Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTCTCCCACTCGTAGGTGTTCTCCCCGTCTCCGCCCGCACTCGCTCGTCCGCGCGCAGGAAGGTTGACCTGTCGAGGGCCGGCGAACCCGGTAAGTAAGgtaaccacgctgcttgctgttctcgtggatttcctcctggttcgcacggctctcctgcttcgattcttcggattcggaactgggggaataattgtcgggg...

Basic information

species Zea mays
transcript GRMZM2G107867_T03
intron # 1
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|211427355|gb|FL101768.1|FL101768
EST:     CGCGCGCAGGAAGGTTGACCTGTCGAGGGCCGGCGAACCCGGTAAGTAAG                         AGTGAAAATGGATGGAAGTAGTAAAGGGAGTGGGCATTCTGAAGCATTAAG
genomic: CGCGCGCAGGAAGGTTGACCTGTCGAGGGCCGGCGAACCCGGTAAGTAAGgtaaccacgc ... ttaatggcagAGTGAAAATGGATGGAAGTAGTAAAGGGAGTGGGCATTCTGAAGCATTAAG
EST: gi|211427351|gb|FL101764.1|FL101764
EST:     CGCGCGCAGGAAGGTTGACCTGTCGAGGGCCGGCGAACCCGGTAAGTAAG                         AGTGAAAATGGATGGAAGTAGTAAAGGGAGTGGGCATTCTGAAGCATTAAG
genomic: CGCGCGCAGGAAGGTTGACCTGTCGAGGGCCGGCGAACCCGGTAAGTAAGgtaaccacgc ... ttaatggcagAGTGAAAATGGATGGAAGTAGTAAAGGGAGTGGGCATTCTGAAGCATTAAG
EST: gi|211427354|gb|FL101767.1|FL101767
EST:     CGCGCGCAGGAAGGTTGACCTGTCGAGGGCCGGCGAGCCCGGTAAGTAAG                         AGTGAAAATGGATGGAAGTAGTAAAGGGAGTGGGCATTCTGAAGCATTAAG
genomic: CGCGCGCAGGAAGGTTGACCTGTCGAGGGCCGGCGAACCCGGTAAGTAAGgtaaccacgc ... ttaatggcagAGTGAAAATGGATGGAAGTAGTAAAGGGAGTGGGCATTCTGAAGCATTAAG
EST: gi|211427350|gb|FL101763.1|FL101763
EST:     CGCGCGCAGGAAGGTTGACCTGTCGAGGGCCGACGAACCCGGTAAGTAAG                         AGTGAAAATGGATGGAAGTAGTAAAGGGAGTGGGCATTCTGAAGCATTAAG
genomic: CGCGCGCAGGAAGGTTGACCTGTCGAGGGCCGGCGAACCCGGTAAGTAAGgtaaccacgc ... ttaatggcagAGTGAAAATGGATGGAAGTAGTAAAGGGAGTGGGCATTCTGAAGCATTAAG
EST: gi|211427353|gb|FL101766.1|FL101766
EST:     CGCGCGCAGGAAGGTTGACCTGTCGAGGGCCGGCGAACCCGGTAAGTAAG                         AGTGAAAATGGATGGAAGTAGTAAAGGGAGTGGGCATTCTGAAGCATTAAG
genomic: CGCGCGCAGGAAGGTTGACCTGTCGAGGGCCGGCGAACCCGGTAAGTAAGgtaaccacgc ... ttaatggcagAGTGAAAATGGATGGAAGTAGTAAAGGGAGTGGGCATTCTGAAGCATTAAG
EST: gi|211210979|gb|FL114021.1|FL114021
EST:     CGCGCGCAGGAAGGTTGACCTGTCGAGGGCCGGCGAACCCGGTAAGTAAG                         AGTGAAAATGGATGGAAGTAGTAAAGGGAGTGGGCATTCTGAAGCATTAAG
genomic: CGCGCGCAGGAAGGTTGACCTGTCGAGGGCCGGCGAACCCGGTAAGTAAGgtaaccacgc ... ttaatggcagAGTGAAAATGGATGGAAGTAGTAAAGGGAGTGGGCATTCTGAAGCATTAAG
EST: gi|211427352|gb|FL101765.1|FL101765
EST:     CGCGCGCAGGAAGGTTGACCTGTCGAGGGCCGGCGAACCCGGTAAGTAAG                         AGTGAAAATGGATGGAAGTAGTAAAGGGAGTGGGCATTCTGAAGCATTAAG
genomic: CGCGCGCAGGAAGGTTGACCTGTCGAGGGCCGGCGAACCCGGTAAGTAAGgtaaccacgc ... ttaatggcagAGTGAAAATGGATGGAAGTAGTAAAGGGAGTGGGCATTCTGAAGCATTAAG

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: 48 (upstream exon), 49 (downstream exon)
Score: 49

GCTCTCCCACTCGTAGGTGTTCTCCCCGTCTCCGCCCGCACTCGCTCGTCCGCGCGCAGGAAGGTTGACCTGTCGAGGGCCGGCGAACCCGGTAAGTAAGgtaaccacgc ... ttaatggcagAGTGAAAATGGATGGAAGTAGTAAAGGGAGTGGGCATTCTGAAGCATTAAGGAACTACAACCTGGGAAGAACTTTAGGTATCGGTACATTTGGAAAAGTG


Block sizes: 48 (upstream exon), 48 (downstream exon)
Score: 55

GCTCTCCCACTCGTAGGTGTTCTCCCCGTCTCCGCCCGCACTCGCTCGTCCGCGCGCAGGAAGGTTGACCTGTCGAGGGCCGGCGAACCCGGTAAGTAAGgtaaccacgc ... ttaatggcagAGTGAAAATGGATGGAAGTAGTAAAGGGAGTGGGCATTCTGAAGCATTAAGGAACTACAACCTGGGAAGAACTTTAGGTATCGGTACATTTGGAAAAGTG


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 51

GCTCTCCCACTCGTAGGTGTTCTCCCCGTCTCCGCCCGCACTCGCTCGTCCGCGCGCAGGAAGGTTGACCTGTCGAGGGCCGGCGAACCCGGTAAGTAAGgtaaccacgc ... ttaatggcagAGTGAAAATGGATGGAAGTAGTAAAGGGAGTGGGCATTCTGAAGCATTAAGGAACTACAACCTGGGAAGAACTTTAGGTATCGGTACATTTGGAAAAGTG


Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 73

GCTCTCCCACTCGTAGGTGTTCTCCCCGTCTCCGCCCGCACTCGCTCGTCCGCGCGCAGGAAGGTTGACCTGTCGAGGGCCGGCGAACCCGGTAAGTAAGgtaaccacgc ... ttaatggcagAGTGAAAATGGATGGAAGTAGTAAAGGGAGTGGGCATTCTGAAGCATTAAGGAACTACAACCTGGGAAGAACTTTAGGTATCGGTACATTTGGAAAAGTG