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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtaagctacatctgttgatagatctgcacttcaatatatgttgcactcagtgcattttccttgaggtatgttcatagatcttaattctcttcttttcagATCCTTTTTCTATGGCACCTCCTAAAGCCCTTGAGAGTATTGGAAAAACGTTGCATTCACAGTATGAGCGCTGGCAACCTAAG

Basic information

species Zea mays
transcript GRMZM2G048067_T02
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G048067_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os11g01872.1 (Oryza sativa), 3'ss of exon 1
-------tgtaagctacatctgttgatagatctgcacttcaatatatgttgcactcagtgcattttccttgaggtatgttcatagatcttaattctcttcttttcagATCCTTTTTCTATGGCACCTCCTAAAGCCCTTGAGAGTATTGGAAAAACGTTGCATTCACAGTATGAGCGCTGGCAACCTAAG
       | |||  || |  || ||||  ||||    ||  |    |  |||  |  || || || | ||||| | |  |||||| ||||  |  | |  ||||||||||| ||||||||||||||||| ||||||||||| | |||||| ||||| || || ||||| |||||||||||||| || |||
aagcttatctaaaataaacatggtgattcatct----ttgtactcctaatgcgttt-gtacagttgctttgagtttttctcatagctctt--tcatttatttttcagATCCATTTTCTATGGCACCTCCAAAAGCCCTTGAAACTATTGGGAAAACATTACACTCACAATATGAGCGCTGGCAGCCAAAG

upper sequence: GRMZM2G048067_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os12g01922.1 (Oryza sativa), 3'ss of exon 2
----tgtaagctacatctgttgatagatctgcacttcaatatatgttgcactcagtgcattttccttgaggtatgttcatagatctta-attctcttcttttcagATCCTTTTTCTATGGCACCTCCTAAAGCCCTTGAGAGTATTGGAAAAACGTTGCATTCACAGTATGAGCGCTGGCAACCTAAG
    | |||  || |  || ||||  ||||    ||  |    |  |||  |  || || || | ||||| | |  |||||| ||||  |||   || | ||||||||| ||||||||||||||||| ||||||||||| | |||||| ||||| || || ||||| |||||||||||||| || |||
cttatctaaaataaacatggtgattcatct----ttgtactcctaatgcgttt-gtacagttgctttgagtttttctcatagctctttcatttatttatcttcagATCCATTTTCTATGGCACCTCCAAAAGCCCTTGAAACTATTGGGAAAACATTACACTCACAATATGAGCGCTGGCAGCCAAAG

upper sequence: GRMZM2G048067_T02 (Zea mays), 3'ss of exon 2
lower sequence: AT3G08850.1 (Arabidopsis thaliana), 3'ss of exon 2
--tgtaagctacatctgtt-gatagatctgcacttcaatatatgttgcactcagtgcattttccttgaggtatgttca--tagatcttaattctcttcttttc-------agATCCTTTTTCTATGGCACCTCCTAAAGCCCTTGAGAGTATTGGAAAAACGTTGCATTCACAGTATGAGCGCTGGCAACCTAAG
  || ||  |    ||  |  ||     | ||||    | | |  ||   | |   | ||||  |   |  |   |||  |  ||||  ||| | ||  ||||       |||||| |||||||||||||| |||||||| || ||||  ||||||||||  |||    | ||||||||| | |||||||| | |
gttgaaactttggcctactcaatcctattacactctt-tcttttctgtgtttatcccttttttttgtcgccacagtcaattttatctctattttttttctttctgatggcagATCCATTTTCTATGGCACCGCCTAAAGCTCTCGAGACAATTGGAAAAAATTTGAGCACTCAGTATGAGAGATGGCAACCCAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actcagtgcattttccttgaggtatgttcatagatcttaattctcttcttttcagATCCTTTTTCTATGGCACCTCCTAAAGCCCTTGAGAGTATTGGAAAAACGTTGCATTCACAGTATGAGCGCTGGCAACCTAAG
                                  tcttaat  putative branch site (score: 3)
                                  tcttaattctcttctt  CT-rich tract
                                 atcttaatt  TA-rich tract