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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatggttttgcatgcattcaaaaactgactattgtaaggaagatatttgcgattgaggcggtggtccaactcctcgccttaccaccttaagaacactggtttgctactttccagaattgaacaaagattaactttttgcagGTTTTGGGCACCCCAACACGAGAGGAAATTCGTTGTATGAATCCCAACTATACAGAATTCAAGTTTCCTCAGATAAAAGCATGTCCATGGCACAAG

Basic information

species Zea mays
transcript GRMZM2G043350_T02
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G043350_T02 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os06g35530.1 (Oryza sativa), 3'ss of exon 8
gtaatggttttgcatgcattcaaaaactgactattgtaaggaagatatttgcgattgaggcggtggtccaactcctcgccttaccaccttaagaacactggtttgctactttccagaattgaacaaagattaactttttgcagGTTTTGGGCACCCCAACACGAGAGGAAATTCGTTGTATGAATCCCAACTATACAGAATTCAAGTTTCCTCAGATAAAAGCATGTCCATGGCACAAG
                                                                |  |  | | ||              ||    |||   |   |  ||   ||||||||| ||| | |||||| |||||||||||||| || ||||| ||||||||||| ||||||||||||||||| || ||||||||||| ||||| |||||||||||||| ||||||||||||
----------------------------------------------------------------gtacttagttcttaaaagtttgtagcaaatttactatctcatt-tttgaaagaattgaa-aaacagtaacttcttgcagGTTTTGGGTACTCCAACGCGAGAGGAAATCCGTTGTATGAATCCCAATTACACAGAATTCAAATTTCCGCAGATAAAAGCATGCCCATGGCACAAG

upper sequence: GRMZM2G043350_T02 (Zea mays), 3'ss of exon 7
lower sequence: EFJ04915 (Selaginella moellendorffii), 3'ss of exon 8
gtaatggttttgcatgcattcaaaaactgactattgtaaggaagatatttgcgattgaggcggtggtccaactcctcgccttaccaccttaagaacactggtttgctactttccagaattgaacaaagattaactttttgcagGTTTTGGGCACCCCAACACGAGAGGAAATTCGTTGTATGAATCCCAACTATACAGAATTCAAGTTTCCTCAGATAAAAGCATGTCCATGGCACAAG
                                                                       ||| | |  ||    ||||| |     ||| | |   ||    | | ||| ||           ||  ||||||| | || ||||| || || ||||| ||    ||||||||||||||||| || ||||||||||| ||||| || || ||    || |||||||||
------------------------------------------------------------------gttggctcgttgtttt--tgccttatgg----tggctgggcgctcat-aaagttggac-----------ttgggcagGTTCTTGGAACCCCTACTCGCGAGGAGATCAAGTGTATGAATCCCAACTACACGGAATTCAAGTTCCCTCAAATCAAGGCCCACCCTTGGCACAAG

upper sequence: GRMZM2G043350_T02 (Zea mays), 3'ss of exon 7
lower sequence: EFJ10962 (Selaginella moellendorffii), 3'ss of exon 8
gtaatggttttgcatgcattcaaaaactgactattgtaaggaagatatttgcgattgaggcggtggtccaactcctcgccttaccaccttaagaacactggtttgctactttccagaattgaacaaagattaactttttgcagGTTTTGGGCACCCCAACACGAGAGGAAATTCGTTGTATGAATCCCAACTATACAGAATTCAAGTTTCCTCAGATAAAAGCATGTCCATGGCACAAG
                                                                       ||| | |  ||    ||||| |     ||| | |   ||    | | ||| ||           ||  ||||||| | || ||||| || || ||||| ||    ||||||||||||||||| || ||||||||||| ||||| || || ||   ||| |||||||||
------------------------------------------------------------------gttggctcgttgtttt--tgccttatgg----tggctgggcgctcat-aaagttggac-----------ttgcgcagGTTCTTGGAACCCCTACTCGCGAGGAGATCAAGTGTATGAATCCCAACTACACGGAATTCAAGTTCCCTCAAATCAAGGCCCATCCTTGGCACAAG

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|32848647|gb|CD988328.1|CD988328
EST:     CATTATTTCCTGGGGAAAGTGCTGTGGACCAGCTGGTTGAGATTATCAAG                         GTTTTGGGCACCCCAACACGAGAGGAAATTCGTTGTATGAATCCCAACTAT
genomic: CATTATTTCCTGGGGAAAGTGCTGTGGACCAGCTGGTTGAGATTATCAAGgtaatggttt ... ctttttgcagGTTTTGGGCACCCCAACACGAGAGGAAATTCGTTGTATGAATCCCAACTAT
EST: gi|71759011|gb|DR956948.1|DR956948
EST:     CATTATTTCCTGGGGAAAGTGCTGTGGACCAGCTGGTTGAGATTATCAAG                         GTTTTGGGCACCCCAACACGAGAGGAAATTCGTTGTATGAATCCCAACTAT
genomic: CATTATTTCCTGGGGAAAGTGCTGTGGACCAGCTGGTTGAGATTATCAAGgtaatggttt ... ctttttgcagGTTTTGGGCACCCCAACACGAGAGGAAATTCGTTGTATGAATCCCAACTAT
EST: gi|211363839|gb|FL067525.1|FL067525
EST:     CATTATTTCCTGGGGAAAGTGCTGTGGACCAGCTGGTTGAGATTATCAAG                         GTTTTGGGCACCC-AACACGAGAGGAAATTCGTTGTATGAATCCCAACTAT
genomic: CATTATTTCCTGGGGAAAGTGCTGTGGACCAGCTGGTTGAGATTATCAAGgtaatggttt ... ctttttgcagGTTTTGGGCACCCCAACACGAGAGGAAATTCGTTGTATGAATCCCAACTAT
EST: gi|71446525|gb|DR827575.1|DR827575
EST:     TTCCTGGGGAAAGTGCTGTGGACCAGCTGGTTGAGATTATCAAG                         GTTTTGGGCACCCCAACACGAGAGGAAATTCGTTGTATGAATCCCAACTAT
genomic: TTCCTGGGGAAAGTGCTGTGGACCAGCTGGTTGAGATTATCAAGgtaatggttt ... ctttttgcagGTTTTGGGCACCCCAACACGAGAGGAAATTCGTTGTATGAATCCCAACTAT
EST: gi|78092424|gb|DV520798.1|DV520798
EST:     CATTATTTCCTGGGGAAAGTGCTGTGGACCAGCTGGTTGAGATTATCAAG                         GTTTTGGGCACCCCAACACGAGAGGAAATTCGTTGTATGAATCCCAACTAT
genomic: CATTATTTCCTGGGGAAAGTGCTGTGGACCAGCTGGTTGAGATTATCAAGgtaatggttt ... ctttttgcagGTTTTGGGCACCCCAACACGAGAGGAAATTCGTTGTATGAATCCCAACTAT
EST: gi|60338451|gb|DN205424.1|DN205424
EST:     GGACCAGCTGGTTGAGATTATCAAG                         GTTTTGGGCACCCCAACACGAGAGGAAATTCGTTGTATGAATCCCAACTAT
genomic: GGACCAGCTGGTTGAGATTATCAAGgtaatggttt ... ctttttgcagGTTTTGGGCACCCCAACACGAGAGGAAATTCGTTGTATGAATCCCAACTAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaagaacactggtttgctactttccagaattgaacaaagattaactttttgcagGTTTTGGGCACCCCAACACGAGAGGAAATTCGTTGTATGAATCCCAACTATACAGAATTCAAGTTTCCTCAGATAAAAGCATGTCCATGGCACAAG
                                       gattaac  putative branch site (score: 2)
                                             ctttttgc  CT-rich tract
                                    aaagattaacttttt  TA-rich tract