Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATGGGCGTCAGAGCAATTACGCTGAGATGGACCATGTGAGGCAGGAACTGGTCCATGCGAATCAAATCTTTGCTCAGAATCCATCGTGGCCAGTCATTGgtaagccaagctagctgtatccatggaactcttttgtttgttgtttcttttgtttaaaaaaaacatgtttttttatatactgtttccatgcag

Basic information

species Zea mays
transcript GRMZM2G131286_T01
intron # 2
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|78086220|gb|DV514613.1|DV514613
EST:     GGTCCATGCGAATCAAATCTTTGCTCAGAATCCATCGTGGCCAGTCATTG                         CGGTCACTGGAAAAGCTATCGAGGAAACAGCTGCTGTCATCTTGGGGATCC
genomic: GGTCCATGCGAATCAAATCTTTGCTCAGAATCCATCGTGGCCAGTCATTGgtaagccaag ... ttccatgcagCGGTCACTGGAAAAGCTATCGAGGAAACAGCTGCTGTCATCTTGGGGATCC
EST: gi|78092491|gb|DV520865.1|DV520865
EST:     GGTCCATGCGAATCAAATCTTTGCTCAGAATCCATCGTGGCCAGTCATTG                         CGGTCACTGGAAAAGCTATCGAGGAAACAGCTGCTGTCATCTTGGGGATCC
genomic: GGTCCATGCGAATCAAATCTTTGCTCAGAATCCATCGTGGCCAGTCATTGgtaagccaag ... ttccatgcagCGGTCACTGGAAAAGCTATCGAGGAAACAGCTGCTGTCATCTTGGGGATCC
EST: gi|16927584|gb|BM080653.1|BM080653
EST:     GGTCCATGCGAATCAAATCTTTGCTCAGAATCCATCGTGGCCAGTCATTG                         CGGTCACTGGAAAAGCTATCGAGGAAACAGCTGCTGTCATCTTGGGGATCC
genomic: GGTCCATGCGAATCAAATCTTTGCTCAGAATCCATCGTGGCCAGTCATTGgtaagccaag ... ttccatgcagCGGTCACTGGAAAAGCTATCGAGGAAACAGCTGCTGTCATCTTGGGGATCC
EST: gi|78117839|gb|DV536226.1|DV536226
EST:     GGTCCATGCGAATCAAATCTTTGCTCAGAATCCATCGTGGCCAGTCATTG                         CGGTCACTGGAAAAGCTATCGAGGAAACAGCTGCTGTCATCTTGGGGATCC
genomic: GGTCCATGCGAATCAAATCTTTGCTCAGAATCCATCGTGGCCAGTCATTGgtaagccaag ... ttccatgcagCGGTCACTGGAAAAGCTATCGAGGAAACAGCTGCTGTCATCTTGGGGATCC
EST: gi|32859001|gb|CD998682.1|CD998682
EST:     GGTCCATGCGAATCAAATCTTTGCTCAGAATCCATCGTGGCCAGTCATTG                         CGGTCACTGGAAAAGCTATCGAGGAAACAGCTGCTGTCATCTTGGGGATCC
genomic: GGTCCATGCGAATCAAATCTTTGCTCAGAATCCATCGTGGCCAGTCATTGgtaagccaag ... ttccatgcagCGGTCACTGGAAAAGCTATCGAGGAAACAGCTGCTGTCATCTTGGGGATCC
EST: gi|71769340|gb|DR967277.1|DR967277
EST:     GGTCCATGCGAATCAAATCTTTGCTCAGAATCCATCGTGGCCAGTCATTG                         CGGTCACTGGAAAAGCTATCGAGGAAACAGCTGCTGTCATCTTGGGGATCC
genomic: GGTCCATGCGAATCAAATCTTTGCTCAGAATCCATCGTGGCCAGTCATTGgtaagccaag ... ttccatgcagCGGTCACTGGAAAAGCTATCGAGGAAACAGCTGCTGTCATCTTGGGGATCC
EST: gi|76019439|gb|DT946609.1|DT946609
EST:     GGTCCATGCGAATCAAATCTTTGCTCAGAATCCATCGTGGCCAGTCATTG                         CGGTCACTGGAAAAGCTATCGAGGAAACAGCTGCTGTCATCTTGGGGATCC
genomic: GGTCCATGCGAATCAAATCTTTGCTCAGAATCCATCGTGGCCAGTCATTGgtaagccaag ... ttccatgcagCGGTCACTGGAAAAGCTATCGAGGAAACAGCTGCTGTCATCTTGGGGATCC
EST: gi|149110472|gb|EE294144.2|EE294144
EST:     GGTCCATGCGAATCAAATCTTTGCTCAGAATCCATCGTGGCCAGTCATTG                         CGGTCACTGGAAAAGCTATCGAGGAAACAGCTGCTGTCATCTTGGGGATCC
genomic: GGTCCATGCGAATCAAATCTTTGCTCAGAATCCATCGTGGCCAGTCATTGgtaagccaag ... ttccatgcagCGGTCACTGGAAAAGCTATCGAGGAAACAGCTGCTGTCATCTTGGGGATCC
EST: gi|14208267|gb|BG841945.1|BG841945
EST:     GGTCCATGCGAATCAAATCTTTGCTCAGAATCCATCGTGGCCAGTCATTG                         CGGTCACTGGAAAAGCTATCGAGGAAACAGCTGCTGTCATCTTGGGGATCC
genomic: GGTCCATGCGAATCAAATCTTTGCTCAGAATCCATCGTGGCCAGTCATTGgtaagccaag ... ttccatgcagCGGTCACTGGAAAAGCTATCGAGGAAACAGCTGCTGTCATCTTGGGGATCC
EST: gi|14244675|gb|BG842613.2|BG842613
EST:     GGTCCATGCGAATCAAATCTTTGCTCAGAATCCATCGTGGCCAGTCATTG                         CGGTCACTGGAAAAGCTATCGAGGAAACAGCTGCTGTCATCTTGGGGATCC
genomic: GGTCCATGCGAATCAAATCTTTGCTCAGAATCCATCGTGGCCAGTCATTGgtaagccaag ... ttccatgcagCGGTCACTGGAAAAGCTATCGAGGAAACAGCTGCTGTCATCTTGGGGATCC
EST: gi|86469162|gb|DY235532.1|DY235532
EST:     GGTCCATGCGAATCAAATCTTTGCTCAGAATCCATCGTGGCCAGTCATTG                         CGGTCACTGGAAAAGCTATCGAGGAAACAGCTGCTGTCATCTTGGGGATCC
genomic: GGTCCATGCGAATCAAATCTTTGCTCAGAATCCATCGTGGCCAGTCATTGgtaagccaag ... ttccatgcagCGGTCACTGGAAAAGCTATCGAGGAAACAGCTGCTGTCATCTTGGGGATCC
EST: gi|148950040|gb|EC895572.2|EC895572
EST:     GGTCCATGCGAATCAAATCTTTGCTCAGAATCCATCGTGGCCAGTCATTG                         CGGTCACTGGAAAAGCTATCGAGGAAACAGCTGCTGTCATCTTGGGGATCC
genomic: GGTCCATGCGAATCAAATCTTTGCTCAGAATCCATCGTGGCCAGTCATTGgtaagccaag ... ttccatgcagCGGTCACTGGAAAAGCTATCGAGGAAACAGCTGCTGTCATCTTGGGGATCC
EST: gi|50322290|gb|CO517416.1|CO517416
EST:     GGTCCATGGGAATCAAATCTTTGCTCAGAATCCATCGTGGCCAGTCATTG                         CGGTCACTGGAAAAGCTATCGAGGAAACAGCTGCTGTCATCTTGGGGATCC
genomic: GGTCCATGCGAATCAAATCTTTGCTCAGAATCCATCGTGGCCAGTCATTGgtaagccaag ... ttccatgcagCGGTCACTGGAAAAGCTATCGAGGAAACAGCTGCTGTCATCTTGGGGATCC
EST: gi|78117949|gb|DV536336.1|DV536336
EST:     GGTCCATGCGAATCAAATCTTTGCTCAGAATCCATCGTGGCCAGTCATTG                         CGGTCACTGGAAAAGCTATCGAGGAAACAGCTGCTGTCATCTTGGGGATCC
genomic: GGTCCATGCGAATCAAATCTTTGCTCAGAATCCATCGTGGCCAGTCATTGgtaagccaag ... ttccatgcagCGGTCACTGGAAAAGCTATCGAGGAAACAGCTGCTGTCATCTTGGGGATCC
EST: gi|5510851|gb|AI857235.1|AI857235
EST:     GGTCCATGCGAATCAAATCTTTGCTCAGAATCCATCGTGGCCAGTCATTG                         CGGTCACTGGAAAAGCTATCGAGGAAACAGCTGCTGTCATCTTGGGGATCC
genomic: GGTCCATGCGAATCAAATCTTTGCTCAGAATCCATCGTGGCCAGTCATTGgtaagccaag ... ttccatgcagCGGTCACTGGAAAAGCTATCGAGGAAACAGCTGCTGTCATCTTGGGGATCC
EST: gi|32923157|gb|CF027969.1|CF027969
EST:     GGTCCATGCGAATCAAATCTTTGCTCAGAATCCATCGTGGCCAGTCATTG                         CGGTCACTGGAAAAGCTATCGAGGAAACAGCTGCTGTCATCTTGGGGATCC
genomic: GGTCCATGCGAATCAAATCTTTGCTCAGAATCCATCGTGGCCAGTCATTGgtaagccaag ... ttccatgcagCGGTCACTGGAAAAGCTATCGAGGAAACAGCTGCTGTCATCTTGGGGATCC

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: 44 (upstream exon), 47 (downstream exon)
Score: 11

GATGGGCGTCAGAGCAATTACGCTGAGATGGACCATGTGAGGCAGGAACTGGTCCATGCGAATCAAATCTTTGCTCAGAATCCATCGTGGCCAGTCATTGgtaagccaag ... ttccatgcagCGGTCACTGGAAAAGCTATCGAGGAAACAGCTGCTGTCATCTTGGGGATCCTCCATGACAGGAAGCAGAAGTGCTCCATGCCACGCATATCAAAACGATA


Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 233

GATGGGCGTCAGAGCAATTACGCTGAGATGGACCATGTGAGGCAGGAACTGGTCCATGCGAATCAAATCTTTGCTCAGAATCCATCGTGGCCAGTCATTGgtaagccaag ... ttccatgcagCGGTCACTGGAAAAGCTATCGAGGAAACAGCTGCTGTCATCTTGGGGATCCTCCATGACAGGAAGCAGAAGTGCTCCATGCCACGCATATCAAAACGATA


Block sizes: 47 (upstream exon), 47 (downstream exon)
Score: 33

GATGGGCGTCAGAGCAATTACGCTGAGATGGACCATGTGAGGCAGGAACTGGTCCATGCGAATCAAATCTTTGCTCAGAATCCATCGTGGCCAGTCATTGgtaagccaag ... ttccatgcagCGGTCACTGGAAAAGCTATCGAGGAAACAGCTGCTGTCATCTTGGGGATCCTCCATGACAGGAAGCAGAAGTGCTCCATGCCACGCATATCAAAACGATA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 95

GATGGGCGTCAGAGCAATTACGCTGAGATGGACCATGTGAGGCAGGAACTGGTCCATGCGAATCAAATCTTTGCTCAGAATCCATCGTGGCCAGTCATTGgtaagccaag ... ttccatgcagCGGTCACTGGAAAAGCTATCGAGGAAACAGCTGCTGTCATCTTGGGGATCCTCCATGACAGGAAGCAGAAGTGCTCCATGCCACGCATATCAAAACGATA