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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atggaaagaatgttgtcacatatttgttaggttctggtaataactttaaagtcctgctatcatgtgtaatgacgtgcttacatttcactttcttgcacagTCTTTTATTGTCTTCGCAAGACCTATCAAATTCGCAGTAATGTTTACATTTGGAAACATATTGGCAGTTGGGAG

Basic information

species Zea mays
transcript GRMZM2G161988_T05
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G161988_T05 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g11980.1 (Oryza sativa), 3'ss of exon 2
atggaaagaatgttgtcacatatttgttaggttctggtaat-aactttaaagtc-ctgctatcatgtgtaatgacgtgcttacatttcacttt-cttgcacagTCTTTTATTGTCTTCGCAAGACCTATCAAATTCGCAGTAATGTTTACATTTGGAAACATATTGGCAGTTGGGAG
    |   | || |  || | ||   |    |||   |  |  | |||   ||   | || | |    |      |   |||| ||||| ||| | ||  |||||  || | || ||||  ||||| |||||||| ||||| ||||||||||||||||||||  | |||||||||||
---aatttagtggtagcaaacatgcctgcacttcaaattgttgattttgttgtgattactttgaaaattttctgagaagttacttttcatttttcctgtgcagTCACTTGTAGTTTTCGTCAGACCCATCAAATTTGCAGTCATGTTTACATTTGGAAACATCCTAGCAGTTGGGAG
















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|211367193|gb|FL206096.1|FL206096
EST:     TCTACGCCTTCGCGGCATGTTTGGTGGCCGGACTCACCCTCATGATCTTG                         TCTTTTATTGTCTTCGCAAGACCTATCAAATTCGCAGTAATGTTTACATTT
genomic: TCTACGCCTTCGCGGCATGTTTGGTGGCCGGACTCACCCTCATGATCTTGgtacgctctc ... tcttgcacagTCTTTTATTGTCTTCGCAAGACCTATCAAATTCGCAGTAATGTTTACATTT
EST: gi|211367190|gb|FL206093.1|FL206093
EST:     TCTACGCCTTCGCGGCATGTTTGGTGGCCGGACTCACCCTCATGATCTTG                         TCTTTTATTGTCTTCGCAAGACCTATCAAATTCGCAGTAATGTTTACATTT
genomic: TCTACGCCTTCGCGGCATGTTTGGTGGCCGGACTCACCCTCATGATCTTGgtacgctctc ... tcttgcacagTCTTTTATTGTCTTCGCAAGACCTATCAAATTCGCAGTAATGTTTACATTT
EST: gi|71318213|gb|DR795869.1|DR795869
EST:     TCTACGCCTTCGCGGCATGTTTGGTGGCCGGACTCACCCTCATGATCTTG                         TCTTTTATTGTCTTCGCAAGACCTATCAAATTCGCAGTAATGTTTACATTT
genomic: TCTACGCCTTCGCGGCATGTTTGGTGGCCGGACTCACCCTCATGATCTTGgtacgctctc ... tcttgcacagTCTTTTATTGTCTTCGCAAGACCTATCAAATTCGCAGTAATGTTTACATTT
EST: gi|211364541|gb|FL206092.1|FL206092
EST:     TCTACGCCTTCGCGGCATGTTTGGTGGCCGGACTCACCCTCATGATCTTG                         TCTTTTATTGTCTTCGCAAGACCTATCAAATTCGCAGTAATGTTTACATTT
genomic: TCTACGCCTTCGCGGCATGTTTGGTGGCCGGACTCACCCTCATGATCTTGgtacgctctc ... tcttgcacagTCTTTTATTGTCTTCGCAAGACCTATCAAATTCGCAGTAATGTTTACATTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaaagtcctgctatcatgtgtaatgacgtgcttacatttcactttcttgcacagTCTTTTATTGTCTTCGCAAGACCTATCAAATTCGCAGTAATGTTTACATTTGGAAACATATTGGCAGTTGGGAG
                             tgcttac  putative branch site (score: 2)
                                   catttcactttctt  CT-rich tract
                                ttacattt  TA-rich tract