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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGGCCATGCTGATGTTCAAAAGAGTTGTCAGAAGTTCATGACATCTGGTATTTATTATATCTTCTTTTGTAGTGGGCTGGTGTGGTCTGCTTAGCAGCAGgtaattttgctattgaaaattaatctattaccataagcttggtgactgaggtagacatttgatttatatttaatctaattgtttctctatgtgaatgtatacatataataacttag

Basic information

species Zea mays
transcript GRMZM2G300651_T01
intron # 7
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|5668513|gb|AI932028.1|AI932028
EST:     TTTATTATATCTTCTTTTGTAGTGGGCTGGTGTGGTCTGCTTAGCAGCAG                         GTAGCACTACAACCAGCAATGTATGGATGAATTGAAGGTAGTAAAGAACGC
genomic: TTTATTATATCTTCTTTTGTAGTGGGCTGGTGTGGTCTGCTTAGCAGCAGgtaattttgc ... aataacttagGTAGCACTACAACCAGCAATGTATGGATGAATTGAAGGTAGTAAAGAACGC
EST: gi|50331719|gb|CO526845.1|CO526845
EST:     TTTATTATATCTTCTTTTGTAGTGGGCTGGTGTGGTCTGCTTAGCAGCAG                         GTAGCACTACAACCAGCAATGTATGGATGAATTGAAGGTAGTAAAGAACGC
genomic: TTTATTATATCTTCTTTTGTAGTGGGCTGGTGTGGTCTGCTTAGCAGCAGgtaattttgc ... aataacttagGTAGCACTACAACCAGCAATGTATGGATGAATTGAAGGTAGTAAAGAACGC
EST: gi|88748441|gb|DY532582.1|DY532582
EST:     TTTATTATATCTTCTTTTGTAGTGGGCTGGTGTGGTCTGCTTAGCAGCAG                         GTAGCACTACAACCAGCAATGTATGGATGAATTGAAGGTAGTAAAGAACGC
genomic: TTTATTATATCTTCTTTTGTAGTGGGCTGGTGTGGTCTGCTTAGCAGCAGgtaattttgc ... aataacttagGTAGCACTACAACCAGCAATGTATGGATGAATTGAAGGTAGTAAAGAACGC
EST: gi|76925579|gb|DV170488.1|DV170488
EST:     TTTATTATATCTTCTTTTGTAGTGGGCTGGTGTGGTCTGCTTAGCAGCAG                         GTAGCACTACAACCAGCAATGTATGGATGAATTGAAGGTAGTAAAGAACGC
genomic: TTTATTATATCTTCTTTTGTAGTGGGCTGGTGTGGTCTGCTTAGCAGCAGgtaattttgc ... aataacttagGTAGCACTACAACCAGCAATGTATGGATGAATTGAAGGTAGTAAAGAACGC

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: 45 (upstream exon), 34 (downstream exon)
Score: 23

GGGCCATGCTGATGTTCAAAAGAGTTGTCAGAAGTTCATGACATCTGGTATTTATTATATCTTCTTTTGTAGTGGGCTGGTGTGGTCTGCTTAGCAGCAGgtaattttgc ... aataacttagGTAGCACTACAACCAGCAATGTATGGATGAATTGAAGGTAGTAAAGAACGCAGACAATCTTATAGAAACTCTGCATCTTGAAACTGGCATGATTGACAAA


Block sizes: 43 (upstream exon), 45 (downstream exon)
Score: 17

GGGCCATGCTGATGTTCAAAAGAGTTGTCAGAAGTTCATGACATCTGGTATTTATTATATCTTCTTTTGTAGTGGGCTGGTGTGGTCTGCTTAGCAGCAGgtaattttgc ... aataacttagGTAGCACTACAACCAGCAATGTATGGATGAATTGAAGGTAGTAAAGAACGCAGACAATCTTATAGAAACTCTGCATCTTGAAACTGGCATGATTGACAAA


Block sizes: 40 (upstream exon), 48 (downstream exon)
Score: 8

GGGCCATGCTGATGTTCAAAAGAGTTGTCAGAAGTTCATGACATCTGGTATTTATTATATCTTCTTTTGTAGTGGGCTGGTGTGGTCTGCTTAGCAGCAGgtaattttgc ... aataacttagGTAGCACTACAACCAGCAATGTATGGATGAATTGAAGGTAGTAAAGAACGCAGACAATCTTATAGAAACTCTGCATCTTGAAACTGGCATGATTGACAAA


Block sizes: 33 (upstream exon), 28 (downstream exon)
Score: 6

GGGCCATGCTGATGTTCAAAAGAGTTGTCAGAAGTTCATGACATCTGGTATTTATTATATCTTCTTTTGTAGTGGGCTGGTGTGGTCTGCTTAGCAGCAGgtaattttgc ... aataacttagGTAGCACTACAACCAGCAATGTATGGATGAATTGAAGGTAGTAAAGAACGCAGACAATCTTATAGAAACTCTGCATCTTGAAACTGGCATGATTGACAAA