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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGATGGATATTCTAGGGCCCAGCCTTTGGGATGTCTGGAATTCATTTGGGCAGTTgtaagatgacatgttctgtctgctttgtttaactcatgttattctaagcagctgactgatcaccaatatttgattcag

Basic information

species Zea mays
transcript GRMZM2G116086_T01
intron # 6
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|22935976|gb|BU572251.1|BU572251
EST:     ATATTCTAGGGCCCAGCCTTTGAGGATGTCTGGAATTCATTTGGGCAGTC                         GATGACACCTAATATGGTTGCTTGCATTGCTGTAGAGGCAATTTCTATACT
genomic: ATATTCTAGGGCCCAGCCTTTG-GGATGTCTGGAATTCATTTGGGCAGTTgtaagatgac ... tttgattcagGATGACACCTAATATGGTTGCTTGCATTGCTGTAGAGGCAATTTCTATACT
EST: gi|67028330|gb|CO457079.1|CO457079
EST:     GATATTCTAGGGCCCAGCCTTTGGGATGTCTGGAATTCATTTGGGCAGTC                         GATGACACCTAATATGGTTGCTTGCATTGCTGTAGAGGCAATTTCTATACT
genomic: GATATTCTAGGGCCCAGCCTTTGGGATGTCTGGAATTCATTTGGGCAGTTgtaagatgac ... tttgattcagGATGACACCTAATATGGTTGCTTGCATTGCTGTAGAGGCAATTTCTATACT
EST: gi|87155883|gb|DY400672.1|DY400672
EST:     GATATTCTAGGGCCCAGCCTTTGGGATGTCTGGAATTCATTTGGGCAGTC                         GATGACACCTAATATGGTTGCTTGCATTGCTGTAGAGGCAATTTCTATACT
genomic: GATATTCTAGGGCCCAGCCTTTGGGATGTCTGGAATTCATTTGGGCAGTTgtaagatgac ... tttgattcagGATGACACCTAATATGGTTGCTTGCATTGCTGTAGAGGCAATTTCTATACT
EST: gi|9731560|gb|BE510312.1|BE510312
EST:     GATATTCTAGGGCCCAGCCTTTGGGATGTCTGGAATTCATTTGGGCAGTC                         GATGACACCTAATATGGTTGCTTGCATTGCTGTAGAGGCAATTT
genomic: GATATTCTAGGGCCCAGCCTTTGGGATGTCTGGAATTCATTTGGGCAGTTgtaagatgac ... tttgattcagGATGACACCTAATATGGTTGCTTGCATTGCTGTAGAGGCAATTT
EST: gi|26559656|gb|CA831891.1|CA831891
EST:     GATATTCTAGGGCCCAGCCTTTGGGATGTCTGGAATTCATTTGGGCAGTC                         GATGACACCTAATATGGTTGCTTGCATTGCTGTAGAGGCAATTTCTATACT
genomic: GATATTCTAGGGCCCAGCCTTTGGGATGTCTGGAATTCATTTGGGCAGTTgtaagatgac ... tttgattcagGATGACACCTAATATGGTTGCTTGCATTGCTGTAGAGGCAATTTCTATACT

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: 376

GTGATGGATATTCTAGGGCCCAGCCTTTGGGATGTCTGGAATTCATTTGGGCAGTTgtaagatgac ... tttgattcagGATGACACCTAATATGGTTGCTTGCATTGCTGTAGAGGCAATTTCTATACTTGAGAAACTTCATGCAAAAGG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 309

GTGATGGATATTCTAGGGCCCAGCCTTTGGGATGTCTGGAATTCATTTGGGCAGTTgtaagatgac ... tttgattcagGATGACACCTAATATGGTTGCTTGCATTGCTGTAGAGGCAATTTCTATACTTGAGAAACTTCATGCAAAAGG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 257

GTGATGGATATTCTAGGGCCCAGCCTTTGGGATGTCTGGAATTCATTTGGGCAGTTgtaagatgac ... tttgattcagGATGACACCTAATATGGTTGCTTGCATTGCTGTAGAGGCAATTTCTATACTTGAGAAACTTCATGCAAAAGG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 583

GTGATGGATATTCTAGGGCCCAGCCTTTGGGATGTCTGGAATTCATTTGGGCAGTTgtaagatgac ... tttgattcagGATGACACCTAATATGGTTGCTTGCATTGCTGTAGAGGCAATTTCTATACTTGAGAAACTTCATGCAAAAGG