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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTCTTGGGAATAAGTATCAACATAAGTTGCTCGAAATAATTGACGAGTGgttagtattttttttgtgtgccgtacatttatgttgtttattacttccattctaatttctgcttaatgcatgcatgcag

Basic information

species Zea mays
transcript GRMZM2G174990_T03
intron # 8
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|211480222|gb|FK977827.1|FK977827
EST:     GTTCTTGGGAATAAGTATCAACATAAGTTGCTCGAAATAATTGACGAGTG                         TGAACTGCCAGAATTTCTTGGTGGCAAATGCAATTGTATTGAAGGTTGCCA
genomic: GTTCTTGGGAATAAGTATCAACATAAGTTGCTCGAAATAATTGACGAGTGgttagtattt ... atgcatgcagTGAACTGCCAGAATTTCTTGGTGGCAAATGCAATTGTATTGAAGGTTGCCA
EST: gi|31353713|gb|CD438070.1|CD438070
EST:     GTTCTTGGGAATAAGTATCAACATAAGTTGCTCGAAATAATTGACGAGTG                         TGAACTGCCAGAATTTCTTGGTGGCAAATGCAATTGTATTGAAGGTTGCCA
genomic: GTTCTTGGGAATAAGTATCAACATAAGTTGCTCGAAATAATTGACGAGTGgttagtattt ... atgcatgcagTGAACTGCCAGAATTTCTTGGTGGCAAATGCAATTGTATTGAAGGTTGCCA
EST: gi|18660585|gb|BM500941.1|BM500941
EST:     GTTGCTGGAAATAATTGACGAGTG                         TGAACTGCCAGAATTTCTTGGTGGCAAATGCAATTGTATTGAAGGTTGCCA
genomic: GTTGCTCGAAATAATTGACGAGTGgttagtattt ... atgcatgcagTGAACTGCCAGAATTTCTTGGTGGCAAATGCAATTGTATTGAAGGTTGCCA
EST: gi|211480218|gb|FK977823.1|FK977823
EST:     GTTCTTGGGAATAAGTATCAACATAAGTTGCTCGAAATAATTGACGAGTG                         TGAACTGCCAGAATTTCTTGGTGGCAAATGCAATTGTATTGAAGGTTGCCA
genomic: GTTCTTGGGAATAAGTATCAACATAAGTTGCTCGAAATAATTGACGAGTGgttagtattt ... atgcatgcagTGAACTGCCAGAATTTCTTGGTGGCAAATGCAATTGTATTGAAGGTTGCCA
EST: gi|211485991|gb|FK977851.1|FK977851
EST:     GTTCTTGGGAATAAGTATCAACATAAGTTGCTCGAAATAATTGACGAGTG                         TGAACTGCCAGAATTTCTTGGTGGCAAATGCAATTGTATTGAAGGTTGCCA
genomic: GTTCTTGGGAATAAGTATCAACATAAGTTGCTCGAAATAATTGACGAGTGgttagtattt ... atgcatgcagTGAACTGCCAGAATTTCTTGGTGGCAAATGCAATTGTATTGAAGGTTGCCA

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: 47 (upstream exon), 49 (downstream exon)
Score: 101

GTTCTTGGGAATAAGTATCAACATAAGTTGCTCGAAATAATTGACGAGTGgttagtattt ... atgcatgcagTGAACTGCCAGAATTTCTTGGTGGCAAATGCAATTGTATTGAAGGTTGCCAAAGATCTGACAAAGGTCCTTGGAAGGATCCCAACATAATAAAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 403

GTTCTTGGGAATAAGTATCAACATAAGTTGCTCGAAATAATTGACGAGTGgttagtattt ... atgcatgcagTGAACTGCCAGAATTTCTTGGTGGCAAATGCAATTGTATTGAAGGTTGCCAAAGATCTGACAAAGGTCCTTGGAAGGATCCCAACATAATAAAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 678

GTTCTTGGGAATAAGTATCAACATAAGTTGCTCGAAATAATTGACGAGTGgttagtattt ... atgcatgcagTGAACTGCCAGAATTTCTTGGTGGCAAATGCAATTGTATTGAAGGTTGCCAAAGATCTGACAAAGGTCCTTGGAAGGATCCCAACATAATAAAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 276

GTTCTTGGGAATAAGTATCAACATAAGTTGCTCGAAATAATTGACGAGTGgttagtattt ... atgcatgcagTGAACTGCCAGAATTTCTTGGTGGCAAATGCAATTGTATTGAAGGTTGCCAAAGATCTGACAAAGGTCCTTGGAAGGATCCCAACATAATAAAG