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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaagtagtgtgattctcttgaaacgatagatatgaagtttggttgctcttttatatatgtatattggttgctctgatgttttttcatttgtgataaccagGTCCAGTTGAACTTGGAGCTGTAGGTGTATCAATTGCCGTGTTTAATCAGGTCTCAAGAATTGCAGTGTTCCCACTTGTTAGCGTCACAACATCATTTGT

Basic information

species Zea mays
transcript GRMZM5G870170_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G870170_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os10g13940.1 (Oryza sativa), 3'ss of exon 2
aaagtagtgtgattctcttgaaacgatagatatgaagtttggttgctcttttatatatgtatattggtt-gctctgatgttttttcatttgtgataaccagGTCCAGTTGAACTTGGAGCTGTAGGTGTATCAATTGCCGTGTTTAATCAGGTCTCAAGAATTGCAGTGTTCCCACTTGTTAGCGTCACAACATCATTTGT
    || ||| ||| |  |  ||  | ||  |   | | || ||      |  |  |  ||| |||  |     | || |  || | |||||   || |||| ||||||||||||| |||||| |||||||| ||||||||||||||||| || ||||| |||||| | || || ||||| || ||||| |||||||||||
ttcttactgt-attgtaatagaaaaaaagggacacattctgattttcaagtctttgacttattttgtctcaagttaatttgattccttttgttcaaaacagGCCCAGTTGAACTTGCAGCTGTTGGTGTATCTATTGCCGTGTTTAATCAAGTATCAAGGATTGCAATATTTCCCCTTGTCAGTGTCACGACATCATTTGT

upper sequence: GRMZM5G870170_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv06s0004g02140.t01 (Vitis vinifera), 3'ss of exon 2
aaagtagtgtgattctcttgaaacgatagatatgaagtttggttgctctttta--tatatgtatattggttgc-tctgatgttttttcatttgtgataaccagGTCCAGTTGAACTTGGAGCTGTAGGTGTATCAATTGCCGTGTTTAATCAGGTCTCAAGAATTGCAGTGTTCCCACTTGTTAGCGTCACAACATCATTTGT
 |  |  | ||||    ||   | ||   |      |||  |||  | |  ||  |  | | |      | |  |  ||| || ||||||     |||   ||||||||| |||||||  |||||||| || || ||||| ||||| ||||| || ||||| || ||| | ||||||||||| || |||||||| || || ||
gatattctctgatgggttttgga-gactaactcattgttgtgttcttttgataattgaaaggactcacatggtattcgattttgtttcataatccata--tagGTCCAGTGGAACTTGCTGCTGTAGGAGTTTCTATTGCTGTGTTCAATCAAGTATCAAGGATCGCAATATTCCCACTTGTCAGTGTCACAACCTCTTTCGT


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcttttatatatgtatattggttgctctgatgttttttcatttgtgataaccagGTCCAGTTGAACTTGGAGCTGTAGGTGTATCAATTGCCGTGTTTAATCAGGTCTCAAGAATTGCAGTGTTCCCACTTGTTAGCGTCACAACATCATTTGT
                         ctctgat  putative branch site (score: 4)
     ttatatatgtatatt  TA-rich tract