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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAATGATGTTGTCATTGGTTCCCATATAAGGGGGGCCCGTCTTCGATCATCAAGTGCAAGTTTTGAGGAAGTAGATCTCTTGCTTCCAGGCACCGCAAGgcaagctatactgtctttatatggatgttaaatgccagtgcagtgtaaggctgactagaaattatcaattttatcag

Basic information

species Zea mays
transcript GRMZM2G076392_T02
intron # 7
splice site 5'
intron type U2

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|211161536|gb|FL067463.1|FL067463
EST:     TCAAGTGCAAGTTTTGAGGAAGTAGATCTCTTGCTTCCAGGCACCGCAAG                         GCTCCAGATCCAACTTGGGGTTAACATGCCGGCCAGGGCAAAACAGACGGT
genomic: TCAAGTGCAAGTTTTGAGGAAGTAGATCTCTTGCTTCCAGGCACCGCAAGgcaagctata ... attttatcagGCTCCAGATCCAACTTGGGGTTAACATGCCGGCCAGGGCAAAACAGACGGT
EST: gi|37374722|gb|CF623746.1|CF623746
EST:     TCAAGTGCAAGTTTTGAGGAAGTAGATCTCTTGCTTCCAGGCACCGCAAG                         GCTCCAGATCCAACTTGGGGTTAACATGCCGGCCAGGGCAAAACAGACGGT
genomic: TCAAGTGCAAGTTTTGAGGAAGTAGATCTCTTGCTTCCAGGCACCGCAAGgcaagctata ... attttatcagGCTCCAGATCCAACTTGGGGTTAACATGCCGGCCAGGGCAAAACAGACGGT
EST: gi|78545150|gb|DV622648.1|DV622648
EST:     TCAAGTGCAAGTTTTGAGGAAGTAGATCTCTTGCTTCCAGGCACCGCAAG                         GCTCCAGATCCAACTTGGGGTTAACATGCCGGCCAGGGCAAAACAGACGGT
genomic: TCAAGTGCAAGTTTTGAGGAAGTAGATCTCTTGCTTCCAGGCACCGCAAGgcaagctata ... attttatcagGCTCCAGATCCAACTTGGGGTTAACATGCCGGCCAGGGCAAAACAGACGGT
EST: gi|211161533|gb|FL067460.1|FL067460
EST:     TCAAGTGCAAGTTTTGAGGAAGTAGATCTCTTGCTTCCAGGCACCGCAAG                         GCTCCAGATCCAACTTGGGGTTAACATGCCGGCCAGGGCAAAACAGACGGT
genomic: TCAAGTGCAAGTTTTGAGGAAGTAGATCTCTTGCTTCCAGGCACCGCAAGgcaagctata ... attttatcagGCTCCAGATCCAACTTGGGGTTAACATGCCGGCCAGGGCAAAACAGACGGT
EST: gi|24763801|gb|CA398972.1|CA398972
EST:     TCAAGTGCAAGTTTTGAGGAAGTAGATCTCTTGCTTCCAGGCACCGCAAG                         GCTCCAGATCCAACTTGGGGTTAACATGCCGGCCAGGGCAAAACAGACGGT
genomic: TCAAGTGCAAGTTTTGAGGAAGTAGATCTCTTGCTTCCAGGCACCGCAAGgcaagctata ... attttatcagGCTCCAGATCCAACTTGGGGTTAACATGCCGGCCAGGGCAAAACAGACGGT
EST: gi|6012610|gb|AW062047.1|AW062047
EST:     TCAAGTGCAAGTTTTGAGGAAGTAGATCTCTTGCTTCCAGGCACCGCAAG                         GCTCCAGATCCAACTTGGGGTTAACATGCCGGCCAGGGCAAAACAGACGGT
genomic: TCAAGTGCAAGTTTTGAGGAAGTAGATCTCTTGCTTCCAGGCACCGCAAGgcaagctata ... attttatcagGCTCCAGATCCAACTTGGGGTTAACATGCCGGCCAGGGCAAAACAGACGGT
EST: gi|83278673|gb|DV942681.1|DV942681
EST:     TCAAGTGCAAGTTTTGAGGAAGTAGATCTCTTGCTTCCAGGCACCGCAAG                         GCTCCAGATCCAACTTGGGGTTAACATGCCGGCCAGGGCAAAACAGACGGT
genomic: TCAAGTGCAAGTTTTGAGGAAGTAGATCTCTTGCTTCCAGGCACCGCAAGgcaagctata ... attttatcagGCTCCAGATCCAACTTGGGGTTAACATGCCGGCCAGGGCAAAACAGACGGT
EST: gi|16925439|gb|BM078507.1|BM078507
EST:     TCAAGTGCAAGTTTTGAGGAAGTAGATCTCTTGCTTCCAGGCACCGCAAG                         GCTCCAGATCCAACTTGGGGTTAACATGCCGGCCAGGGCAAAACAGACGGT
genomic: TCAAGTGCAAGTTTTGAGGAAGTAGATCTCTTGCTTCCAGGCACCGCAAGgcaagctata ... attttatcagGCTCCAGATCCAACTTGGGGTTAACATGCCGGCCAGGGCAAAACAGACGGT
EST: gi|78545097|gb|DV622595.1|DV622595
EST:     TCAAGTGCAAGTTTTGAGGAAGTAGATCTCTTGCTTCCAGGCACCGCAAG                         GCTCCAGATCCAACTTGGGGTTAACATGCCGGCCAGGGCAAAACAGACGGT
genomic: TCAAGTGCAAGTTTTGAGGAAGTAGATCTCTTGCTTCCAGGCACCGCAAGgcaagctata ... attttatcagGCTCCAGATCCAACTTGGGGTTAACATGCCGGCCAGGGCAAAACAGACGGT
EST: gi|37374724|gb|CF623747.1|CF623747
EST:     TCAAGTGCAAGTTTTGAGGAAGTAGATCTCTTGCTTCCAGGCACCGCAAG                         GCTCCAGATCCAACTTGGGGTTAACATGCCGGCCAGGGCAAAACAGACGGT
genomic: TCAAGTGCAAGTTTTGAGGAAGTAGATCTCTTGCTTCCAGGCACCGCAAGgcaagctata ... attttatcagGCTCCAGATCCAACTTGGGGTTAACATGCCGGCCAGGGCAAAACAGACGGT

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 2 RNA-Seq libraries.


Block sizes: 19 (upstream exon), 48 (downstream exon)
Score: 6

AAAATGATGTTGTCATTGGTTCCCATATAAGGGGGGCCCGTCTTCGATCATCAAGTGCAAGTTTTGAGGAAGTAGATCTCTTGCTTCCAGGCACCGCAAGgcaagctata ... attttatcagGCTCCAGATCCAACTTGGGGTTAACATGCCGGCCAGGGCAAAACAGACGGTTGAGGATGATGACAGTGAAGATAATGGTCAGGTGTATGATGTGGTGCTG


Block sizes: 47 (upstream exon), 34 (downstream exon)
Score: 4

AAAATGATGTTGTCATTGGTTCCCATATAAGGGGGGCCCGTCTTCGATCATCAAGTGCAAGTTTTGAGGAAGTAGATCTCTTGCTTCCAGGCACCGCAAGgcaagctata ... attttatcagGCTCCAGATCCAACTTGGGGTTAACATGCCGGCCAGGGCAAAACAGACGGTTGAGGATGATGACAGTGAAGATAATGGTCAGGTGTATGATGTGGTGCTG




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