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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAGAACTTGACGGCATGGCCAAAAACTATCCTGATCGTTTCAAGATCTACTATGTCTTGAATCAGgtttacttgtatttccctataattagttggtaccctactatgcttcgctcgtctgtgtgtcttactaaacatgcatcgtttcctgcgcag

Basic information

species Zea mays
transcript GRMZM2G157263_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|166584156|gb|EG190548.1|EG190548
EST:     TTTCAAGATCTACTATGTCTTGAATCAG                         CCTCCTGAAGTCTGGGACGGTGGCGTCGGGTTCGTGTCGAAGGAAATAAGA
genomic: TTTCAAGATCTACTATGTCTTGAATCAGgtttacttgt ... tcctgcgcagCCTCCTGAAGTCTGGGACGGTGGCGTCGGGTTCGTGTCGAAGGAAAT--GA
EST: gi|16927725|gb|BM080794.1|BM080794
EST:     TGGCCAAAAACTATCCTGATCGTTTCAAGATCTACTATGTCTTGAATCAG                         CCTCCTGAAGTCTGGGACGGTGGCGTCGGGTTCGTGTCGAAGGAAATGATC
genomic: TGGCCAAAAACTATCCTGATCGTTTCAAGATCTACTATGTCTTGAATCAGgtttacttgt ... tcctgcgcagCCTCCTGAAGTCTGGGACGGTGGCGTCGGGTTCGTGTCGAAGGAAATGATC
EST: gi|6056601|gb|AW091006.1|AW091006
EST:     TGGCCAAAAACTATCCCGATCGTTTCAAGATCTACTATGTCTTGAATCAG                         CCTCCTGAAGTCTGGGACGGTGGCGTCGGGTTCGTGTCGAAGGAAATGATC
genomic: TGGCCAAAAACTATCCTGATCGTTTCAAGATCTACTATGTCTTGAATCAGgtttacttgt ... tcctgcgcagCCTCCTGAAGTCTGGGACGGTGGCGTCGGGTTCGTGTCGAAGGAAATGATC
EST: gi|33101380|gb|CF061340.1|CF061340
EST:     TGGCCAAAAACTATCCCGATCGTTTCAAGATCTACTATGTCTTGAATCAG                         CCTCCTGAAGTCTGGGACGGTGGCGTCGGGTTCGTGTCGAAGGAAACGACC
genomic: TGGCCAAAAACTATCCTGATCGTTTCAAGATCTACTATGTCTTGAATCAGgtttacttgt ... tcctgcgcagCCTCCTGAAGTCTGGGACGGTGGCGTCGGGTTCGTGTCGAAGGAAATGATC
EST: gi|6056591|gb|AW090996.1|AW090996
EST:     TGGCCAAAAACTATCCCGATCGTTTCAAGATCTACTATGTCTTGAATCAG                         CCTCCTGAAGTCTGGGACGGTGGCGTCGGGTTCGTGTCGAAGGAAATGATC
genomic: TGGCCAAAAACTATCCTGATCGTTTCAAGATCTACTATGTCTTGAATCAGgtttacttgt ... tcctgcgcagCCTCCTGAAGTCTGGGACGGTGGCGTCGGGTTCGTGTCGAAGGAAATGATC

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), 49 (downstream exon)
Score: 153

GAAGAACTTGACGGCATGGCCAAAAACTATCCTGATCGTTTCAAGATCTACTATGTCTTGAATCAGgtttacttgt ... tcctgcgcagCCTCCTGAAGTCTGGGACGGTGGCGTCGGGTTCGTGTCGAAGGAAATGATCCAGACTCATTGCCCAGCGCCTGCCGCCGACATTCAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 332

GAAGAACTTGACGGCATGGCCAAAAACTATCCTGATCGTTTCAAGATCTACTATGTCTTGAATCAGgtttacttgt ... tcctgcgcagCCTCCTGAAGTCTGGGACGGTGGCGTCGGGTTCGTGTCGAAGGAAATGATCCAGACTCATTGCCCAGCGCCTGCCGCCGACATTCAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 337

GAAGAACTTGACGGCATGGCCAAAAACTATCCTGATCGTTTCAAGATCTACTATGTCTTGAATCAGgtttacttgt ... tcctgcgcagCCTCCTGAAGTCTGGGACGGTGGCGTCGGGTTCGTGTCGAAGGAAATGATCCAGACTCATTGCCCAGCGCCTGCCGCCGACATTCAG


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 244

GAAGAACTTGACGGCATGGCCAAAAACTATCCTGATCGTTTCAAGATCTACTATGTCTTGAATCAGgtttacttgt ... tcctgcgcagCCTCCTGAAGTCTGGGACGGTGGCGTCGGGTTCGTGTCGAAGGAAATGATCCAGACTCATTGCCCAGCGCCTGCCGCCGACATTCAG