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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagaattcattcttgtcatttgaagcatgaattgtagtcacaactcacacgtactaatttctgcaaccgtatatttatgaaatgttggacagGCTGTTCTCTTGTTCCAGAAAATAGAAGGTGTGGAAGTATGTCTATTTGGAATGTATGTTCAAGAATTTGGTGCTGAATGCTCTTTCCCGAACCAGCGTC

Basic information

species Zea mays
transcript GRMZM2G139977_T02
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G139977_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os02g04490.1 (Oryza sativa), 3'ss of exon 9
gtaagaattcattcttgtcatttgaagcatgaattgtagtcacaactcacacgtactaatttctgcaaccgtatatttatgaaatgttggacagGCTGTTCTCTTGTTCCAGAAAATAGAAGGTGTGGAAGTATGTCTATTTGGAATGTATGTTCAAGAATTTGGTGCTGAATGCTCTTTCCCGAACCAGCGTC
||||||| | | ||  ||  | |     | |||    | |||   |   ||   |  | |   || ||| || | ||||| ||||||| | |||||||| || ||||||||||||||||||||||| ||||| || |||||||||||||||||||||||||||||||| |||||||| | ||||||||||||||
gtaagaaattagtccagtattctttcaaaagaacaccaatcatttcaagcataaatca-tacgtgaaactgttt-tttatcaaatgtttggcagGCTGTCCTTTTGTTCCAGAAAATAGAAGGTGTAGAAGTGTGCCTATTTGGAATGTATGTTCAAGAATTTGGTGCAGAATGCTCCTACCCGAACCAGCGTC

upper sequence: GRMZM2G139977_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA08G24290.1 (Glycine max), 3'ss of exon 11
---gtaagaattcattcttgtcatttgaagcatgaattgtagtcacaactcacacgtactaatttctgcaaccgtatatttatgaaatgttggacagGCTGTTCTCTTGTTCCAGAAAATAGAAGGTGTGGAAGTATGTCTATTTGGAATGTATGTTCAAGAATTTGGTGCTGAATGCTCTTTCCCGAACCAGCGTC
    | ||||       || ||| |   | | | ||| | | |||  | |||    || || ||  |||  || ||  |||      | ||   ||||  ||| | ||||| || || ||||||||||||||||| || |||||||| ||||||||||||||||||||  |||||||    || || || ||||| |
gtgatgagaaagttgatttatcaatctgatcgt-aatcg-aatcattaatcatgaatattatttgatgc--ccttagctttc-----tatt--ccagGTAGTTTTGTTGTTTCAAAAGATAGAAGGTGTGGAAGTTTGCCTATTTGGCATGTATGTTCAAGAATTTGGATCTGAATGTCAATTTCCTAATCAGCGCC

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

upper sequence: GRMZM2G139977_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA07G00230.1 (Glycine max), 3'ss of exon 9
-----gtaagaattcattcttgtcatttgaagcatgaattgtagtcacaactcacacgtactaatttctgcaaccgtatatttatgaaatgttggacagGCTGTTCTCTTGTTCCAGAAAATAGAAGGTGTGGAAGTATGTCTATTTGGAATGTATGTTCAAGAATTTGGTGCTGAATGCTCTTTCCCGAACCAGCGTC
     |  | | || ||| |   |||  ||    || | |  | |||  | |||    ||||   ||      || ||  |||      | ||   ||||  ||| | ||||| || |  ||||||||||||||||| || |||||||| ||||||||||||||||||||  |||||||    || || || ||||| |
gtgatgggaaagttgattttatccatccgat---tgtaatcaaatcattaatcatgaatact---tttgattcccttagctttc-----tatt--ccagGTAGTTTTGTTGTTTCAAAGGATAGAAGGTGTGGAAGTTTGCCTATTTGGCATGTATGTTCAAGAATTTGGATCTGAATGTCAATTTCCTAATCAGCGCC

upper sequence: GRMZM2G139977_T02 (Zea mays), 3'ss of exon 2
lower sequence: AT1G16710.1 (Arabidopsis thaliana), 3'ss of exon 9
---------------gtaagaattcattcttgtcatttgaag----catgaattgtagtcacaactcacacgtactaatttctgcaaccgtatatttatgaaatgttggacagGCTGTTCTCTTGTTCCAGAAAATAGAAGGTGTGGAAGTATGTCTATTTGGAATGTATGTTCAAGAATTTGGTGCTGAATGCTCTTTCCCGAACCAGCGTC
               | |     ||||| |  |   || | |    |||  | | |  |||  | ||     |  || |     |   |||   |  |     | ||   ||||  |||||  |||||||||| ||||||||||| ||||||||  | ||||| |||||||| |||||||||||  | ||||| ||    || || || || |
gtaagaatgatcgacgcacaccatcattgtatttgcttcatgtccacatttaatattttcaggattcctctcttgtagtaatatcgttcgtgc-tccacattttatttatcagGTGGTTCTGCTGTTCCAGAAGATAGAAGGTGTAGAAGTATGCTTGTTTGGGATGTATGTCCAAGAATTTGGATCCGAATGTTCAAATCCCAATCAACGCC

upper sequence: GRMZM2G139977_T02 (Zea mays), 3'ss of exon 2
lower sequence: Vv09s0054g01780.t01 (Vitis vinifera), 3'ss of exon 8
gtaagaattcattcttgtcatttgaagcatgaattgtagtcacaactcacacgtactaatttctgcaaccgtatatttatgaaatgttggacagGCTGTTCTCTTGTTCCAGAAAATAGAAGGTGTGGAAGTATGTCTATTTGGAATGTATGTTCAAGAATTTGGTGCTGAATGCTCTTTCCCGAACCAGCGTC
    | || ||   |    |||      |||  || |  | | |  | |||   ||| |  |    ||| | | |||       |  |   ||||   || | ||||| ||||| || ||||| || ||||||||  ||||||| ||||||||||||||||||||  | |||||    ||||| || || ||||
----gtatgcaggatgtatattaagttgatgttttttcat-atagttgacaaagacttaaattatgaactgaagattgtctttttcgtttccagGTAATTTTGTTGTTTCAGAAGATTGAAGGAGTAGAAGTATGCTTATTTGGGATGTATGTTCAAGAATTTGGATCAGAATGTCTATTCCCAAATCAACGTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcacaactcacacgtactaatttctgcaaccgtatatttatgaaatgttggacagGCTGTTCTCTTGTTCCAGAAAATAGAAGGTGTGGAAGTATGTCTATTTGGAATGTATGTTCAAGAATTTGGTGCTGAATGCTCTTTCCCGAACCAGCGTC
              tactaat  putative branch site (score: 1)
                                tatatttatgaaatgt  TA-rich tract