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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcattctatgttagtaaaacagtattgtccatgatccctttctaactgttggtgttgtataattatgttctgcagCTCAAAAGATATACTTATGCGTGTTGTGTCACAAAATATTTCCCCTGAGTTGACTCTAGTAGAAAAG

Basic information

species Zea mays
transcript GRMZM2G126656_T02
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G126656_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os12g07190.1 (Oryza sativa), 3'ss of exon 6
gtaagcattctatgttagtaaaac-agtattgtccatgatccctttctaactgttggtgttgtataattatgttc---tgcagCTCAAAAGATATACTTATGCGTGTTGTGTCACAAAATATTTCCCCTGAGTTGACTCTAGTAGAAAAG
|| |||| ||||| ||||||   | | |||| |  |  |   | || |   | ||  |  | ||    |   | |   ||||||||||| ||| | ||||||||||||||  |||| ||| |||| ||||| ||||| ||||||||||||
gtgagcaatctattttagtacttctactattatttacaacttccttatttttcttc-tactttactgatgcatccaaatgcagCTCAAAGGATTTGCTTATGCGTGTTGTTGCACAGAATCTTTCTCCTGAATTGACCCTAGTAGAAAAG

upper sequence: GRMZM2G126656_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA05G32930.1 (Glycine max), 3'ss of exon 6
--------------gtaagcattctatgttagtaaaacagtattgtcca--tgatccctttctaactgttgg-tgttgtataatt---atgttc-tgcagCTCAAAAGATATACTTATGCGTGTTGTGTCACAAAATATTTCCCCTGAGTTGACTCTAGTAGAAAAG
              |     || || ||||| | |  |  |  |  | |  |    ||||  | | |||  | || |  ||  ||   ||  || ||||| ||||| || ||||| |||||||||||| | |||||| |||| |||||||||||||| || ||||||
tgattttcccatccgccccaatcctctgttactcatcccatccttcctaatttgcaccttaatcattgtaagatgcttaatgttttctatactcatgcagTTCAAAGGACATACTAATGCGTGTTGTGGCTCAAAATCTTTCTCCTGAGTTGACTCTCGTGGAAAAG

upper sequence: GRMZM2G126656_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA08G00560.2 (Glycine max), 3'ss of exon 6
-------------------------------------------------------------------------------------gtaagcattctatgttag-----taaaacagtattgtccat--gatccctttctaactgttg-gtgttgtataat------tatgttc-tgcagCTCAAAAGATATACTTATGCGTGTTGTGTCACAAAATATTTCCCCTGAGTTGACTCTAGTAGAAAAG
                                                                                        | |  || | ||| |     ||||| | |||| ||     |   ||    |||   |||   | ||  ||||      |||| || ||||| ||||| || ||||| |||||||||||| | |||||| |||| |||||||||||||| || ||||||
gtaagatctttttcagaggctttaatctcttcttttggaagttgagggtgtggaataatatacaaaattgcatgttttcgtagtgaagaactctcaaggtttggggtataaaatattattctctggtaggagccaggttaatcattgtaagatgcttaatgctttctatgctcatgcagTTCAAAGGACATACTAATGCGTGTTGTGGCTCAAAATCTTTCTCCTGAGTTGACTCTCGTGGAAAAG

upper sequence: GRMZM2G126656_T01 (Zea mays), 3'ss of exon 6
lower sequence: Vv07s0031g02750.t01 (Vitis vinifera), 3'ss of exon 6
---------------------------------------------------------------------------gtaagcattctatgttagtaaaacagtat-tgtccatgatccctttctaactgttggtgt-tgtataattatgtt---ctgcagCTCAAAAGATATACTTATGCGTGTTGTGTCACAAAATATTTCCCCTGAGTTGACTCTAGTAGAAAAG
                                                                              ||||||  | |   ||       | | |||  || |||   |  |   |  |  ||| ||| |  ||    |    ||||| ||||| ||||| |||||||| |||||| |||||||  |||| |||||||||||||| || ||||||
gtattattcatttctctactggctcctatcttttctgactgtaactttgtatcaacaaggttttatttttgcattagcagcatttca-ggaggtgttttgatgtctgtttat-atctactggtggttacttatgtctgtttgtttcaactaacttgcagTTCAAAGGATATTCTTATGCGGGTTGTGGCACAAAACCTTTCTCCTGAGTTGACTCTGGTGGAAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtattgtccatgatccctttctaactgttggtgttgtataattatgttctgcagCTCAAAAGATATACTTATGCGTGTTGTGTCACAAAATATTTCCCCTGAGTTGACTCTAGTAGAAAAG
                   ttctaac  putative branch site (score: 1)
                                  ttgtataattatgtt  TA-rich tract