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'   		11  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTCTAAAGCAGTCTGCTGTCGCTTACTTGAACGGATCTGATTATGCATCTCAGgtagatgattgtgatgattgtaccttcatacaattatgaaacttagttgatacacttggtaggacaaattatgtccagtatatgcaagattaattgttaagatggacatctattttttag

Basic information

species Zea mays
transcript GRMZM2G011575_T02
intron # 4
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|91048056|gb|EB158474.1|EB158474
EST:     TAAAGCAGTCTGCTGTCGCTTACTTGAACGGATCTGATTATGCATCTCAG                         GTCTTTTTGCCAAGAGAACAGCTTGAGAAACAATGTTCCTATGATGCTGCA
genomic: TAAAGCAGTCTGCTGTCGCTTACTTGAACGGATCTGATTATGCATCTCAGgtagatgatt ... tattttttagGTCTTTTTGCCAAGAGAACAGCTTGAGAAACAATGTTCCTATGATGCTGCA
EST: gi|71307834|gb|DR790138.1|DR790138
EST:     TAAAGCAGTCTGCTGTCGCTTACTTGAACGGATCTGATTATGCATCTCAG                         GTCTTTTTGCCAAGAGAACAGCTTGAGAAACAATGTTCCTATGATGCTGCA
genomic: TAAAGCAGTCTGCTGTCGCTTACTTGAACGGATCTGATTATGCATCTCAGgtagatgatt ... tattttttagGTCTTTTTGCCAAGAGAACAGCTTGAGAAACAATGTTCCTATGATGCTGCA
EST: gi|29167999|gb|CB411259.1|CB411259
EST:     TAAAGCAGTCTGCTGTCGCTTACTTGAACGGATCCGATTATGCATCTCAG                         GTCTTTTTGCCAAGAGAACAGCTTGAGAAACAATGTTCCTATGATGCTGCA
genomic: TAAAGCAGTCTGCTGTCGCTTACTTGAACGGATCTGATTATGCATCTCAGgtagatgatt ... tattttttagGTCTTTTTGCCAAGAGAACAGCTTGAGAAACAATGTTCCTATGATGCTGCA
EST: gi|31358140|gb|CD442497.1|CD442497
EST:     TAAAGCAGTCTGCTGTCGCTTACTTGAACGGATCTGATTATGCATCTCAG                         GTCTTTTTGCCAAGAGAACAACTTGAGAAACAATGTTCCTATGATGCTGCA
genomic: TAAAGCAGTCTGCTGTCGCTTACTTGAACGGATCTGATTATGCATCTCAGgtagatgatt ... tattttttagGTCTTTTTGCCAAGAGAACAGCTTGAGAAACAATGTTCCTATGATGCTGCA
EST: gi|148933022|gb|EE285909.2|EE285909
EST:     TAAAGCAGTCTGCTGTCGCTTACTTGAACGGATCTGATTATGCATCTCAG                         GTCTTTTTGCCAAGAGAACAGCTTGAGAAACAATGTTCCTATGATGCTGCA
genomic: TAAAGCAGTCTGCTGTCGCTTACTTGAACGGATCTGATTATGCATCTCAGgtagatgatt ... tattttttagGTCTTTTTGCCAAGAGAACAGCTTGAGAAACAATGTTCCTATGATGCTGCA

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), 47 (downstream exon)
Score: 57

GTTCTAAAGCAGTCTGCTGTCGCTTACTTGAACGGATCTGATTATGCATCTCAGgtagatgatt ... tattttttagGTCTTTTTGCCAAGAGAACAGCTTGAGAAACAATGTTCCTATGATGCTGCACGACCTCTGCCCTTCTCTAGTAATTTCAGAGATGCCACTGTCAGAAGTA


Block sizes: 48 (upstream exon), 44 (downstream exon)
Score: 30

GTTCTAAAGCAGTCTGCTGTCGCTTACTTGAACGGATCTGATTATGCATCTCAGgtagatgatt ... tattttttagGTCTTTTTGCCAAGAGAACAGCTTGAGAAACAATGTTCCTATGATGCTGCACGACCTCTGCCCTTCTCTAGTAATTTCAGAGATGCCACTGTCAGAAGTA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 32

GTTCTAAAGCAGTCTGCTGTCGCTTACTTGAACGGATCTGATTATGCATCTCAGgtagatgatt ... tattttttagGTCTTTTTGCCAAGAGAACAGCTTGAGAAACAATGTTCCTATGATGCTGCACGACCTCTGCCCTTCTCTAGTAATTTCAGAGATGCCACTGTCAGAAGTA


Block sizes: 43 (upstream exon), 49 (downstream exon)
Score: 66

GTTCTAAAGCAGTCTGCTGTCGCTTACTTGAACGGATCTGATTATGCATCTCAGgtagatgatt ... tattttttagGTCTTTTTGCCAAGAGAACAGCTTGAGAAACAATGTTCCTATGATGCTGCACGACCTCTGCCCTTCTCTAGTAATTTCAGAGATGCCACTGTCAGAAGTA