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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaagggaaggttgctttagagctagtcatgttggtaatcaagtcgttattatttattctggattttgatgacttttggtttccatttcagGTAATCTTGTTGTTTCAGAAGATTGAAGGTGTGGAAGTATGCCTCTTTGGCATGTATGTTCAAGAGTTTGGATCTGAATGTCAATTTCCGAATCAACGGC

Basic information

species Glycine max
transcript GLYMA15G00250.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G00250.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os06g49130.2 (Oryza sativa), 3'ss of exon 8
--------------------------------------------------gtaaagggaagg--ttgctttagagctagtcatgttggtaatcaagtcgttattatttattctggattttgatgac--ttttggtttccatttcagGTAATCTTGTTGTTTCAGAAGATTGAAGGTGTGGAAGTATGCCTCTTTGGCATGTATGTTCAAGAGTTTGGATCTGAATGTCAATTTCCGAATCAACGGC
                                                  |||     |||   ||  ||  |   |     | ||  |||  || ||   |  ||  | ||   ||| |  | |   |||     |   || ||||  ||  | || |||||||| || |||||||||||||||||| | |||||||||||||| ||||| | |||  | |||||  |||| || || ||||| |
gtgagaaagtggtctgatcatttgaaatatgtgatcgcctcttgatgttagtagttctaagaaattctttccgtaatgaaagttttattaaataaatcaagaaaataaaatcctaattctctttaacatttccaaatattttgcagGCTATTCTTTTATTTCAGAAAATAGAAGGTGTGGAAGTATGCTTATTTGGCATGTATGTCCAAGAATATGGTGCAGAATGCAAATTCCCAAACCAACGTC

upper sequence: GLYMA15G00250.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os02g04490.1 (Oryza sativa), 3'ss of exon 9
gtaaagggaaggttgctttagagctagtcatgttggtaatcaa--gtcgttattatttattctggattttgatgacttttggtttccattt--cagGTAATCTTGTTGTTTCAGAAGATTGAAGGTGTGGAAGTATGCCTCTTTGGCATGTATGTTCAAGAGTTTGGATCTGAATGTCAATTTCCGAATCAACGGC
         |  ||  |  ||   |  |      |   | |||   |    |  ||  ||  |   |     ||  ||||        |||  ||||   || | ||||| ||||| || |||||||| ||||| ||||| ||||| |||||||||||||| |||||  | |||||    |  ||||| || || |
----gtaagaaattagtccagtattctttcaaaagaacaccaatcatttcaagcataaatcatacgtgaaactgttttttatcaaatgtttggcagGCTGTCCTTTTGTTCCAGAAAATAGAAGGTGTAGAAGTGTGCCTATTTGGAATGTATGTTCAAGAATTTGGTGCAGAATGCTCCTACCCGAACCAGCGTC

upper sequence: GLYMA15G00250.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G139977_T02 (Zea mays), 3'ss of exon 2
gtaaagg--gaaggttg-ctttagagctagtcatgttggtaatcaagtcgttattatttattctggattttgatgacttttggtttccatttcagGTAATCTTGTTGTTTCAGAAGATTGAAGGTGTGGAAGTATGCCTCTTTGGCATGTATGTTCAAGAGTTTGGATCTGAATGTCAATTTCCGAATCAACGGC
||||      |   ||| | || ||   |   ||  | || | ||| ||     || | |||   |     |   | || ||   |      ||||   |  | ||||| ||||| || ||||||||||||||||| || ||||| |||||||||||||| |||||  |||||||    || ||||| || || |
gtaagaattcattcttgtcatttgaagcatgaattgtagtca-caactcacacgtactaatttctgcaaccgtatatttatgaaatgttggacagGCTGTTCTCTTGTTCCAGAAAATAGAAGGTGTGGAAGTATGTCTATTTGGAATGTATGTTCAAGAATTTGGTGCTGAATGCTCTTTCCCGAACCAGCGTC

upper sequence: GLYMA15G00250.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G470556_T01 (Zea mays), 3'ss of exon 8
gtaaagggaaggttgctttagagctagtcatgttggtaatca-agtcgttattatttatt-ctggattttgatgacttttggtttccatttcagGTAATCTTGTTGTTTCAGAAGATTGAAGGTGTGGAAGTATGCCTCTTTGGCATGTATGTTCAAGAGTTTGGATCTGAATGTCAATTTCCGAATCAACGGC
      | |||  | | ||   |  | |         ||||  |||     | | | ||| ||| |     ||   || ||   |      ||||   |  | ||||| ||||  || ||||||||||||||||| || |||||||||||||||||||| |||||  | |||||    |  ||||| || || |
------gtaagaattcattcttgtcatttgaagcatgaatcgtagttacactcactaatttctgcaacactattttttatgaaatgttggacagGCTGTTCTCTTGTTCCAGAGAATAGAAGGTGTGGAAGTATGTCTATTTGGCATGTATGTTCAAGAATTTGGTGCAGAATGCTCTTCCCCGAACCAGCGCC

upper sequence: GLYMA15G00250.1 (Glycine max), 3'ss of exon 9
lower sequence: AT3G12980.1 (Arabidopsis thaliana), 3'ss of exon 9
---------gtaaagggaaggttgct-ttagagctagtcatgttggtaatcaagtcgttattatttattc--tggattttgatgacttttggtttccat-----------ttcagGTAATCTTGTTGTTTCAGAAGATTGAAGGTGTGGAAGTATGCCTCTTTGGCATGTATGTTCAAGAGTTTGGATCTGAATGTCAATTTCCGAATCAACGGC
         ||  | |   ||||  | ||     |  |  | || ||  || | |  | |   | |  |   ||     || ||||| |    ||||||           ||||||  ||  ||||||||||||||||||||||||| ||||||||| | |||||||||||||| || || |||||| | || | |   | ||| ||||| || |
gtacagattgtgtatgcttggttcttatttcttttccttctttttgttttctaattatgaccttctgctacatgatgcctgttgactatcaacttccatactcattttttttcagGCCATTCTGTTGTTTCAGAAGATTGAAGGTGTTGAAGTATGCTTATTTGGCATGTATGTCCAGGAATTTGGAACAGATTCTGCGTCTCCCAATCAGCGCC

upper sequence: GLYMA15G00250.1 (Glycine max), 3'ss of exon 9
lower sequence: AT1G79000.1 (Arabidopsis thaliana), 3'ss of exon 10
-----------------gtaaagggaaggttgc-tttagagc-tagtcatgttggtaatc--aagtcgttattat----ttattctgg--attttgatgacttttggtttccatttcagGTAATCTTGTTGTTTCAGAAGATTGAAGGTGTGGAAGTATGCCTCTTTGGCATGTATGTTCAAGAGTTTGGATCTGAATGTCAATTTCCGAATCAACGGC
                 |||  |       ||  ||||  || ||     |||  |  ||   |||   | |  |    |||| ||    | |   ||| | |||  |||   || |||||| |  |||||||||| ||||||||||| || ||||||||| | ||||| ||||| || ||||| || || ||||||||   |||||| |||||||| |
gtaagaatgatcaaggcgtattgttgttactgtatttactgcatatatgcgttatttttctggagttcctctcgtacaattatccttctcactcccatgccattttattt---ttccagGTAGTTCTGTTGTTTCAAAAGATTGAAGGCGTAGAAGTATGCTTATTTGGGATGTACGTCCAAGAATTCGGTTCTGAATGCGCATTTCCCAATCAACGCC

upper sequence: GLYMA15G00250.1 (Glycine max), 3'ss of exon 9
lower sequence: AT1G55970.1 (Arabidopsis thaliana), 3'ss of exon 7
gtaaagggaaggttgctttagagctagtcatgttggtaatcaagtcgttattatttattctggattttgatgacttttggtttccatttcagGTAATCTTGTTGTTTCAGAAGATTGAAGGTGTGGAAGTATGCCTCTTTGGCATGTATGTTCAAGAGTTTGGATCTGAATGTCAATTTCCGAATCAACGGC
    ||  | |||| | |   |  |  || | ||  |  ||| |  | |  | ||| |     |        | |||   | |  ||||||||  || ||  |||||||||||||||||  ||||||||||||| | ||||| ||||  ||||| || |||||  | || | |  |  ||| ||| | ||||
--gtagcaatggtt-catggtatttgttcttattcattttcatgatgct--tgtttgtcacttacaagatgtattttctttatatatttcagGCCATTTTTCTGTTTCAGAAGATTGAAAATGTGGAAGTATGCTTGTTTGGTATGTTCGTTCAGGAATTTGGGACAGACTCTGGACCTCCCAATGAGCGGC

upper sequence: GLYMA15G00250.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv09s0054g01780.t01 (Vitis vinifera), 3'ss of exon 8
gtaaagggaaggttgctttagagctagtcatgttggtaatcaagtcgttattatttattctggattttgatgacttttggtttccatttcagGTAATCTTGTTGTTTCAGAAGATTGAAGGTGTGGAAGTATGCCTCTTTGGCATGTATGTTCAAGAGTTTGGATCTGAATGTCAATTTCCGAATCAACGGC
    | | | | |   | |  || |  |  | ||   |   |  |    |  | |||   |      ||| || | |   ||||  || |||||||| ||||||||||||||||||||||| || ||||||||| | ||||| |||||||||||||| |||||||| ||||||| ||| || |||||||| |
--gtatgcaggatgtatattaagttgat-gttttttcatatagttgacaaagacttaaattatgaactgaagattgtctttttcgtttccagGTAATTTTGTTGTTTCAGAAGATTGAAGGAGTAGAAGTATGCTTATTTGGGATGTATGTTCAAGAATTTGGATCAGAATGTCTATTCCCAAATCAACGTC

upper sequence: GLYMA15G00250.1 (Glycine max), 3'ss of exon 9
lower sequence: PP1S193_70V6.1 (Physcomitrella patens), 3'ss of exon 10
-----------------------------------------------gtaaagggaaggttgctttagagctagtcatg-ttggtaatcaagtcgttattatt----tattct--ggattttgatgacttttggtttccatttcagGTAATCTTGTTGTTTCAGAAGATTGAAGGTGTGGAAGTATGCCTCTTTGGCATGTATGTTCAAGAGTTTGGATCTGAATGTCAATTTCCGAATCAACGGC
                                               ||      ||  |    ||   | |  |  || || ||  |      |||| |||     ||||    ||   ||| |  || ||  |||    |||||||  | ||| ||||||| ||||| |||||||| ||||| || ||||| ||||||||||| |||||||||||    |||||     |||| ||||| ||  
gtatattttgcttgtggtttagtgtggccaacaaagtttccaagcttgtctttcaaaactcatgttcacgatgtttttgctttgtggtttcaatgttaatataagcgtatttatagggacttgtttgctatt--tttgttattcagGTGGTATTGCTGTTTCAAAAGATCGAAGGTGTAGAAGTTTGTCTCTTCGGCATGTATGTCCAAGAGTTTGGGATGGAATGCTCTCTTCCAAATCAGCGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatcaagtcgttattatttattctggattttgatgacttttggtttccatttcagGTAATCTTGTTGTTTCAGAAGATTGAAGGTGTGGAAGTATGCCTCTTTGGCATGTATGTTCAAGAGTTTGGATCTGAATGTCAATTTCCGAATCAACGGC
                           ttttgat  putative branch site (score: 4)
                                           tttccatttc  putative PPT
          ttattatttattctgg  TA-rich tract