatgtgcatattcattttcctcttatgcatatctaattgtcttttatagctctgtctgatcccgggt--atttgatcacggattaagGAGAAGCTCCCACCCACGGATTCAAGACTTAGACCAGATCAACGACATCTAGAGAATGGAGAATATGAAAAGGCAAATGCAGAAAAACTACGGTTAGAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actatcttttcatatagacttgtctgatcttgtgttaacttgatgatggatgtagGAGATACTTCCTCCCACAGACTCTAGGCTCAGACCAGATCAACGGCATCTTGAGAATGGTGAATATGAGAAGGCGAACTTAGAGAAACAACGGTTAGAAA
      ttttcatata  TA-rich tract