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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTCTGCGGCAGCGGGGCGGCGGTGCCAGCGTGCTCCGGCTCTCTTCCCGGCGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGAgtgggtgccctgtttctcttgaatccaagttcgctgcttggggtcggaaactctgaaataggcgggtgcctggtggtgttcgagaagtaaaaagaatgctcatggatggttggttggttggcggatcgccggactgcag

Basic information

species Zea mays
transcript GRMZM5G828229_T01
intron # 1
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|211072897|gb|FL344949.1|FL344949
EST:     CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGA                         GTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
genomic: CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGAgtgggtgccc ... cggactgcagGTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
EST: gi|211467623|gb|FL333695.1|FL333695
EST:     CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGA                         GTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
genomic: CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGAgtgggtgccc ... cggactgcagGTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
EST: gi|211062178|gb|FL359484.1|FL359484
EST:     CGGACCTTCTCGGTMTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGA                         GTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
genomic: CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGAgtgggtgccc ... cggactgcagGTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
EST: gi|211399942|gb|FL360079.1|FL360079
EST:     CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGA                         GTATGTGATCGTCGGGGGAKGGAACGCTGCGGGTTACGCCGCCAGGACGTT
genomic: CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGAgtgggtgccc ... cggactgcagGTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
EST: gi|22545888|gb|BU098127.1|BU098127
EST:     GGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCCGCGA                         GTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGT
genomic: GGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACC-GCGAgtgggtgccc ... cggactgcagGTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGT
EST: gi|211154097|gb|FL335993.1|FL335993
EST:     CGGACCTTCTCGGTCTCCGCGGCGGC-GGGTTCGACAACCAGAACCGCGA                         GTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
genomic: CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGAgtgggtgccc ... cggactgcagGTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
EST: gi|149075601|gb|EE164139.2|EE164139
EST:     CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGA                         GTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
genomic: CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGAgtgggtgccc ... cggactgcagGTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
EST: gi|211149413|gb|FL321993.1|FL321993
EST:     CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGA                         GTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
genomic: CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGAgtgggtgccc ... cggactgcagGTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
EST: gi|211306680|gb|FL364491.1|FL364491
EST:     CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGA                         GTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
genomic: CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGAgtgggtgccc ... cggactgcagGTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
EST: gi|211333832|gb|FL364099.1|FL364099
EST:     CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGA                         GTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
genomic: CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGAgtgggtgccc ... cggactgcagGTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
EST: gi|211075749|gb|FL351701.1|FL351701
EST:     CGGACCTTCTCGGTCTCCGCGGHGGCCGGGTTCGACAACCAGAACCGCGA                         GTATGTGATCGTCGGGGGGATGGGAACGCTGCGGGTTACGCCGCCAGGACG
genomic: CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGAgtgggtgccc ... cggactgcagGTATGTGATCGTCGGGGG-A-GGGAACGCTGCGGGTTACGCCGCCAGGACG
EST: gi|148990927|gb|EE032350.2|EE032350
EST:     CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGA                         GTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
genomic: CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGAgtgggtgccc ... cggactgcagGTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
EST: gi|211270379|gb|FL351863.1|FL351863
EST:     CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGA                         GTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
genomic: CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGAgtgggtgccc ... cggactgcagGTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
EST: gi|21621068|gb|BQ619074.1|BQ619074
EST:     CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGA                         GTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
genomic: CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGAgtgggtgccc ... cggactgcagGTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
EST: gi|87156678|gb|DY401467.1|DY401467
EST:     CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGA                         GTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
genomic: CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGAgtgggtgccc ... cggactgcagGTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
EST: gi|148931379|gb|EC874296.2|EC874296
EST:     CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGA                         GTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
genomic: CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGAgtgggtgccc ... cggactgcagGTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
EST: gi|148931941|gb|EC875173.2|EC875173
EST:     CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGA                         GTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
genomic: CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGAgtgggtgccc ... cggactgcagGTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
EST: gi|148995891|gb|EE035131.2|EE035131
EST:     CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGA                         GTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
genomic: CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGAgtgggtgccc ... cggactgcagGTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
EST: gi|78103956|gb|DV522374.1|DV522374
EST:     CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGA                         GTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
genomic: CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGAgtgggtgccc ... cggactgcagGTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
EST: gi|211267804|gb|FL345561.1|FL345561
EST:     CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGA                         GTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
genomic: CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGAgtgggtgccc ... cggactgcagGTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
EST: gi|211157246|gb|FL334279.1|FL334279
EST:     CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGA                         GTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
genomic: CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGAgtgggtgccc ... cggactgcagGTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
EST: gi|211098259|gb|FL316228.1|FL316228
EST:     CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGA                         GTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
genomic: CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGAgtgggtgccc ... cggactgcagGTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
EST: gi|211511443|gb|FL329917.1|FL329917
EST:     CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGA                         GTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
genomic: CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGAgtgggtgccc ... cggactgcagGTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
EST: gi|211043461|gb|FL324043.1|FL324043
EST:     CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGA                         GTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
genomic: CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGAgtgggtgccc ... cggactgcagGTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
EST: gi|148957061|gb|EC903025.2|EC903025
EST:     CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGA                         GTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
genomic: CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGAgtgggtgccc ... cggactgcagGTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
EST: gi|211297775|gb|FL337585.1|FL337585
EST:     CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGA                         GTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
genomic: CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGAgtgggtgccc ... cggactgcagGTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
EST: gi|211004058|gb|FL319209.1|FL319209
EST:     CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGA                         GTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
genomic: CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGAgtgggtgccc ... cggactgcagGTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
EST: gi|88750901|gb|DY535042.1|DY535042
EST:     GGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAAAACCGCGA                         GTATGTGATCGTCGGGGGAGGAAACGCTGCGGGTTACCCCGCCAGGACGTT
genomic: CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGAgtgggtgccc ... cggactgcagGTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
EST: gi|211472696|gb|FL333736.1|FL333736
EST:     CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGA                         GTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAG-ACGTT
genomic: CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGAgtgggtgccc ... cggactgcagGTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
EST: gi|26558495|gb|CA830730.1|CA830730
EST:     CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGA                         GTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
genomic: CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGAgtgggtgccc ... cggactgcagGTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
EST: gi|6587631|gb|AW244949.1|AW244949
EST:     CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGA                         GTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT
genomic: CGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGAgtgggtgccc ... cggactgcagGTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTT

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 4 RNA-Seq libraries.


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 216

CTCTGCGGCAGCGGGGCGGCGGTGCCAGCGTGCTCCGGCTCTCTTCCCGGCGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGAgtgggtgccc ... cggactgcagGTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTTCGTCGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAG


Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 148

CTCTGCGGCAGCGGGGCGGCGGTGCCAGCGTGCTCCGGCTCTCTTCCCGGCGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGAgtgggtgccc ... cggactgcagGTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTTCGTCGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAG


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 74

CTCTGCGGCAGCGGGGCGGCGGTGCCAGCGTGCTCCGGCTCTCTTCCCGGCGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGAgtgggtgccc ... cggactgcagGTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTTCGTCGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAG


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 142

CTCTGCGGCAGCGGGGCGGCGGTGCCAGCGTGCTCCGGCTCTCTTCCCGGCGGACCTTCTCGGTCTCCGCGGCGGCCGGGTTCGACAACCAGAACCGCGAgtgggtgccc ... cggactgcagGTATGTGATCGTCGGGGGAGGGAACGCTGCGGGTTACGCCGCCAGGACGTTCGTCGAGCATGGCATGGCTGACGGCCGCCTTTGCATCGTCTCCAAGGAG