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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcattccaacttcctaacctttaatttttccctttttgatatttttttagttaataatgatatatggttgtggatttcagCTCAAAGGATGTGTTGATGCATGTTGTGGCCCAAAATATTTCTCCTGAGTTAACTCTATTAGAAAAG

Basic information

species Zea mays
transcript GRMZM2G177485_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G177485_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os11g06930.1 (Oryza sativa), 3'ss of exon 6
gtaagcattccaac---------------ttcctaacctttaatttttccctttttgatatttttttagttaataatga-tatatggttgtggatttcagCTCAAAGGATGTGTTGATGCATGTTGTGGCCCAAAATATTTCTCCTGAGTTAACTCTATTAGAAAAG
||||||||| |||                ||| | |   |  | |||    | ||| |||||| || ||  | |||||  ||| |  ||||| | |||||||||||||||||| | ||||  |||||| | |||||| | ||||||||||||||||   ||||||||
gtaagcatttcaatacttttatggaataattctttattctagagtttatattattttatatttcttaaggcactaatggctatgtcattgtgaaattcagCTCAAAGGATGTGCTTATGCGCGTTGTGACACAAAATCTCTCTCCTGAGTTAACTCATGTAGAAAAG

upper sequence: GRMZM2G177485_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA05G32930.1 (Glycine max), 3'ss of exon 6
--------gtaagcattccaacttcctaaccttta----atttttccctttttgatatttttttagttaataatgatatatggttg-tggattt---cagCTCAAAGGATGTGTTGATGCATGTTGTGGCCCAAAATATTTCTCCTGAGTTAACTCTATTAGAAAAG
          |  |   ||||    ||     | |    ||  ||||   ||||    ||  | | |  |  ||| |  ||| ||  |  | |    ||| ||||||||  |  | |||| ||||||||| |||||| ||||||||||||| |||||  | ||||||
tgattttcccatccgccccaatcctctgttactcatcccatccttcctaatttgcaccttaatcattgtaagatgcttaatgttttctatactcatgcagTTCAAAGGACATACTAATGCGTGTTGTGGCTCAAAATCTTTCTCCTGAGTTGACTCTCGTGGAAAAG

upper sequence: GRMZM2G177485_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA08G00560.2 (Glycine max), 3'ss of exon 6
----------------------------------------------------------------------------------gt-aagcattccaacttcctaacctttaatttttccctttttgatatttttttagttaataatgatat-atggttgtggatttc-----------agCTCAAAGGATGTGTTGATGCATGTTGTGGCCCAAAATATTTCTCCTGAGTTAACTCTATTAGAAAAG
                                                                                  || ||| | ||  |     |    | |||  | |   | | || ||        |||||| ||  ||  ||| ||   | ||||           || ||||||||  |  | |||| ||||||||| |||||| ||||||||||||| |||||  | ||||||
gtaagatctttttcagaggctttaatctcttcttttggaagttgagggtgtggaataatatacaaaattgcatgttttcgtagtgaagaactctcaaggtttggggtataaaatattattctctggtaggagccaggttaatcattgtaagatgcttaatgctttctatgctcatgcagTTCAAAGGACATACTAATGCGTGTTGTGGCTCAAAATCTTTCTCCTGAGTTGACTCTCGTGGAAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttccctttttgatatttttttagttaataatgatatatggttgtggatttcagCTCAAAGGATGTGTTGATGCATGTTGTGGCCCAAAATATTTCTCCTGAGTTAACTCTATTAGAAAAG
                       agttaat  putative branch site (score: 4)
       tttttgatattttttt  TA-rich tract