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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atatgcttcccatttctccttttgcttaagttttggtttactacttgggctgggttgtcatctcctaaagtcgaagtaactgctccatgtttacaattagCCAGGAAGCTGGAAGAGGAACTCAATGGTTGGCTGGGGGCAGCCGGTCTAACCAAGTCTCCTGATGTTAGGGCAGTAATTGCACC

Basic information

species Zea mays
transcript GRMZM2G016827_T02
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G016827_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os08g20270.1 (Oryza sativa), 3'ss of exon 2
-----------atatgcttccca-tttctccttttgcttaagttttggtttactacttgg-gctgggttgtcatctcctaaagtcgaagtaactgctccatgtttacaattagCCAGGAAGCTGGAAGAGGAACTCAATGGTTGGCTGGGGGCAGCCGGTCTAACCAAGTCTCCTGATGTTAGGGCAGTAATTGCACC
             ||     ||| ||||| || ||  | || || || |  || | ||    ||       | ||||||||| ||      | |||||||||||       ||||||||| ||||| ||||||||  ||||||||||| |||| || ||||| |||||||| |||||||| |||||||||||||| ||
aaaaatttcagggatctcaaccagtttcttctatttttaaatttctgttcgacaatttaccacttcagctccgtctcctaaattc------attgctccatgtt-------agCCAGGAAACTGGATGAGGAACTTGATGGTTGGCTGAGGGCTGCTGGTCTCACCAAGTCCCCTGATGTGAGGGCAGTAATTGCGCC
















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|211322017|gb|FL082184.1|FL082184
EST:     GGAGCGCGCGAGGAGGGCTTCGCACGCCGGCTTTTGGTACACCAACGATG                         CCAGGAAGCTGGAAGAGGAACTCAATGGTTGGCTGGGGGCAGCCGGTCTAA
genomic: GGAGCGCGCGAGGAGGGCTTCGCACGCCGGCTCTTGGTACACCAACGATGgtactttgca ... ttacaattagCCAGGAAGCTGGAAGAGGAACTCAATGGTTGGCTGGGGGCAGCCGGTCTAA
EST: gi|211152184|gb|FL082176.1|FL082176
EST:     GGAGCGCGCGAGGAGGGCTTCGCACGCYGGCTTTTGGTACACCAACGATG                         CCAGGAAGCTGGAAGAGGAACTCAATGGTTGGCTGGGGGCAGCCGGTCTAA
genomic: GGAGCGCGCGAGGAGGGCTTCGCACGCCGGCTCTTGGTACACCAACGATGgtactttgca ... ttacaattagCCAGGAAGCTGGAAGAGGAACTCAATGGTTGGCTGGGGGCAGCCGGTCTAA
EST: gi|211152189|gb|FL082181.1|FL082181
EST:     GGAGCGCGCGAGGAGGGCTTCGCACGCCGGCTTTTGGTACACCAACGATG                         CCAGGAAGCTGGAAGAGGAACTCAATGGTTGGCTGGGGGCAGCCGGTCTAA
genomic: GGAGCGCGCGAGGAGGGCTTCGCACGCCGGCTCTTGGTACACCAACGATGgtactttgca ... ttacaattagCCAGGAAGCTGGAAGAGGAACTCAATGGTTGGCTGGGGGCAGCCGGTCTAA
EST: gi|40333977|gb|CK368047.1|CK368047
EST:     GGAGCGCGCGAGGAGGGCTTCGCACGCCGGCTCTTGGTACACCAACGATG                         CCAGGAAGCTGGAAGAGGAACTCAATGGTTGGCTGGGGGCAGCCGGTCTAA
genomic: GGAGCGCGCGAGGAGGGCTTCGCACGCCGGCTCTTGGTACACCAACGATGgtactttgca ... ttacaattagCCAGGAAGCTGGAAGAGGAACTCAATGGTTGGCTGGGGGCAGCCGGTCTAA
EST: gi|32835219|gb|CD974897.1|CD974897
EST:     ACACCAACGATG                         CCAGGAAGCTGGAAGAGGAACTCAATGGTTGGCTGGGGGCAGCCGGTCTAA
genomic: ACACCAACGATGgtactttgca ... ttacaattagCCAGGAAGCTGGAAGAGGAACTCAATGGTTGGCTGGGGGCAGCCGGTCTAA
EST: gi|32919021|gb|CF023833.1|CF023833
EST:     GGAGCGCGCGAGGAGGGCTTCGCACGCCGGCTCTTGGTACACCAACGATG                         CCAGGAAGCTGGAAGAGGAACTCAATGGTTGGCTGGGGGCAGCCGGTCTAA
genomic: GGAGCGCGCGAGGAGGGCTTCGCACGCCGGCTCTTGGTACACCAACGATGgtactttgca ... ttacaattagCCAGGAAGCTGGAAGAGGAACTCAATGGTTGGCTGGGGGCAGCCGGTCTAA
EST: gi|78117730|gb|DV536117.1|DV536117
EST:     GGAGCGCGCGAGGAGGGCTTCCCACGCCGGCTCTTGGTACACCAACGATG                         CCAGGAAGCTGGAAAAGGAACTCAATGGTTGGCTGGGGGCAGCCGGTCTAA
genomic: GGAGCGCGCGAGGAGGGCTTCGCACGCCGGCTCTTGGTACACCAACGATGgtactttgca ... ttacaattagCCAGGAAGCTGGAAGAGGAACTCAATGGTTGGCTGGGGGCAGCCGGTCTAA
EST: gi|76019722|gb|DT946892.1|DT946892
EST:     GGAGCGCGCGAGGAGGGCTTCGCACGCCGGCTCTTGGTACACCAACGATG                         CCAGGAAGCTGGAAGAGGAACTCAATGGTTGGCTGGGGGCAGCCGGTCTAA
genomic: GGAGCGCGCGAGGAGGGCTTCGCACGCCGGCTCTTGGTACACCAACGATGgtactttgca ... ttacaattagCCAGGAAGCTGGAAGAGGAACTCAATGGTTGGCTGGGGGCAGCCGGTCTAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgggctgggttgtcatctcctaaagtcgaagtaactgctccatgtttacaattagCCAGGAAGCTGGAAGAGGAACTCAATGGTTGGCTGGGGGCAGCCGGTCTAACCAAGTCTCCTGATGTTAGGGCAGTAATTGCACC
                            aagtaac  putative branch site (score: 2)
                                            tttacaatta  TA-rich tract