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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGGCAAGTCTTCAGACAAGGGTGAACTGgtacatacagcctagcctcacggaaactagtatctcgtcgtgattgtttctgggatgtcttggtttctatattgtagtaataactggatcattgtttgccaaacaaactgttggaatccatttgcactttgcag

Basic information

species Zea mays
transcript GRMZM2G024887_T01
intron # 3
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|211391775|gb|FL355251.1|FL355251
EST:     GTGGCAAGTCTTCAGACAAGGGTGAACTG                         ACAAGGGCCCCCAGCAAGCTATCATCTGCNTTTTCTGGTACTCAGGATAAG
genomic: GTGGCAAGTCTTCAGACAAGGGTGAACTGgtacatacag ... cactttgcagACAAGGGCCCCCAGCAAGCTATCATCTGCGTTTTCTGGTACTCAGGATAAG
EST: gi|211455531|gb|FL349675.1|FL349675
EST:     GTGGCAAGTCTTCAGACAAGGGTGAACTG                         ACAAGGGCCCCCAGCAAGCTATCATCTGCGTTTTCTGGTACTCAGGATAAG
genomic: GTGGCAAGTCTTCAGACAAGGGTGAACTGgtacatacag ... cactttgcagACAAGGGCCCCCAGCAAGCTATCATCTGCGTTTTCTGGTACTCAGGATAAG
EST: gi|21480972|gb|BQ577655.1|BQ577655
EST:     GTGGCAAGTCTTCAGACAAGGGTGAACTG                         ACAAGGGCCCCCAGCAAGCTATCATCTGCGTTTTCTGGTACTCAGGATAAG
genomic: GTGGCAAGTCTTCAGACAAGGGTGAACTGgtacatacag ... cactttgcagACAAGGGCCCCCAGCAAGCTATCATCTGCGTTTTCTGGTACTCAGGATAAG
EST: gi|211378105|gb|FL329996.1|FL329996
EST:     GTGGCAAGTCTTCAGACAAGGGTGAACTG                         ACAAGGGCCCCCAGCAAGCTATCATCTGCGTTTTCTGGTACTCAGGATAAG
genomic: GTGGCAAGTCTTCAGACAAGGGTGAACTGgtacatacag ... cactttgcagACAAGGGCCCCCAGCAAGCTATCATCTGCGTTTTCTGGTACTCAGGATAAG
EST: gi|32869494|gb|CF009176.1|CF009176
EST:     GTGGCAAGTCTTCAGACAAGGGTGAACTG                         ACAAGGGCCCCCAGCAAGCTATCATCTGCGTTTTCTGGTACTCAGGATAAG
genomic: GTGGCAAGTCTTCAGACAAGGGTGAACTGgtacatacag ... cactttgcagACAAGGGCCCCCAGCAAGCTATCATCTGCGTTTTCTGGTACTCAGGATAAG
EST: gi|32870818|gb|CF010500.1|CF010500
EST:     GTGGCAAGTCTTCAGACAAGGGTGAACTG                         ACAAGGGCCCCCAGCAAGCTATCATCTGCGTTTTCTGGTACTCAGGATAAG
genomic: GTGGCAAGTCTTCAGACAAGGGTGAACTGgtacatacag ... cactttgcagACAAGGGCCCCCAGCAAGCTATCATCTGCGTTTTCTGGTACTCAGGATAAG
EST: gi|211331555|gb|FL357939.1|FL357939
EST:     GTGGCAAGTCTTCAGACAAGGGTGAACTG                         ACAAGGGCCCCCAGCAAGCTATCATCTGCGTTTTCTGGTACTCAGGATAAG
genomic: GTGGCAAGTCTTCAGACAAGGGTGAACTGgtacatacag ... cactttgcagACAAGGGCCCCCAGCAAGCTATCATCTGCGTTTTCTGGTACTCAGGATAAG
EST: gi|211007496|gb|FL346568.1|FL346568
EST:     GTGGCAAGTCTTCAGACAAGGGTGAACTG                         ACAAGGGCCCCCAGCAAGCTATCATCTGCGTTTTCTGGTACTCAGGATAAG
genomic: GTGGCAAGTCTTCAGACAAGGGTGAACTGgtacatacag ... cactttgcagACAAGGGCCCCCAGCAAGCTATCATCTGCGTTTTCTGGTACTCAGGATAAG
EST: gi|18661649|gb|BM501509.1|BM501509
EST:     GTGGCAAGTCTTCAGACAAGGGTGAACTG                         ACAAGGGCCCCCAGCAAGCTATCATCTGCGTTTTCTGGTACTCAGGATAAG
genomic: GTGGCAAGTCTTCAGACAAGGGTGAACTGgtacatacag ... cactttgcagACAAGGGCCCCCAGCAAGCTATCATCTGCGTTTTCTGGTACTCAGGATAAG
EST: gi|21480781|gb|BQ577464.1|BQ577464
EST:     GTGGCAAGTCTTCAGACAAGGGTGAACTG                         ACAAGGGCCCCCAGCAAGCTATCATCTGCGTTTTCTGGTACTCAGGATAAG
genomic: GTGGCAAGTCTTCAGACAAGGGTGAACTGgtacatacag ... cactttgcagACAAGGGCCCCCAGCAAGCTATCATCTGCGTTTTCTGGTACTCAGGATAAG
EST: gi|211267283|gb|FL319971.1|FL319971
EST:     GTGGCAAGTSTTCAGACAAGGGTGAACTG                         ACAAGGGCCCCCAGCAAGCTATCATCTGCGTTTTCTGGTACTCAGGATAAG
genomic: GTGGCAAGTCTTCAGACAAGGGTGAACTGgtacatacag ... cactttgcagACAAGGGCCCCCAGCAAGCTATCATCTGCGTTTTCTGGTACTCAGGATAAG
EST: gi|26455128|gb|CA826711.1|CA826711
EST:     GTGGCAAGTCTTCAGACAAGGGTGAACTG                         ACAAGGGCCCCCAGCAAGCTATCATCTGCGTTTTCTGGTACTCAGGATAAG
genomic: GTGGCAAGTCTTCAGACAAGGGTGAACTGgtacatacag ... cactttgcagACAAGGGCCCCCAGCAAGCTATCATCTGCGTTTTCTGGTACTCAGGATAAG
EST: gi|21330893|gb|BQ486274.1|BQ486274
EST:     GTGGCAAGTCTTCAGACAAGGGTGAACTG                         ACAAGGGCCCCCAGCAAGCTATCATCTGCGTTTTCTGGTACTCAGGATAAG
genomic: GTGGCAAGTCTTCAGACAAGGGTGAACTGgtacatacag ... cactttgcagACAAGGGCCCCCAGCAAGCTATCATCTGCGTTTTCTGGTACTCAGGATAAG
EST: gi|21480794|gb|BQ577477.1|BQ577477
EST:     GTGGCAAGTCTTCAGACAAGGGTGAACTG                         ACAAGGGCCCCCAGCAAGCTATCATCTGCGTTTTCTGGTACTCAGGATAAG
genomic: GTGGCAAGTCTTCAGACAAGGGTGAACTGgtacatacag ... cactttgcagACAAGGGCCCCCAGCAAGCTATCATCTGCGTTTTCTGGTACTCAGGATAAG
EST: gi|116819068|gb|EC862153.1|EC862153
EST:     GTGGCGAGTCTTCAGACAAGGGTGAACTG                         ACAAGGGCCCCCAGCAAGCTATCATCTGCGTTTTCTGGTACTCAGGATAAG
genomic: GTGGCAAGTCTTCAGACAAGGGTGAACTGgtacatacag ... cactttgcagACAAGGGCCCCCAGCAAGCTATCATCTGCGTTTTCTGGTACTCAGGATAAG
EST: gi|32868868|gb|CF008550.1|CF008550
EST:     GTGGCAAGTCTTCAGACAAGGGTGAACTG                         ACAAGGGCCCCCAGCAAGCTATCATCTGCGTTTTCTGGTACTCAGGATAAG
genomic: GTGGCAAGTCTTCAGACAAGGGTGAACTGgtacatacag ... cactttgcagACAAGGGCCCCCAGCAAGCTATCATCTGCGTTTTCTGGTACTCAGGATAAG
EST: gi|21330183|gb|BQ485564.1|BQ485564
EST:     GTGGCAAGTCTTCAGACAAGGGTGAACTG                         ACAAGGGCCCCCAGCAAGCTATCATCTGCGTTTTCTGGTACTCAGGATAAG
genomic: GTGGCAAGTCTTCAGACAAGGGTGAACTGgtacatacag ... cactttgcagACAAGGGCCCCCAGCAAGCTATCATCTGCGTTTTCTGGTACTCAGGATAAG
EST: gi|9743144|gb|BE519292.1|BE519292
EST:     GTGGCAAGTCTTCAGACAAGGGTGAACTG                         ACAAGGGCCCCCAGCAAGCTATCATCTGCGTTTTCTGGTACTCAGGATAAG
genomic: GTGGCAAGTCTTCAGACAAGGGTGAACTGgtacatacag ... cactttgcagACAAGGGCCCCCAGCAAGCTATCATCTGCGTTTTCTGGTACTCAGGATAAG
EST: gi|32869353|gb|CF009035.1|CF009035
EST:     GTGGCAAGTCTTCAGACAAGGGTGAACTG                         ACAAGGGCCCCCAGCAAGCTATCATCTGCGTTTTCTGGTACTCAGGATAAG
genomic: GTGGCAAGTCTTCAGACAAGGGTGAACTGgtacatacag ... cactttgcagACAAGGGCCCCCAGCAAGCTATCATCTGCGTTTTCTGGTACTCAGGATAAG
EST: gi|21330046|gb|BQ485441.1|BQ485441
EST:     GTGGCAAGTCTTCAGACAAGGGTGAACTG                         ACAAGGGCCCCCAGCAAGCTATCATCTGCGTTTTCTGGTACTCAGGATAAG
genomic: GTGGCAAGTCTTCAGACAAGGGTGAACTGgtacatacag ... cactttgcagACAAGGGCCCCCAGCAAGCTATCATCTGCGTTTTCTGGTACTCAGGATAAG
EST: gi|21330759|gb|BQ486140.1|BQ486140
EST:     GTGGCAAGTCTTCAGACAAGGGTGAACTG                         ACAAGGGCCCCCAGCAAGCTATCATCTGCGTTTTCTGGTACTCAGGATAAG
genomic: GTGGCAAGTCTTCAGACAAGGGTGAACTGgtacatacag ... cactttgcagACAAGGGCCCCCAGCAAGCTATCATCTGCGTTTTCTGGTACTCAGGATAAG
EST: gi|32906533|gb|CF011346.1|CF011346
EST:     GTGGCAAGTCTTCAGACAAGGGTGAACTG                         ACAAGGGCCCCCAGCAAGCTATCATCTGCGTTTTCTGGTACTCAGGATAAG
genomic: GTGGCAAGTCTTCAGACAAGGGTGAACTGgtacatacag ... cactttgcagACAAGGGCCCCCAGCAAGCTATCATCTGCGTTTTCTGGTACTCAGGATAAG
EST: gi|211130928|gb|FL366516.1|FL366516
EST:     GTGGCAAGTCTTCAGACAAGGGTGAACTG                         ACAAGGGCCCCCAGCAAGCTATCATCTGCGTTTTCTGGTACTCAGGATAAG
genomic: GTGGCAAGTCTTCAGACAAGGGTGAACTGgtacatacag ... cactttgcagACAAGGGCCCCCAGCAAGCTATCATCTGCGTTTTCTGGTACTCAGGATAAG
EST: gi|50325577|gb|CO520703.1|CO520703
EST:     GTGGCAAGTCTTCAGACAAGGGTGAACTG                         ACAAGGGCCCCCAGCAAGCTATCATCTGCGTTTTCTGGTACTCAGGATAAG
genomic: GTGGCAAGTCTTCAGACAAGGGTGAACTGgtacatacag ... cactttgcagACAAGGGCCCCCAGCAAGCTATCATCTGCGTTTTCTGGTACTCAGGATAAG
EST: gi|21330096|gb|BQ485477.1|BQ485477
EST:     GTGGCAAGTCTTCAGACAAGGGTGAACTG                         ACAAGGGCCCCCAGCAAGCTATCATCTGCGTTTTCTGGTACTCAGGATAAG
genomic: GTGGCAAGTCTTCAGACAAGGGTGAACTGgtacatacag ... cactttgcagACAAGGGCCCCCAGCAAGCTATCATCTGCGTTTTCTGGTACTCAGGATAAG
EST: gi|78109383|gb|DV527799.1|DV527799
EST:     GTGGCAAGTCTTCAGACAAGGGTGAACTG                         ACAAGGGCCCCCAGCAAGCTATCATCTGCGTTTTCTGGTACTCAGGATAAG
genomic: GTGGCAAGTCTTCAGACAAGGGTGAACTGgtacatacag ... cactttgcagACAAGGGCCCCCAGCAAGCTATCATCTGCGTTTTCTGGTACTCAGGATAAG

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: 29 (upstream exon), 26 (downstream exon)
Score: 2

GTGGCAAGTCTTCAGACAAGGGTGAACTGgtacatacag ... cactttgcagACAAGGGCCCCCAGCAAGCTATCATCTGCGTTTTCTGGTACTCAGGATAAGTGTGCAGCTTGCCAGAAAACAGTGTACCCGCTGGAGAAG


Block sizes: 45 (upstream exon), 49 (downstream exon)
Score: 303

GTGGCAAGTCTTCAGACAAGGGTGAACTGgtacatacag ... cactttgcagACAAGGGCCCCCAGCAAGCTATCATCTGCGTTTTCTGGTACTCAGGATAAGTGTGCAGCTTGCCAGAAAACAGTGTACCCGCTGGAGAAG




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