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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggcatttattgtaattttctggtaaccacattaatttaagaattttttggtttactcacaatgtgttttcttccgttgcagGTTTTTACCACAGCGGCATATGACGACCACAAAAATATTGTGTTTTTGTCCTTTGAAATTATCGAGAAGATTATTCGAGAATATTTCCCATACATCACTG

Basic information

species Arabidopsis thaliana
transcript AT3G60860.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G60860.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GRMZM2G058870_T01 (Zea mays), 3'ss of exon 8
-----------gtaggcatttattgtaattt---tctggtaaccacattaatttaagaattttttggtttactcacaatgtgttttcttccgt--tgcagGTTTTTACCACAGCGGCATATGACGACCACAAAAATATTGTGTTTTTGTCCTTTGAAATTATCGAGAAGATTATTCGAGAATATTTCCCATACATCACTG
             |  ||| ||   ||| |    |||    ||| |   ||  |     ||||  |   |   ||     ||     || | |  | ||||| ||| | |||||| ||||||| || ||||||||||||||  | ||| ||||||||||||| || |||||| | || ||||| || |||||||| ||||
gtatgacaccttcactcatgtaccataactcttatctaaagacctctgcaacattcttgttttcagtcctgaacatggattgccggtttacatctttcagGTCTTTGCGACAGCGTCATATGATGATCACAAAAATATTGTACTATTGGCCTTTGAAATTATAGAAAAGATTTTGCGGGAATACTTTCCATACATTACTG

upper sequence: AT3G60860.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA09G40480.1 (Glycine max), 3'ss of exon 8
-----------------------gtaggcatttatt-----gtaattttctggtaaccacattaatttaagaattttttggtttactcacaatgtgttttcttccgttgcagGTTTTTACCACAGCGGCATATGACGACCACAAAAATATTGTGTTTTTGTCCTTTGAAATTATCGAGAAGATTATTCGAGAATATTTCCCATACATCACTG
                       |  ||| |  |||     | ||  |  |  |  |  |   | |||     |  ||   | ||||||     |||   |||   || ||||| || || |||||||||||||| ||||||||||| |||||  |  || | ||||||||||| ||||||||||||||||| || || |||| ||||||||
gtagggctaatttctgttccgtagagggcttcaatttgcatggaaaatgtttttgtctgctgaagtttttctttcattatttctactcattgcttgtggactta-attccagGTATTCACAACAGCGGCATATGATGACCACAAAAACATTGTACTCCTGGCTTTTGAAATTATGGAGAAGATTATTCGAGATTACTTTCCATGCATCACTG

upper sequence: AT3G60860.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA01G34560.1 (Glycine max), 3'ss of exon 9
---------gtaggcatttattgt------aattttctggtaaccacattaatttaagaattttttggtttactcacaatgtgttttc---ttccgttgcagGTTTTTACCACAGCGGCATATGACGACCACAAAAATATTGTGTTTTTGTCCTTTGAAATTATCGAGAAGATTATTCGAGAATATTTCCCATACATCACTG
          ||  |   ||||||      |    |    | |   |||   |||    |||||||   |     ||    || |      |    || ||||| || || ||||| || ||||| ||||||||||| |||||  | || || ||||||||||| ||||||||||||||||| || || |||||||||||||
gtagagctgataaactcctattgtctatagagagcttcaattaatgcatatgtttgttcattttttctctcctctacttactgctcatagatctgatttcagGTATTCACAACAGCAGCTTATGATGACCACAAAAACATTGTACTCTTATCTTTTGAAATTATGGAGAAGATTATTCGAGATTACTTTCCATACATCACTG

upper sequence: AT3G60860.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA03G02610.1 (Glycine max), 3'ss of exon 8
----------------gtaggcatttattgtaattttctggtaaccacattaatttaagaattttttggtttactcacaatgtgttttct----tccgttgcagGTTTTTACCACAGCGGCATATGACGACCACAAAAATATTGTGTTTTTGTCCTTTGAAATTATCGAGAAGATTATTCGAGAATATTTCCCATACATCACTG
                       | ||| |  |  |||   |||    | |  ||   || ||||||    | |||    | |   |  |        || ||||| || ||  |||| || ||||| ||||||||||| |||||  | ||| | ||||||||||| ||||||||||||||||| || || |||||||||||||
gtagagctgataaactcctattgtctatagagagcttcaattaatgctaatgtttgtggatttttttctcctcctctacttattgctcatagacctgatttcagGTATTCACAGCAGCAGCTTATGATGACCACAAAAACATTGTACTCTTGGCTTTTGAAATTATGGAGAAGATTATTCGAGATTACTTTCCATACATCACTG

upper sequence: AT3G60860.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA18G45340.1 (Glycine max), 3'ss of exon 8
---------gtaggcatttattgtaattttctggtaaccacattaatttaagaattttttggtttactcacaa-tgtgttttcttcc----------gttgcagGTTTTTACCACAGCGGCATATGACGACCACAAAAATATTGTGTTTTTGTCCTTTGAAATTATCGAGAAGATTATTCGAGAATATTTCCCATACATCACTG
          ||  |   ||||||   | |   |  |    ||||||  ||   ||| ||  |||  || |   | |  || || |            || ||||| || || ||||| || ||||| ||||||||||| |||||  | ||  | ||||||||||| ||||||||||||||||| || || |||||||||||||
gtaaagctgataaactcctattgt--ctatagagagattcaattaatgcaaatgtttgttcattttttctctcctctacttactgctcatagacctgatttcagGTATTCACAACAGCAGCTTATGATGACCACAAAAACATTGTACTCTTAGCTTTTGAAATTATGGAGAAGATTATTCGAGATTACTTTCCATACATCACTG

upper sequence: AT3G60860.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA18G45360.1 (Glycine max), 3'ss of exon 10
-----------------------gtaggcatttatt-----gtaattttctggtaaccacattaatttaagaattttttggtttactcacaatgtgttttcttccgttgcagGTTTTTACCACAGCGGCATATGACGACCACAAAAATATTGTGTTTTTGTCCTTTGAAATTATCGAGAAGATTATTCGAGAATATTTCCCATACATCACTG
                       |  ||| |  |||     | ||  |  |  |  |  |   | |||     |  ||   | ||||||     |||   | |   || ||||  || || ||||| |||||||| ||||||||||| |||||  | ||| | ||||||||||| ||||||||||||||||| || || ||  |||||||||
gtagggctaatttatgttccatagagggcttcaatttgcatggaaaatgtttttgtctgccgaagtttttctttcattatttctactcattgcttgtggacata-attccagGCATTCACAACAGCAGCATATGATGACCACAAAAACATTGTACTCTTGGCTTTTGAAATTATGGAGAAGATTATTCGAGATTACTTTCCTCACATCACTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cacattaatttaagaattttttggtttactcacaatgtgttttcttccgttgcagGTTTTTACCACAGCGGCATATGACGACCACAAAAATATTGTGTTTTTGTCCTTTGAAATTATCGAGAAGATTATTCGAGAATATTTCCCATACATCACTG
                          tactcac  putative branch site (score: 1)
                                     tgttttcttccgtt  putative PPT
     taatttaagaattttt  TA-rich tract