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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTGTCGTTCAAGCTTCAACATTGATCACTTATTGGTTTTCAGGAAGTCTTTCTGAATGTCAGTTGCTATAGGATTATTTGAACAACATCTCTTCCAATGgtaaaagcactaatagtagcgcttctatttttctcttcttcactactggtagtacaaaacatgaaaatgctttctgtgcag

Basic information

species Zea mays
transcript GRMZM5G884316_T02
intron # 4
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|74232779|gb|DT640693.1|DT640693
EST:     TTCTGAATGTCAGTTGCTATAGGATTATTTGAACAACATCTCTTCCAATG                         GTGATATATTTTATGATGCTCAGAATGATTTCTTGACACCTGAATGGGACA
genomic: TTCTGAATGTCAGTTGCTATAGGATTATTTGAACAACATCTCTTCCAATGgtaaaagcac ... ttctgtgcagGTGATATATTTTATGATGCTCAGAATGATTTCTTGACACCTGAATGGGACA
EST: gi|148971069|gb|EE021910.2|EE021910
EST:     TTCTGAATGTCAGTTGCTATAGGATTATTTGAACAACATCTCTTCCAATG                         GTGATATATTTTATGATGCTCAGAATGATTTCTTGACACCTGAATGGGACA
genomic: TTCTGAATGTCAGTTGCTATAGGATTATTTGAACAACATCTCTTCCAATGgtaaaagcac ... ttctgtgcagGTGATATATTTTATGATGCTCAGAATGATTTCTTGACACCTGAATGGGACA
EST: gi|76021371|gb|DT948541.1|DT948541
EST:     TTCTGAATGTCAGTTGCTATAGGATTATTTGAACAACATCTCTTCCAATG                         GTGATATATTTTATGATGCTCAGAATGATTTCTTGACACCTGAATGGGACA
genomic: TTCTGAATGTCAGTTGCTATAGGATTATTTGAACAACATCTCTTCCAATGgtaaaagcac ... ttctgtgcagGTGATATATTTTATGATGCTCAGAATGATTTCTTGACACCTGAATGGGACA
EST: gi|78120001|gb|DV538385.1|DV538385
EST:     TTCTGAATGTCAGTTGCTATAGGATTATTTGAACAACATCTCTTCCAATG                         GTGATATATTTTATGATGCTCAGAATGATTTCTTGACACCTGAATGGGACA
genomic: TTCTGAATGTCAGTTGCTATAGGATTATTTGAACAACATCTCTTCCAATGgtaaaagcac ... ttctgtgcagGTGATATATTTTATGATGCTCAGAATGATTTCTTGACACCTGAATGGGACA
EST: gi|86471421|gb|DY237791.1|DY237791
EST:     TTCTGAATGTCAGTTGCTATAGGATTATTTGAACAACATCTCTTCCAATG                         GTGATATATTTTATGATGCTCAGAATGATTTCTTGACACCTGAATGGGACA
genomic: TTCTGAATGTCAGTTGCTATAGGATTATTTGAACAACATCTCTTCCAATGgtaaaagcac ... ttctgtgcagGTGATATATTTTATGATGCTCAGAATGATTTCTTGACACCTGAATGGGACA
EST: gi|71431443|gb|DR812493.1|DR812493
EST:     TTCTGAATGTCAGTTGCTATAGGATTATTTGAACAACATCTCTTCCAATG                         GTGATATATTTTATGATGCTCAGAATGATTTCTTGACACCTGAATGGGACA
genomic: TTCTGAATGTCAGTTGCTATAGGATTATTTGAACAACATCTCTTCCAATGgtaaaagcac ... ttctgtgcagGTGATATATTTTATGATGCTCAGAATGATTTCTTGACACCTGAATGGGACA
EST: gi|89250255|gb|DY622041.1|DY622041
EST:     TTCTGAATGTCAGTTGCTATAGGATTATTTGAACAACATCTCTTCCAATG                         GTGATATATTTTATGATGCTCAGAATGATTTCTTGACACCTGAATGGGACA
genomic: TTCTGAATGTCAGTTGCTATAGGATTATTTGAACAACATCTCTTCCAATGgtaaaagcac ... ttctgtgcagGTGATATATTTTATGATGCTCAGAATGATTTCTTGACACCTGAATGGGACA
EST: gi|76918441|gb|DV167296.1|DV167296
EST:     TTTTGAATGTCAGTTGCTATAGGATTATTTGAACAACATCTCTTCCAATG                         GTGATATATTTTATGATGCTCAGAATGATTTCTTGACACCTGAATGGGACA
genomic: TTCTGAATGTCAGTTGCTATAGGATTATTTGAACAACATCTCTTCCAATGgtaaaagcac ... ttctgtgcagGTGATATATTTTATGATGCTCAGAATGATTTCTTGACACCTGAATGGGACA

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: 43 (upstream exon), 27 (downstream exon)
Score: 15

ATTGTCGTTCAAGCTTCAACATTGATCACTTATTGGTTTTCAGGAAGTCTTTCTGAATGTCAGTTGCTATAGGATTATTTGAACAACATCTCTTCCAATGgtaaaagcac ... ttctgtgcagGTGATATATTTTATGATGCTCAGAATGATTTCTTGACACCTGAATGGGACAGTGAGAATTTACAAGTGGTACTGATGATTCTATCCATGTTCAAATCATC


Block sizes: 35 (upstream exon), 15 (downstream exon)
Score: 1

ATTGTCGTTCAAGCTTCAACATTGATCACTTATTGGTTTTCAGGAAGTCTTTCTGAATGTCAGTTGCTATAGGATTATTTGAACAACATCTCTTCCAATGgtaaaagcac ... ttctgtgcagGTGATATATTTTATGATGCTCAGAATGATTTCTTGACACCTGAATGGGACAGTGAGAATTTACAAGTGGTACTGATGATTCTATCCATGTTCAAATCATC




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