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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgtctacgccttatgccaacttttgattccatacacccaggctattgtttcaggctggcgtttttttttctttgtagacttatagttgatgccatcaacagGTACACCAGTAAGCTGCTTTTGGCTGTCATTGATGAGAATCACCGAGGAACTTATGATTTCATCTACCTTCCAATTGATTTTAAG

Basic information

species Zea mays
transcript GRMZM2G156956_T02
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G156956_T02 (Zea mays), 3'ss of exon 12
lower sequence: LOC_Os05g01240.2 (Oryza sativa), 3'ss of exon 11
gtacgt-ctacgccttatgccaacttttgattccatacacccaggctattgtttcaggctggcgtttttttttctttg--tagacttatagttgatgccatcaacagGTACACCAGTAAGCTGCTTTTGGCTGTCATTGATGAGAATCACCGAGGAACTTATGATTTCATCTACCTTCCAATTGATTTTAAG
||| || || | | |  ||||| |  |||   |||     |  |   |||  |   |  |    ||||| ||   |||  |  | | ||| ||||||  ||| ||||||||| | ||||||||||||||||||||||||||||||| ||||| ||||| || ||||||||||| || |||||||||||||||
gtaggttctgcacatcttgccaccggttg---ccagctgtcttgcacattactcaggtatcttttttttcttctgttgactcaagtcatacttgatgtgatccacagGTACAACTGTAAGCTGCTTTTGGCTGTCATTGATGAGAACCACCGTGGAACCTACGATTTCATCTATCTCCCAATTGATTTTAAG
















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|60394908|gb|DN227777.1|DN227777
EST:     AAGGGTGAAGACTCGCGCACCACACTGATGATAAAAAACATTCCTAACAA                         GTACACCAGTAAGCTGCTTTTGGCTGTCATTGATGAGAATCACCGAGGAAC
genomic: AAGGGTGAAGACTCGCGCACCACACTGATGATAAAAAACATTCCTAACAAgtacgtctac ... ccatcaacagGTACACCAGTAAGCTGCTTTTGGCTGTCATTGATGAGAATCACCGAGGAAC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtttcaggctggcgtttttttttctttgtagacttatagttgatgccatcaacagGTACACCAGTAAGCTGCTTTTGGCTGTCATTGATGAGAATCACCGAGGAACTTATGATTTCATCTACCTTCCAATTGATTTTAAG
                                     agttgat  putative branch site (score: 5)
              tttttttttctttgta  TA-rich tract