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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGGGTGCATCGTCAATCCCTGGTTGGACGATCAACGGCACGGTTGAACTCATTTCAGCAGGCCAACACCAGGGTGGCATGATCCTGATTGTTCCACAGGgtacccctccagagctcccccacccacccaccacacacacacacagtagttgtgcttaaacatctgtatttccgtggcag

Basic information

species Zea mays
transcript GRMZM2G324705_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|9254221|gb|BE344689.1|BE344689
EST:     CATTTCAGCAGGCCAACACCAGGGTGGCATGATCCTGATTGTTCCACAGG                         GGGACCATGCAGTAAGGCTAGGGAATGATGCTAGCGTTGGGCAGGTGGTGG
genomic: CATTTCAGCAGGCCAACACCAGGGTGGCATGATCCTGATTGTTCCACAGGgtacccctcc ... tccgtggcagGGGACCATGCAGTAAGGCTAGGGAATGATGCTAGCGTTGGGCAGGTGGTGG
EST: gi|31612031|gb|CD568653.1|CD568653
EST:     CATTTCAGCAGGCCAACACCAGGGTGGCATGATCCTGATTGTTCCACAGG                         GGGACCATGCAGTAAGGCTAGGGAATGATGCTAGCGTTGGGCAGGTGGTGG
genomic: CATTTCAGCAGGCCAACACCAGGGTGGCATGATCCTGATTGTTCCACAGGgtacccctcc ... tccgtggcagGGGACCATGCAGTAAGGCTAGGGAATGATGCTAGCGTTGGGCAGGTGGTGG
EST: gi|9953009|gb|BE639592.1|BE639592
EST:     CATTTCAGCAGGCCAACACCAGGGTGGCATGATCCTGATTGTTCCACAGG                         GGGACCATGCAGTAAGGCTAGGGAATGATGCTAGCGTTGGGCAGGTGGTGG
genomic: CATTTCAGCAGGCCAACACCAGGGTGGCATGATCCTGATTGTTCCACAGGgtacccctcc ... tccgtggcagGGGACCATGCAGTAAGGCTAGGGAATGATGCTAGCGTTGGGCAGGTGGTGG
EST: gi|22936026|gb|BU572301.1|BU572301
EST:     CATTTCAGCAGGCCAACACCAGGGTGGCATGATCCTGATTGTTCCACAGG                         GGGACCATGCAGTAAGGCTAGGGAATGATGCTAGCGTTGGGCAGGTGGTGG
genomic: CATTTCAGCAGGCCAACACCAGGGTGGCATGATCCTGATTGTTCCACAGGgtacccctcc ... tccgtggcagGGGACCATGCAGTAAGGCTAGGGAATGATGCTAGCGTTGGGCAGGTGGTGG
EST: gi|9953202|gb|BE639785.1|BE639785
EST:     CATTTCAGCAGGCCAACACCAGGGTGGCATGATCCTGATTGTTCCACAGG                         GGGACCATGCAGTAAGGCTAGGGAATGATGCTAGCGTTGGGCAGGTGGTGG
genomic: CATTTCAGCAGGCCAACACCAGGGTGGCATGATCCTGATTGTTCCACAGGgtacccctcc ... tccgtggcagGGGACCATGCAGTAAGGCTAGGGAATGATGCTAGCGTTGGGCAGGTGGTGG

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: 391

GAGGGTGCATCGTCAATCCCTGGTTGGACGATCAACGGCACGGTTGAACTCATTTCAGCAGGCCAACACCAGGGTGGCATGATCCTGATTGTTCCACAGGgtacccctcc ... tccgtggcagGGGACCATGCAGTAAGGCTAGGGAATGATGCTAGCGTTGGGCAGGTGGTGGACGTTGAGAAGGGTTCGGAGTATGCTATCACATTCAGTGCTGCCCGGAC


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 87

GAGGGTGCATCGTCAATCCCTGGTTGGACGATCAACGGCACGGTTGAACTCATTTCAGCAGGCCAACACCAGGGTGGCATGATCCTGATTGTTCCACAGGgtacccctcc ... tccgtggcagGGGACCATGCAGTAAGGCTAGGGAATGATGCTAGCGTTGGGCAGGTGGTGGACGTTGAGAAGGGTTCGGAGTATGCTATCACATTCAGTGCTGCCCGGAC


Block sizes: 46 (upstream exon), 49 (downstream exon)
Score: 36

GAGGGTGCATCGTCAATCCCTGGTTGGACGATCAACGGCACGGTTGAACTCATTTCAGCAGGCCAACACCAGGGTGGCATGATCCTGATTGTTCCACAGGgtacccctcc ... tccgtggcagGGGACCATGCAGTAAGGCTAGGGAATGATGCTAGCGTTGGGCAGGTGGTGGACGTTGAGAAGGGTTCGGAGTATGCTATCACATTCAGTGCTGCCCGGAC


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 215

GAGGGTGCATCGTCAATCCCTGGTTGGACGATCAACGGCACGGTTGAACTCATTTCAGCAGGCCAACACCAGGGTGGCATGATCCTGATTGTTCCACAGGgtacccctcc ... tccgtggcagGGGACCATGCAGTAAGGCTAGGGAATGATGCTAGCGTTGGGCAGGTGGTGGACGTTGAGAAGGGTTCGGAGTATGCTATCACATTCAGTGCTGCCCGGAC