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'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   		17  
 5'  3'   		18  
 5'  3'   		19  
 5'  3'   		20  
 5'  3'   
21  
 5'  3'   		22  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAGGGTGCGACGGGTGAGACTTATACTACTGAAGGCATAGCTCTAATTCGAGTATCTGGGACATCTATCCACAACAACAAGACTCTTCAAGTCGATACGgtactaccaagctctttctactagatgtcgatggttttttctattgaaggctctttgatttataaatgtaatgtgctagtcttgtgatgtgatattttagaatagattggttgaacatttactaccagtgaaattcagttgcttatcctttgagctgatcggttattgttttatag

Basic information

species Zea mays
transcript GRMZM2G180988_T01
intron # 14
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|101386372|gb|EB815205.1|EB815205
EST:     GAGTATCTGGGACATCTATCCACAACAACAAGACTCTTCAAGTCGATACG                         GTGGCAACATCTTTAAGCTCAATGGAGTGTTTCATACTGNCA-TCTGGAAA
genomic: GAGTATCTGGGACATCTATCCACAACAACAAGACTCTTCAAGTCGATACGgtactaccaa ... tgttttatagGTGGCAACATCTTTAAGCTCAATGGAGTGTTTCATACTG-CAATCTGGAAA




















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), 46 (downstream exon)
Score: 350

AAAGGGTGCGACGGGTGAGACTTATACTACTGAAGGCATAGCTCTAATTCGAGTATCTGGGACATCTATCCACAACAACAAGACTCTTCAAGTCGATACGgtactaccaa ... tgttttatagGTGGCAACATCTTTAAGCTCAATGGAGTGTTTCATACTGCAATCTGGAAATGCTATGTTTACATGGTTTGGCAATTCTAGCACATATGAGCAACAGCAGT


Block sizes: 49 (upstream exon), 46 (downstream exon)
Score: 364

AAAGGGTGCGACGGGTGAGACTTATACTACTGAAGGCATAGCTCTAATTCGAGTATCTGGGACATCTATCCACAACAACAAGACTCTTCAAGTCGATACGgtactaccaa ... tgttttatagGTGGCAACATCTTTAAGCTCAATGGAGTGTTTCATACTGCAATCTGGAAATGCTATGTTTACATGGTTTGGCAATTCTAGCACATATGAGCAACAGCAGT


Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 201

AAAGGGTGCGACGGGTGAGACTTATACTACTGAAGGCATAGCTCTAATTCGAGTATCTGGGACATCTATCCACAACAACAAGACTCTTCAAGTCGATACGgtactaccaa ... tgttttatagGTGGCAACATCTTTAAGCTCAATGGAGTGTTTCATACTGCAATCTGGAAATGCTATGTTTACATGGTTTGGCAATTCTAGCACATATGAGCAACAGCAGT


Block sizes: 49 (upstream exon), 46 (downstream exon)
Score: 421

AAAGGGTGCGACGGGTGAGACTTATACTACTGAAGGCATAGCTCTAATTCGAGTATCTGGGACATCTATCCACAACAACAAGACTCTTCAAGTCGATACGgtactaccaa ... tgttttatagGTGGCAACATCTTTAAGCTCAATGGAGTGTTTCATACTGCAATCTGGAAATGCTATGTTTACATGGTTTGGCAATTCTAGCACATATGAGCAACAGCAGT