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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttattcttcctcatcttatattattattaccgaggaacaatgctttgcattttatacctagaatagctcttactgacatgttgaaccacttgaagcctcctagtaggcttaattccatgtgtatcctatcacctcattaagttggtgctgacttgtttgtgttattgccagTGTAACAATGAGAAACTTCTGGAGAACCCATACCTTCAGATGCGTGGGATATTGCAGTTATCAAATGACCTAGGAGTTCAATGATAAGATCGTGATGACA

Basic information

species Zea mays
transcript GRMZM2G459642_T04
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G459642_T04 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os01g74310.5 (Oryza sativa), 3'ss of exon 6
-----------gttattcttcctcatctt-------atatt---attattac-cgaggaacaatgctttgcattt-tatacctagaatagctcttactgacatgttgaaccacttgaagcctcctagtaggcttaattccatgtgtatcctatcacctcattaagttggtgctgac---ttgtttgtgttattgccagTGTAACAATGAGAAACTTCTGGAGAACCCATACCTTCAGATGCGTGGGATATTGCAGTTATCAAATGACCTAGGAGTTCAATGATAAGATCGTGATGACA
            || | ||  |||||  |       | |||   | ||||||  ||    ||    | |||||   | || ||||| ||| |  |  |  || |        ||| |||  || ||| ||| || ||| ||||  ||||  ||  |   |||| || ||| |||||   || |||   || |||||||||||||||||| ||||| |||||||||||||||||||| |||||||||||| ||||||| ||||| || ||||||||||||| || |        ||  |
gtggagcctcttttttcctatctcattatgggggtgaaatttgaagtattacatgaatgccatccatatgcatcggtttatctagattagtttctggtttcacgccaggt-gcttcaagtgtcgtaggaggtttcatttcatgcatatctgatatctcaattatgtcggtactgacatgttatttacattgttgccagTGTAACAATGAAAAACTGCTGGAGAACCCATACCTTCAAATGCGTGGGATACTGCAGTTGTCAAACGATCTAGGAGTTCAATAATCACTCGAATGTGCTA
















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|60346719|gb|DN213692.1|DN213692
EST:     CAGAGATATACCAACGGATGCTTCAAAGCCTCATCTCAAAAGCTCAACAG                         TGTAACAATGAGAAACTTCTGGAGAACCCATACCTTCAGATGCGTGGGATA
genomic: CAGAGATATACCAACGGATGCTTCAAAGCCTCATCTCAAAAGCTCAACAGgttattcttc ... ttattgccagTGTAACAATGAGAAACTTCTGGAGAACCCATACCTTCAGATGCGTGGGATA
EST: gi|60399844|gb|DN232654.1|DN232654
EST:     CAGAGATATACCAACGGATGCTTCAAAGCCTCATCTCAAAAGCTCAACAG                         TGTAACAATGAGAAACTTCTGGAGAACCCATACCTTCAGATGCGTGGGATA
genomic: CAGAGATATACCAACGGATGCTTCAAAGCCTCATCTCAAAAGCTCAACAGgttattcttc ... ttattgccagTGTAACAATGAGAAACTTCTGGAGAACCCATACCTTCAGATGCGTGGGATA
EST: gi|60353564|gb|DN220537.1|DN220537
EST:     AAAGCTCAACAG                         TGTAACAATGAGAAACTTCTGGAGAACCCATACCTTCAGATGCGTGGGATA
genomic: AAAGCTCAACAGgttattcttc ... ttattgccagTGTAACAATGAGAAACTTCTGGAGAACCCATACCTTCAGATGCGTGGGATA
EST: gi|211383655|gb|FL455017.1|FL455017
EST:     AGCCTCATCTCAAAAGCTCAACAG                         TGTAACAATGAGAAACTTCTGGAGAACCCATACCTTCAGATGCGTGGGATA
genomic: AGCCTCATCTCAAAAGCTCAACAGgttattcttc ... ttattgccagTGTAACAATGAGAAACTTCTGGAGAACCCATACCTTCAGATGCGTGGGATA
EST: gi|33091264|gb|CF051258.1|CF051258
EST:     CAGAGATATACCAACGGATGCTTCAAAGCCTCATCTCAAAAGCTCAACAG                         TGTAACAATGAGAAACTTCTGGAGAACCCATACCTTCAGATGCGTGGGATA
genomic: CAGAGATATACCAACGGATGCTTCAAAGCCTCATCTCAAAAGCTCAACAGgttattcttc ... ttattgccagTGTAACAATGAGAAACTTCTGGAGAACCCATACCTTCAGATGCGTGGGATA
EST: gi|60344784|gb|DN211757.1|DN211757
EST:     CAGAGATATACCAACGGATGCTTCAAAGCCTCATCTCAAAAGCTCAACAG                         TGTAACAATGAGAAACTTCTGGAGAACCCATACCTTCAGATGCGTGGGATA
genomic: CAGAGATATACCAACGGATGCTTCAAAGCCTCATCTCAAAAGCTCAACAGgttattcttc ... ttattgccagTGTAACAATGAGAAACTTCTGGAGAACCCATACCTTCAGATGCGTGGGATA
EST: gi|6056553|gb|AW090943.1|AW090943
EST:     CAGAGATATACCAACGGATGCTTNAAAGCCTCATCTCAAAAGCTCAACAG                         TGTAACAATGAGAAACTT
genomic: CAGAGATATACCAACGGATGCTTCAAAGCCTCATCTCAAAAGCTCAACAGgttattcttc ... ttattgccagTGTAACAATGAGAAACTT
EST: gi|60401545|gb|DN234352.1|DN234352
EST:     ATCTCAAAAGCTCAACAG                         TGTAACAATGAGAAACTTCTGGAGAACCCATACCTTCAGATGCGTGGGATA
genomic: ATCTCAAAAGCTCAACAGgttattcttc ... ttattgccagTGTAACAATGAGAAACTTCTGGAGAACCCATACCTTCAGATGCGTGGGATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgtgtatcctatcacctcattaagttggtgctgacttgtttgtgttattgccagTGTAACAATGAGAAACTTCTGGAGAACCCATACCTTCAGATGCGTGGGATATTGCAGTTATCAAATGACCTAGGAGTTCAATGATAAGATCGTGATGACA
                             tgctgac  putative branch site (score: 2)
                   attaagtt  TA-rich tract