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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtcaagacgatgaatcgataataacttcatttgcattattgtatttatcgtctttatgcatacagtgtcagttctctaacaagtttgttttggcatgcagCTATTAACTCGTCTGGTTTTTGAGCGTGGAAGCACTGATGCAGCAGCAAAGGTTGCTGACACAATGAGTGTTGATTTTGTGCATGAGATTATATCAGCAT

Basic information

species Zea mays
transcript GRMZM2G327311_T02
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G327311_T02 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os01g40990.3 (Oryza sativa), 3'ss of exon 15
gtcaagacgatgaatcgataataacttca--tttgcattattgtatttatcgtctttatgcatacag-tgtcagttctctaacaagtttgttttggcatgcagCTATTAACTCGTCTGGTTTTTGAGCGTGGAAGCACTGATGCAGCAGCAAAGGTTGCTGACACAATGAGTGTTGATTTTGTGCATGAGATTATATCAGCAT
   |  | | | | |      |  ||  |    |         |||  ||    || | |||| ||| | | |||  | ||||| ||  |||||||||||||||| ||||||||||| ||||||||||| ||||||||||||||||| ||||| || ||||| |||||| |||| || |||||||||||||| ||||| || |
tctattatgttaatttctatgtggctcaaaaacttaggagccatataaatttgtttca-gcatgcagcttttagtcatataacatgt--gttttggcatgcagCTTTTAACTCGTCTTGTTTTTGAGCGCGGAAGCACTGATGCAGCTGCAAAAGTAGCTGATACAATGGGTGTAGACTTTGTGCATGAGATCATATCTGCTT

upper sequence: GRMZM2G327311_T02 (Zea mays), 3'ss of exon 8
lower sequence: AT2G25730.2 (Arabidopsis thaliana), 3'ss of exon 14
gtcaagacgatg-aatcgataataacttcatttg-cattattgtatttatcgtctttatgcatacagtgtcagttctctaacaagtttgttttggcatgcagCTATTAACTCGTCTGGTTTTTGAGCGTGGAAGCACTGATGCAGCAGCAAAGGTTGCTGACACAATGAGTGTTGATTTTGTGCATGAGATTATATCAGCAT
   |  ||  ||    | ||  ||     ||| | |||   |  |  ||   |  ||| ||| | |   | |||   ||   |   ||| |      |||||||||| || |||||||||||||| ||  | ||||| |||||||| ||||| ||||||||    |||  || ||||||||| |||||  | ||||||||||
--aaccactgtgcggccaattttatacaaattggtcatgcctcaaaatactcttcttaggcacagatcttgagtaacctcttactgttggtgcatgttgcagCTATTGACGCGTCTGGTTTTTGATCGAAGTAGCACAGATGCAGCTGCAAAAGTTGCTGAGGTTATGTCTGCTGATTTTGTTCATGAAGTGATATCAGCAT


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatcgtctttatgcatacagtgtcagttctctaacaagtttgttttggcatgcagCTATTAACTCGTCTGGTTTTTGAGCGTGGAAGCACTGATGCAGCAGCAAAGGTTGCTGACACAATGAGTGTTGATTTTGTGCATGAGATTATATCAGCAT
                            ctctaac  putative branch site (score: 2)
                                      tttgtttt  putative PPT
                                      tttgtttt  TA-rich tract