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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactgcctcattctccttatttgaatggatttctctattcatcgtgtagatttcttgtttttgtgtgtgtgtcatgacatcactatgtgtttgttgttgttggaactgtaggaatacagatacagttatgtagctgaattatgactcttgcatgcagGGACATCTGCGTGCCCTGAGGCGAAGTTCTACTGCAAGAATGCAGGCCACACTCCAGTCACGATCTTCTCATCACGAGTGAATGACGGCATTTGTG

Basic information

species Zea mays
transcript GRMZM2G052875_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G052875_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g16970.2 (Oryza sativa), 3'ss of exon 2
gtactgcctcattctccttatttgaatggatttctc---tattcatcgtgtagatttcttgtttttgtgtgtgtgtcatgacatcactatgtgtttgtt-gttgttggaa--------ctgtaggaatacagatacagttatgtagctgaattatgact----cttgc----atgcagGGACATCTGCGTGCCCTGAGGCGAAGTTCTACTGCAAGAATGCAGGCCACACTCCAGTCACGATCTTCTCATCACGAGTGAATGACGGCATTTGTG
    ||| || ||   ||    ||||     || ||   | ||  | |  |    || |||     |||| | ||   | |  |     ||| | || | || | | |||        ||||||| |  |  | | || | | ||   ||||| ||  |     ||||      ||||||||||| |||||||| |||| ||||||||||||| ||||||| || ||  ||||  ||||||||||||| || ||||||||||| || || ||||
--gttgcttccttgctctcgcctgaaaaagattatccctttttttttgccttagctttttgcggaggtgt-tctggttttaggttctcgtgtttgtgctagtagctcgaatctacttactgtaggcaatctaagagagctgtttaatcgaattgtgtttactttttgccttggcgcagGGACATCGGCGTGCCCGGAGGGGAAGTTCTACTGCCAGAATGCTGGGCATTCTCCCATCACGATCTTCTCGTCGCGAGTGAATGATGGTATCTGTG
















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|87153726|gb|DY398515.1|DY398515
EST:     GCAGCTCAACGACGACTTCTGCGACTGCCCCGACGGCACCGACGAGCCCG                         GGACATCTGCGTGCCCTGAGGCGAAGTTCTACTGCAAGAATGCAGGCCACA
genomic: GCAGCTCAACGACGACTTCTGCGACTGCCCCGACGGCACCGACGAGCCCGgtactgcctc ... ttgcatgcagGGACATCTGCGTGCCCTGAGGCGAAGTTCTACTGCAAGAATGCAGGCCACA
EST: gi|211215768|gb|FL437214.1|FL437214
EST:     CGACTTCTGCGACTGCCCCGACGGGCACCGACGAGCCCG                         GGACATCTGCGTGCCCTGAGGCGAAGTTCTACTGCAAGAATGCAGGCCACA
genomic: CGACTTCTGCGACTGCCCCGAC-GGCACCGACGAGCCCGgtactgcctc ... ttgcatgcagGGACATCTGCGTGCCCTGAGGCGAAGTTCTACTGCAAGAATGCAGGCCACA
EST: gi|22490637|gb|BU050560.1|BU050560
EST:     GCAGCTCAACGACGACTTCTGCGACTGCCCCGACGGCACCGACGAGCCCG                         GGACATCTGCGTGCCCTGAGGCGAAGTTCTACTGCAAGAATGCAGGCCACA
genomic: GCAGCTCAACGACGACTTCTGCGACTGCCCCGACGGCACCGACGAGCCCGgtactgcctc ... ttgcatgcagGGACATCTGCGTGCCCTGAGGCGAAGTTCTACTGCAAGAATGCAGGCCACA
EST: gi|211322390|gb|FL223767.1|FL223767
EST:     GCAGCTCAACGACGACTTCTGCGACTGCCCCGACGGCACCGACGAGCCCG                         GGACATCTGCGTGCCCTGAGGCGAAGTTCTACTGCAAGAATGCAGGCCACA
genomic: GCAGCTCAACGACGACTTCTGCGACTGCCCCGACGGCACCGACGAGCCCGgtactgcctc ... ttgcatgcagGGACATCTGCGTGCCCTGAGGCGAAGTTCTACTGCAAGAATGCAGGCCACA
EST: gi|19057817|gb|BM736484.1|BM736484
EST:     GCAGCTCAACGACGACTTCTGCGACTGCCCCGACGGCACCGACGAGCCCG                         GGACATCTGCGTGCCCTGAGGCGAAGTTCTACTGCAAGAATGCAGGCCACA
genomic: GCAGCTCAACGACGACTTCTGCGACTGCCCCGACGGCACCGACGAGCCCGgtactgcctc ... ttgcatgcagGGACATCTGCGTGCCCTGAGGCGAAGTTCTACTGCAAGAATGCAGGCCACA
EST: gi|31612130|gb|CD568752.1|CD568752
EST:     GCAGCTCAACGACGACTTCTGCGACTGCCCCGACGGCACCGACGAGCCCG                         GGACATCTGCGTGCCCTGAGGCGAAGTTCTACTGCAAGAATGCAGGCCACA
genomic: GCAGCTCAACGACGACTTCTGCGACTGCCCCGACGGCACCGACGAGCCCGgtactgcctc ... ttgcatgcagGGACATCTGCGTGCCCTGAGGCGAAGTTCTACTGCAAGAATGCAGGCCACA
EST: gi|19058293|gb|BM736960.1|BM736960
EST:     GCAGCTCAACGACGACTTCTGCGACTGCCCCGCCGGCACCGCCGAGCCCG                         GGACATCTGCGTGCCCTGAGGCGAAGTTCTACTGCAAGAATGCAGGCCACA
genomic: GCAGCTCAACGACGACTTCTGCGACTGCCCCGACGGCACCGACGAGCCCGgtactgcctc ... ttgcatgcagGGACATCTGCGTGCCCTGAGGCGAAGTTCTACTGCAAGAATGCAGGCCACA
EST: gi|211320224|gb|FL223759.1|FL223759
EST:     GCAGCTCAACGACGACTTCTGCGACTGCCCCGACGGCACCGACGAGCCCG                         GGACATCTGCGTGCCCTGAGGCGAAGTTCTACTGCAAGAATGGAGGCCACA
genomic: GCAGCTCAACGACGACTTCTGCGACTGCCCCGACGGCACCGACGAGCCCGgtactgcctc ... ttgcatgcagGGACATCTGCGTGCCCTGAGGCGAAGTTCTACTGCAAGAATGCAGGCCACA
EST: gi|211322386|gb|FL223763.1|FL223763
EST:     GCAGCTCAACGACGACTTCTGCGACTGCCCCGACGGCACCGACGAGCCCG                         GGACATCTGCGTGCCCTGAGGCGAAGTTCTACTGCAAGAATGCAGGCCACA
genomic: GCAGCTCAACGACGACTTCTGCGACTGCCCCGACGGCACCGACGAGCCCGgtactgcctc ... ttgcatgcagGGACATCTGCGTGCCCTGAGGCGAAGTTCTACTGCAAGAATGCAGGCCACA
EST: gi|211457195|gb|FL323091.1|FL323091
EST:     GCAGCTCAACGACGACTTCTGCGACTGCCCCGACGGCACCGACGAGCCCG                         GGACATCTGCGTGCCCTGAGGCGAAGTTCTACTGCAAGAATGCAGGCCACA
genomic: GCAGCTCAACGACGACTTCTGCGACTGCCCCGACGGCACCGACGAGCCCGgtactgcctc ... ttgcatgcagGGACATCTGCGTGCCCTGAGGCGAAGTTCTACTGCAAGAATGCAGGCCACA
EST: gi|211322388|gb|FL223765.1|FL223765
EST:     GCAGCTCAACGACGACTTCTGCGACTGCCCCGACGGCACCGACGAGCCCG                         GGACATCTGCGTGCCCTGAGGCGGAGTTCTACTGCAAGAATGCAGGCCACA
genomic: GCAGCTCAACGACGACTTCTGCGACTGCCCCGACGGCACCGACGAGCCCGgtactgcctc ... ttgcatgcagGGACATCTGCGTGCCCTGAGGCGAAGTTCTACTGCAAGAATGCAGGCCACA
EST: gi|211322389|gb|FL223766.1|FL223766
EST:     GCAGCTCAACGACGACTTCTGCGACTGCCCCGACGGCACCGACGAGCCCG                         GGACATCTGCGTGCCCTGAGGCGAAGTTCTACTGCAAGAATGCAGGCCACA
genomic: GCAGCTCAACGACGACTTCTGCGACTGCCCCGACGGCACCGACGAGCCCGgtactgcctc ... ttgcatgcagGGACATCTGCGTGCCCTGAGGCGAAGTTCTACTGCAAGAATGCAGGCCACA
EST: gi|32847353|gb|CD987034.1|CD987034
EST:     GCAGCTCAACGACGACTTCTGCGACTGCCCCGACGGCACCGACGAGCCCG                         GGACATCTGCGTGCCCTGAGGCGAAGTTCTACTGCAAGAATGCAGGCCACA
genomic: GCAGCTCAACGACGACTTCTGCGACTGCCCCGACGGCACCGACGAGCCCGgtactgcctc ... ttgcatgcagGGACATCTGCGTGCCCTGAGGCGAAGTTCTACTGCAAGAATGCAGGCCACA
EST: gi|211320227|gb|FL223762.1|FL223762
EST:     GCAGCTCAACGACGACTTCTGCGACTGCCCCGACGGCACCGACGAGCCCG                         GGACATCTGCCNTGCCCTGAGGCGAAGTTCTACTGCAAGAATGCAGGCCAC
genomic: GCAGCTCAACGACGACTTCTGCGACTGCCCCGACGGCACCGACGAGCCCGgtactgcctc ... ttgcatgcagGGACATCTGCG-TGCCCTGAGGCGAAGTTCTACTGCAAGAATGCAGGCCAC
EST: gi|211320225|gb|FL223760.1|FL223760
EST:     GCAGCTCAACGACGACTTCTGCGACTGCCCCGACGGCACCGACGAGCCCG                         GGACATCTGCGTGCCCTGAGGCGAAGTTCTACTGCAAGAATGCAGGCCACA
genomic: GCAGCTCAACGACGACTTCTGCGACTGCCCCGACGGCACCGACGAGCCCGgtactgcctc ... ttgcatgcagGGACATCTGCGTGCCCTGAGGCGAAGTTCTACTGCAAGAATGCAGGCCACA
EST: gi|211320223|gb|FL223758.1|FL223758
EST:     GCAGCTCAACGACGACTTCTGCGACTGCCCCGACGGCACCGACGAGCCCG                         GGACATCTGCGTGCCCTGAGGCGAAGTTCTACTGCAAGAATGCAGGCCACA
genomic: GCAGCTCAACGACGACTTCTGCGACTGCCCCGACGGCACCGACGAGCCCGgtactgcctc ... ttgcatgcagGGACATCTGCGTGCCCTGAGGCGAAGTTCTACTGCAAGAATGCAGGCCACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaactgtaggaatacagatacagttatgtagctgaattatgactcttgcatgcagGGACATCTGCGTGCCCTGAGGCGAAGTTCTACTGCAAGAATGCAGGCCACACTCCAGTCACGATCTTCTCATCACGAGTGAATGACGGCATTTGTG
                                          ctcttgc  CT-rich tract
                                tgaattat  TA-rich tract