Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTCGGGTCGGCGGCGCAGGACGAGGAGCCTAGGAAGCCCGCTGCCGCGGGCGCCGGCAAGGACGCCGCGCCGGATCGCGCAGTGGCTCGCGTCGGATCAGgtacggcggctggacctggagctggatctcggacccgtcccctccctccctcgctccgctctgctctttccgctagtctaggcttgctccctgctgcttg...

Basic information

species Zea mays
transcript GRMZM2G145709_T01
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|149106246|gb|EE291941.2|EE291941
EST:     CGCCGGCAAGGACGCCGCGCCGGATCGCGCAGTGGCTCGCGTCGGATCAG                         ATAAATCAAGATCACAGGGTGGACCAGACTCTAAGAAGGATCTAATTATCC
genomic: CGCCGGCAAGGACGCCGCGCCGGATCGCGCAGTGGCTCGCGTCGGATCAGgtacggcggc ... tgttgcttagATAAATCAAGATCACAGGGTGGACCAGACTCTAAGAAGGATCTAATTATCC
EST: gi|148990757|gb|EE048618.2|EE048618
EST:     CGCCGGCAAGGACGCCGCGCCGGATCGCGCAGTGGCTCGCGTCGGATCAG                         ATAAATCAAGATCACAGGGTGGACCAGACTCTAAGAAGGATCTAATTATCC
genomic: CGCCGGCAAGGACGCCGCGCCGGATCGCGCAGTGGCTCGCGTCGGATCAGgtacggcggc ... tgttgcttagATAAATCAAGATCACAGGGTGGACCAGACTCTAAGAAGGATCTAATTATCC
EST: gi|76291614|gb|DV031182.1|DV031182
EST:     CGCCGGCAAGGACGCCGCGCCGGATCGCGCAGTGGCTCGCGTCGGATCAG                         ATAAATCAAGATCACAGGGTGGACCAGACTCTAAGAAGGATCTAATTATCC
genomic: CGCCGGCAAGGACGCCGCGCCGGATCGCGCAGTGGCTCGCGTCGGATCAGgtacggcggc ... tgttgcttagATAAATCAAGATCACAGGGTGGACCAGACTCTAAGAAGGATCTAATTATCC
EST: gi|89758504|gb|DY687662.1|DY687662
EST:     CGCCGGCAAGGACGCCGCGCCGGATCGCGCAGTGGCTCGCGTCGGATCAG                         ATAAATCAAGATCACAGGGTGGACCAGACTCTAAGAAGGATCTAATTATCC
genomic: CGCCGGCAAGGACGCCGCGCCGGATCGCGCAGTGGCTCGCGTCGGATCAGgtacggcggc ... tgttgcttagATAAATCAAGATCACAGGGTGGACCAGACTCTAAGAAGGATCTAATTATCC
EST: gi|149015777|gb|EE045476.2|EE045476
EST:     CGCCGGCAAGGACGCCGCGCCGGATCGCGCAGTGGCTCGCGTCGGATCAG                         ATAAATCAAGATCACAGGGTGGACCAGACTCTAAGAAGGATCTAATTATCC
genomic: CGCCGGCAAGGACGCCGCGCCGGATCGCGCAGTGGCTCGCGTCGGATCAGgtacggcggc ... tgttgcttagATAAATCAAGATCACAGGGTGGACCAGACTCTAAGAAGGATCTAATTATCC
EST: gi|148942135|gb|EC887138.2|EC887138
EST:     CGCCGGCAAGGACGCCGCGCCGGATCGCGCAGTGGCTCGCGTCGGATCAG                         ATAAATCAAGATCACAGGGTGGACCAGACTCTAAGAAGGATCTAATTATCC
genomic: CGCCGGCAAGGACGCCGCGCCGGATCGCGCAGTGGCTCGCGTCGGATCAGgtacggcggc ... tgttgcttagATAAATCAAGATCACAGGGTGGACCAGACTCTAAGAAGGATCTAATTATCC
EST: gi|148941217|gb|EC886109.2|EC886109
EST:     CGCCGGCAAGGACGCCGCGCCGGATCGCGCAGTGGCTCGCGTCGGATCAG                         ATAAATCAAGATCACAGGGTGGACCAGACTCTAAGAAGGATCTAATTATCC
genomic: CGCCGGCAAGGACGCCGCGCCGGATCGCGCAGTGGCTCGCGTCGGATCAGgtacggcggc ... tgttgcttagATAAATCAAGATCACAGGGTGGACCAGACTCTAAGAAGGATCTAATTATCC
EST: gi|148938285|gb|EC882589.2|EC882589
EST:     CGCCGGCAAGGACGCCGCGCCGGATCGCGCAGTGGCTCGCGTCGGATCAG                         ATAAATCAAGATCACAGGGTGGACCAGACTCTAAGAAGGATCTAATTATCC
genomic: CGCCGGCAAGGACGCCGCGCCGGATCGCGCAGTGGCTCGCGTCGGATCAGgtacggcggc ... tgttgcttagATAAATCAAGATCACAGGGTGGACCAGACTCTAAGAAGGATCTAATTATCC
EST: gi|33467045|gb|CF244094.1|CF244094
EST:     CGCCGGCAAGGACGCCGCGCCGGATCGCGCAGTGGCTCGCGTCGGATCAG                         ATAAATCAAGATCACAGGGTGGACCAGACTCTAAGAAGGATCTAATTATCC
genomic: CGCCGGCAAGGACGCCGCGCCGGATCGCGCAGTGGCTCGCGTCGGATCAGgtacggcggc ... tgttgcttagATAAATCAAGATCACAGGGTGGACCAGACTCTAAGAAGGATCTAATTATCC

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: 118

TTCGGGTCGGCGGCGCAGGACGAGGAGCCTAGGAAGCCCGCTGCCGCGGGCGCCGGCAAGGACGCCGCGCCGGATCGCGCAGTGGCTCGCGTCGGATCAGgtacggcggc ... tgttgcttagATAAATCAAGATCACAGGGTGGACCAGACTCTAAGAAGGATCTAATTATCCATAAGGATGGGAATAGTCAAAATATTGCAGCACAGACTTTCACTTTTCG


Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 168

TTCGGGTCGGCGGCGCAGGACGAGGAGCCTAGGAAGCCCGCTGCCGCGGGCGCCGGCAAGGACGCCGCGCCGGATCGCGCAGTGGCTCGCGTCGGATCAGgtacggcggc ... tgttgcttagATAAATCAAGATCACAGGGTGGACCAGACTCTAAGAAGGATCTAATTATCCATAAGGATGGGAATAGTCAAAATATTGCAGCACAGACTTTCACTTTTCG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 198

TTCGGGTCGGCGGCGCAGGACGAGGAGCCTAGGAAGCCCGCTGCCGCGGGCGCCGGCAAGGACGCCGCGCCGGATCGCGCAGTGGCTCGCGTCGGATCAGgtacggcggc ... tgttgcttagATAAATCAAGATCACAGGGTGGACCAGACTCTAAGAAGGATCTAATTATCCATAAGGATGGGAATAGTCAAAATATTGCAGCACAGACTTTCACTTTTCG


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 79

TTCGGGTCGGCGGCGCAGGACGAGGAGCCTAGGAAGCCCGCTGCCGCGGGCGCCGGCAAGGACGCCGCGCCGGATCGCGCAGTGGCTCGCGTCGGATCAGgtacggcggc ... tgttgcttagATAAATCAAGATCACAGGGTGGACCAGACTCTAAGAAGGATCTAATTATCCATAAGGATGGGAATAGTCAAAATATTGCAGCACAGACTTTCACTTTTCG