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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGCTCAAGACATTTCCCAATGCGACCAAATATCTGAAAAgtaagttcgagaaattttctggctgtgtggataagctataatgcagttgatttgacttactgatagtcattcattttgttttaag

Basic information

species Zea mays
transcript GRMZM2G152127_T01
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|91055766|gb|EB166184.1|EB166184
EST:     ATGCTCAAGACATTTCCCAATGCGACCAAATATCTGAAAA                         CACTTGTAAGCTTCGGTAAGGTTGATCCTGGGCACAAGGAAAAAGTTGAAC
genomic: ATGCTCAAGACATTTCCCAATGCGACCAAATATCTGAAAAgtaagttcga ... ttgttttaagCACTTGTAAGCTTCGGTAAGGTTGATCCTGGGCACAAGGAAAAAGTTGAAC
EST: gi|76014959|gb|DT942129.1|DT942129
EST:     ATGCTCAAGACATTTCCCAATGCGACCAAATATCTGAAAA                         CACTTGTAAGCTTCGGTAAGGTTGATCCTGGGCACAAGGAAAAAGTTGAAC
genomic: ATGCTCAAGACATTTCCCAATGCGACCAAATATCTGAAAAgtaagttcga ... ttgttttaagCACTTGTAAGCTTCGGTAAGGTTGATCCTGGGCACAAGGAAAAAGTTGAAC
EST: gi|32867927|gb|CF007609.1|CF007609
EST:     ATGCTCAAGACATTTCCCAATGCGACCAAATATCTGAAAA                         CACTTGTAAGCTTCGGTAAGGTTGATCCTGGGCACAAGGAAATAGTTGAAC
genomic: ATGCTCAAGACATTTCCCAATGCGACCAAATATCTGAAAAgtaagttcga ... ttgttttaagCACTTGTAAGCTTCGGTAAGGTTGATCCTGGGCACAAGGAAAAAGTTGAAC
EST: gi|74239653|gb|DT647567.1|DT647567
EST:     ATGCTCAAGACATTTCCCAATGCGACCAAATATCTGAAAA                         CACTTGTAAGCTTCGGTAAGGTTGATCCTGGGCACAAGGAAAAAGTTGAAC
genomic: ATGCTCAAGACATTTCCCAATGCGACCAAATATCTGAAAAgtaagttcga ... ttgttttaagCACTTGTAAGCTTCGGTAAGGTTGATCCTGGGCACAAGGAAAAAGTTGAAC
EST: gi|71426983|gb|DR808033.1|DR808033
EST:     ATGCTCAAGACATTTCCCAATGCGACCAAATATCTGAAAA                         CACTTGTAAGCTTCGGTAAGGTTGATCCTGGGCACAAGGAAAAAGTTGAAC
genomic: ATGCTCAAGACATTTCCCAATGCGACCAAATATCTGAAAAgtaagttcga ... ttgttttaagCACTTGTAAGCTTCGGTAAGGTTGATCCTGGGCACAAGGAAAAAGTTGAAC
EST: gi|148958182|gb|EC904386.2|EC904386
EST:     ATGCTCAAGACATTTCCCAATGCGACCAAATATCTGAAAA                         CACTTGTAAGCTTCGGTAAGGTTGATCCTGGGCACAAGGAAAAAGTTGAAC
genomic: ATGCTCAAGACATTTCCCAATGCGACCAAATATCTGAAAAgtaagttcga ... ttgttttaagCACTTGTAAGCTTCGGTAAGGTTGATCCTGGGCACAAGGAAAAAGTTGAAC
EST: gi|148961536|gb|EE012289.2|EE012289
EST:     ATGCTCAAGACATTTCCCAATGCGACCAAATATCTGANAA                         CACTTGTAAGCTTCGGTAAGGTTGATCCTGGGCACAAGGAAAAAGTTGAAC
genomic: ATGCTCAAGACATTTCCCAATGCGACCAAATATCTGAAAAgtaagttcga ... ttgttttaagCACTTGTAAGCTTCGGTAAGGTTGATCCTGGGCACAAGGAAAAAGTTGAAC
EST: gi|24766862|gb|CA402007.1|CA402007
EST:     ATGCTCAAGACATTTCCCAATGCGACCAAATATCTGAAAA                         CACTTGTAAGCTTCGGTAAGGGTGATCCTGGGCACAAGGAAAAAGTTGAAC
genomic: ATGCTCAAGACATTTCCCAATGCGACCAAATATCTGAAAAgtaagttcga ... ttgttttaagCACTTGTAAGCTTCGGTAAGGTTGATCCTGGGCACAAGGAAAAAGTTGAAC

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: 40 (upstream exon), 48 (downstream exon)
Score: 264

ATGCTCAAGACATTTCCCAATGCGACCAAATATCTGAAAAgtaagttcga ... ttgttttaagCACTTGTAAGCTTCGGTAAGGTTGATCCTGGGCACAAGGAAAAAGTTGAACAGAATGGCTTGTCCATCTACTCATGGGAAGAGTTTCTGCAACTG


Block sizes: 40 (upstream exon), 48 (downstream exon)
Score: 120

ATGCTCAAGACATTTCCCAATGCGACCAAATATCTGAAAAgtaagttcga ... ttgttttaagCACTTGTAAGCTTCGGTAAGGTTGATCCTGGGCACAAGGAAAAAGTTGAACAGAATGGCTTGTCCATCTACTCATGGGAAGAGTTTCTGCAACTG


Block sizes: 40 (upstream exon), 47 (downstream exon)
Score: 59

ATGCTCAAGACATTTCCCAATGCGACCAAATATCTGAAAAgtaagttcga ... ttgttttaagCACTTGTAAGCTTCGGTAAGGTTGATCCTGGGCACAAGGAAAAAGTTGAACAGAATGGCTTGTCCATCTACTCATGGGAAGAGTTTCTGCAACTG


Block sizes: 40 (upstream exon), 49 (downstream exon)
Score: 329

ATGCTCAAGACATTTCCCAATGCGACCAAATATCTGAAAAgtaagttcga ... ttgttttaagCACTTGTAAGCTTCGGTAAGGTTGATCCTGGGCACAAGGAAAAAGTTGAACAGAATGGCTTGTCCATCTACTCATGGGAAGAGTTTCTGCAACTG