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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattataaatgggttgtcagatctgcctgtccgttaaccattcaaaagcaaattatttctcagtggatgtccaatgtttacaggagcatacagcatttgctgtttaccatggatagaggatgattttagcctcctatatatcatggagtcctcagactgtttcactgtgatgtaaactgactataatgttttcagCTGCACGTTCAGGGACCACTGTGACTTTTGTTATAATAGATGGATGGGTTGTCACTGTAGCATCAGTTGGCGATTCACGATGTATTCTAGAATCTGCTGA

Basic information

species Zea mays
transcript GRMZM2G150213_T04
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G150213_T04 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os03g27780.1 (Oryza sativa), 3'ss of exon 2
gtattataaatgggttgtcagatctgcctgtccgttaaccattcaa-aagcaaattatttctcagtggatgtccaatgtttacaggagcatacagcatttgctgtttac-----------catggatagaggatgattttagcctcctatatatcat-ggagtcctcagactgtttcactgtgatgtaaactga---ctataatgttttcagCTGCACGTTCAGGGACCACTGTGACTTTTGTTATAATAGATGGATGGGTTGTCACTGTAGCATCAGTTGGCGATTCACGATGTATTCTAGAATCTGCTGA
                                  |||  | ||||  ||||  || |    | || |||||| ||     |  ||  || |  ||  ||   |||| |              |||| | |      | | |       ||| || ||  | ||  | | ||  || ||||| | ||||||||||    ||  ||||||||||| || || |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| || ||||| ||||||||||||||
-------------------------------gtattattctttcactaagctgataacgatttagaggatgtgcatgtaatttagaggcttttagttttctttgttcatattctcccccttttggacaaatatctttctgatttatgaatacatgatcagtgttgttatacacttgcactgcggtgtaaactgattgttaccatgttttcagCGGCGCGCTCAGGGACCACTGTGACTTTTGTTATAATAGATGGATGGGTTGTCACTGTAGCATCAGTTGGCGATTCCCGCTGTATCCTAGAATCTGCTGA

upper sequence: GRMZM2G150213_T04 (Zea mays), 3'ss of exon 2
lower sequence: Vv18s0001g10700.t01 (Vitis vinifera), 3'ss of exon 3
gtattataaatgggttgtcagatctgcctgtccgttaaccattcaaaagcaaattatttctcagtggatgtccaatgtttacaggagcatacagcatttgctgtttaccatggatagaggatgattttagcctcctatatatcatggagtcctcagactgtttcactgtga--tgtaaactgactata---atgttttcagCTGCACGTTCAGGGACCACTGTGACTTTTGTTATAATAGATGGATGGGTTGTCACTGTAGCATCAGTTGGCGATTCACGATGTATTCTAGAATCTGCTGA
                                                                                                 ||| | ||  |  || ||          |  |  ||||| | | | |  |  |  |||     ||| | |||||  || ||| |   |||    |  ||||||||   |  |||||| || ||||| || |||||||||||||| |||||||| || ||||| || || ||||| |||||||| || || || |||||||||||
------------------------------------------------------------------------------------------------cttgattttctctctgcat-----gctgctgcattctcctttttttaagagtcttttcatctcatttaaatgtgacttgaaaatttgatatggctactttttcagCACGAACTTCAGGAACAACTGTTACCTTTGTTATAATAGAAGGATGGGTGGTAACTGTTGCTTCCGTTGGTGATTCACGGTGCATACTTGAATCTGCTGA


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcatggagtcctcagactgtttcactgtgatgtaaactgactataatgttttcagCTGCACGTTCAGGGACCACTGTGACTTTTGTTATAATAGATGGATGGGTTGTCACTGTAGCATCAGTTGGCGATTCACGATGTATTCTAGAATCTGCTGA
                                  aactgac  putative branch site (score: 2)
                                              tgttttc  putative PPT
                                         tataatgtttt  TA-rich tract