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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttttctgctctcatgttgattgcattattattattatttcctgtgtatttgatagtcttttcctattgattgtgtttgcagCTGGCAAGACAGACTACAGGGCCAGGATAAGGCTGATTAACCAAGACAAAAACAAGTACAACACACCCAAATACAGATTTGTTGTGCGATTTGTATCCTT

Basic information

species Zea mays
transcript GRMZM2G163081_T05
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G163081_T05 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g67134.1 (Oryza sativa), 3'ss of exon 2
gtatgttttctgctctcatgttgattgcattattattattatttcctgtgtatttgatagtcttttcctattgattgtgtttgcagCTGGCAAGACAGACTACAGGGCCAGGATAAGGCTGATTAACCAAGACAAAAACAAGTACAACACACCCAAATACAGATTTGTTGTGCGATTTGTATCCTT
   |   |   | ||    |      || ||   |   | |  ||  |  | |    || |   |  |  |||    |||||||||  |||||||| ||||||||||||||||| ||||| |  |||||||| || ||||||||||||||||| || ||| | || |||||| |||||        
--gtaagtcaagttcaagagaccgaggcgtttccaa-gtcaagtcaaggttttgacgtacttaatctcatttgtcattgtttgcagAGGGCAAGACTGACTACAGGGCCAGGATTAGGCTCACCAACCAAGATAAGAACAAGTACAACACACCGAAGTACCGCTTCGTTGTGAGATTT--------

upper sequence: GRMZM2G163081_T05 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g67126.1 (Oryza sativa), 3'ss of exon 2
gtatgttttctg-----ctctcatgttgat--tgcat--tattattattatttcctgtgtatttgatagtcttt-tcctattgattgt-gtttgcagCTGGCAAGACAGACTACAGGGCCAGGATAAGGCTGATTAACCAAGACAAAAACAAGTACAACACACCCAAATACAGATTTGTTGTGCGATTTGTATCCTT
||| |||   |      || |||||| | |  |||||  | |  || | || |     |  ||||||   |||  ||  |||  || | ||||||||  |||||||| ||||||||||||||||| ||||| |  |||||||| || ||||||||||||||||| || ||| | || |||                 
gtaagttcaatataatcctttcatgtggctcatgcattctgtgcttgtaatatagctaggttttgatgtacttaatctcatttgttattgtttgcagAGGGCAAGACTGACTACAGGGCCAGGATTAGGCTCACCAACCAAGATAAGAACAAGTACAACACACCGAAGTACCGCTTCGTT-----------------

upper sequence: GRMZM2G163081_T05 (Zea mays), 3'ss of exon 2
lower sequence: Vv00s0174g00190.t01 (Vitis vinifera), 3'ss of exon 3
-----gtatgttttctgctctcatgttgattgcattattattattatttcctgtgta----tttgatagtcttttcctattgattgtgtttgcagCTGGCAAGACAGACTACAGGGCCAGGATAAGGCTGATTAACCAAGACAAAAACAAGTACAACACACCCAAATACAGATTTGTTGTGCGATTTGTATCCTT
     ||||   |  ||| |        ||||   ||   |  || |    ||  ||    | |  |  |  | | |||||         || ||| ||||||||||||||  | ||||||||  | ||||| || |||||||| || ||||||||||| || |||||  ||||||| |||||||||        
gtatagtattcctcttgccccttcaaatattgtggtagcctccttttggtttggttagctctattttgatggtgtgctatttgcaaatcgtgtagCGGGCAAGACAGACTATCGTGCCAGGATTCGCCTGATCAATCAAGACAAGAATAAGTACAACACTCCAAAATATCGATTTGTCGTGCGATTT--------

upper sequence: GRMZM2G163081_T05 (Zea mays), 3'ss of exon 2
lower sequence: Vv05s0094g00870.t01 (Vitis vinifera), 3'ss of exon 2
--------gtatgttttctgctctcatgttgattgcattattattattatttcctgtgtatttgatagtcttttcctattgattgtgtttgcagCTGGCAAGACAGACTACAGGGCCAGGATAAGGCTGATTAACCAAGACAAAAACAAGTACAACACACCCAAATACAGATTTGTTGTGCGATTTGTATCCTT
         ||  ||| |     ||||  | || |  ||    || |  |||  |  |  ||| || |  ||    | |  | | ||| | |||  || ||||| ||||||||||| |||||  | |||||||| |||||||| |||||||| ||||| || |||||  | |||||||||||||||        
gtattgtactacatttccaatgttcattcttatagtttttgggttttcgtttgtt-cgctttttatggatttaatttctaaaat-tgtctacagAGGGAAAGACTGACTACAGGGCTAGGATTCGCCTGATTAATCAAGACAAGAACAAGTATAACACTCCGAAATATCGCTTTGTTGTGCGATTT--------

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|211510735|gb|FL248624.1|FL248624
EST:     GACCAATGCGTATTTCAAACGTTTCCAAGTGAAATTCAAGAGAAGGCGGG                         CTGGCAAGACAGACTACAGGGCCAGGAT
genomic: GACCAATGCGTATTTCAAACGTTTCCAAGTGAAATTCAAGAGAAGGCGGGgtatgttttc ... gtgtttgcagCTGGCAAGACAGACTACAGGGCCAGGAT
EST: gi|211089429|gb|FL248703.1|FL248703
EST:     GACCAATGCGTATTTCAAACGTTTCCAAGTGAAATTCAAGAGAAGGCGGG                         CTGGCAAGACAGACTACAGGGCCAGGATAAGGCTGATTAACCAAGACAAAA
genomic: GACCAATGCGTATTTCAAACGTTTCCAAGTGAAATTCAAGAGAAGGCGGGgtatgttttc ... gtgtttgcagCTGGCAAGACAGACTACAGGGCCAGGATAAGGCTGATTAACCAAGACAAAA
EST: gi|211515472|gb|FL248667.1|FL248667
EST:     GACCAATGCGTATTTCAAACGTTTCCAAGTGARATTCAAGAGAAGGCGGG                         CTGGCAAGACAGACTACAGGGCCAGGATAAGGCTGATTAACCAAG
genomic: GACCAATGCGTATTTCAAACGTTTCCAAGTGAAATTCAAGAGAAGGCGGGgtatgttttc ... gtgtttgcagCTGGCAAGACAGACTACAGGGCCAGGATAAGGCTGATTAACCAAG
EST: gi|211227269|gb|FL248874.1|FL248874
EST:     GACCAATGCGTATTTCAAACGTTTCCAAGTGAAATTCAAGAGAAGGCGGG                         CTGGCAAGACAGACTACAGGGCCAGGATAAGGCTGATTAACCAAGACAAAA
genomic: GACCAATGCGTATTTCAAACGTTTCCAAGTGAAATTCAAGAGAAGGCGGGgtatgttttc ... gtgtttgcagCTGGCAAGACAGACTACAGGGCCAGGATAAGGCTGATTAACCAAGACAAAA
EST: gi|211096835|gb|FL248747.1|FL248747
EST:     GACCAATGCGTATTTCAAACGTTTCCAAGTGAAATTCAAGAGAAGGCGGG                         CTGGCAAGACAGACTACAGGGCCAGGATAAGGCTGATTAACCAAGAC
genomic: GACCAATGCGTATTTCAAACGTTTCCAAGTGAAATTCAAGAGAAGGCGGGgtatgttttc ... gtgtttgcagCTGGCAAGACAGACTACAGGGCCAGGATAAGGCTGATTAACCAAGAC
EST: gi|211227260|gb|FL248865.1|FL248865
EST:     ACCAATGCGTATTTCAAACGTTTTCCAAGTGAAATTCAAGAGAAGGCGGG                         CTGGCAAGACAGACTACAGGGCCAGGATA
genomic: ACCAATGCGTATTTCAAACGTTT-CCAAGTGAAATTCAAGAGAAGGCGGGgtatgttttc ... gtgtttgcagCTGGCAAGACAGACTACAGGGCCAGGATA
EST: gi|14191457|gb|BG833687.1|BG833687
EST:     GACCAATGCGTATTTCAAACGTTTCCAAGTGAAATTCAAGAGAAGGCGGG                         CTGGCAAGACAGACTACAGGGCCAGGATAAGGGTGATTAACCATAGACAAA
genomic: GACCAATGCGTATTTCAAACGTTTCCAAGTGAAATTCAAGAGAAGGCGGGgtatgttttc ... gtgtttgcagCTGGCAAGACAGACTACAGGGCCAGGATAAGGCTGATTAACCA-AGACAAA
EST: gi|211221073|gb|FL248822.1|FL248822
EST:     GACCAATGCGTATTTCAAACGTTTCCAAGTGAAATTCAAGAGAAGGCGGG                         CTGGCAAGACAGACTACAGGGCCARGATTAAGGCTGATTAACCAA
genomic: GACCAATGCGTATTTCAAACGTTTCCAAGTGAAATTCAAGAGAAGGCGGGgtatgttttc ... gtgtttgcagCTGGCAAGACAGACTACAGGGCCAGGAT-AAGGCTGATTAACCAA
EST: gi|211413275|gb|FL046453.1|FL046453
EST:     GACCAATGCGTATTTCAAACGTTTCCAAGTGAAATTCAAGAGAAGGCGGG                         CTGGCAAGACAGACTACAGGGCCAGGATAAGGCTGATTAACCAAGACAAAA
genomic: GACCAATGCGTATTTCAAACGTTTCCAAGTGAAATTCAAGAGAAGGCGGGgtatgttttc ... gtgtttgcagCTGGCAAGACAGACTACAGGGCCAGGATAAGGCTGATTAACCAAGACAAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attattattatttcctgtgtatttgatagtcttttcctattgattgtgtttgcagCTGGCAAGACAGACTACAGGGCCAGGATAAGGCTGATTAACCAAGACAAAAACAAGTACAACACACCCAAATACAGATTTGTTGTGCGATTTGTATCCTT
                                     tattgat  putative branch site (score: 3)
     tattattt  TA-rich tract