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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgccatttatgtcaaatgtcttcagatgggatggtagctgtttctgctgttactagtctttctccactgccttttcatgctgacaccttatcttctaaaaaactgtcttccagGCATTATCTGATTGTTTCTGCTGTCACCAATCTTTTGGTTAATTTACTTGGTGTTTGGTTCTTCCGGAACTACGCTCGTGTTAACATAG

Basic information

species Zea mays
transcript GRMZM2G017365_T08
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G017365_T08 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os02g58580.1 (Oryza sativa), 3'ss of exon 3
gtaagtgccatttatgtcaaatgtcttcagatgggatggtagctgtttctgctgttactagtctttctccactgccttttcatgctgacaccttatcttctaaaaaactgtcttccagGCATTATCTGATTGTTTCTGCTGTCACCAATCTTTTGGTTAATTTACTTGGTGTTTGGTTCTTCCGGAACTACGCTCGTGTTAACATAG
|||| |||| |||   |    | |  |   ||   ||   |   ||||  |||  || || | ||  || |          |  || | |  |     | ||         ||| |||||||||||| ||||||||||||||||| || |||||||||||||||||||||||||||||||| |||| ||| ||||||||||||||||
gtaaatgccttttcctttttgtttagtgtaatataatcccaatcgttttggctaatattattattcttcta----------aaactaaaatatatatatata---------ctttcagGCATTATCTCATTGTTTCTGCTGTCACAAACCTTTTGGTTAATTTACTTGGTGTTTGGTTCTTTCGGAGCTATGCTCGTGTTAACATAG
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|76014355|gb|DT941525.1|DT941525
EST:     TTGGCTGTTGAAGCATTACATGCATTTATGCAAGATGAATCGGAGCACAA                         GCATTATCTGATTGTTTCTGCTGTCACCAATCTTTTGGTTAATTTACTTGG
genomic: TTGGCTGTTGAAGCATTACATGCATTTATGCAAGATGAATCGGAGCACAAgtaagtgcca ... tgtcttccagGCATTATCTGATTGTTTCTGCTGTCACCAATCTTTTGGTTAATTTACTTGG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttctccactgccttttcatgctgacaccttatcttctaaaaaactgtcttccagGCATTATCTGATTGTTTCTGCTGTCACCAATCTTTTGGTTAATTTACTTGGTGTTTGGTTCTTCCGGAACTACGCTCGTGTTAACATAG
                                  ttctaaa  putative branch site (score: 2)
                                            ctgtcttcc  putative PPT
                             ttatcttctaaaaaa  TA-rich tract