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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTTTATCTTCCAATAGGATACAATGGACGAGCATCATCTATAGTTGTGTCTGGAACCGATGTAATTAGGCCCAGgtgtgcatcccaaaatacttgcataaaagcatcaactgttatttcaagcttgaaacctgtttttgtgctgtctgttgctcttttgtttaattatttctctgttttttag

Basic information

species Zea mays
transcript GRMZM2G093359_T01
intron # 5
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|149090120|gb|EE179418.2|EE179418
EST:     GGACGAGCATCATCTATAGTTGTGTCTGGAACCGATGTAATTAGGCCCAG                         AGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCTCA
genomic: GGACGAGCATCATCTATAGTTGTGTCTGGAACCGATGTAATTAGGCCCAGgtgtgcatcc ... tgttttttagAGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCTCA
EST: gi|149089319|gb|EE178541.2|EE178541
EST:     GGACGAGCATCATCTATAGTTGTGTCTGGAACCGATGTAATTAGGCCCAG                         AGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCTCA
genomic: GGACGAGCATCATCTATAGTTGTGTCTGGAACCGATGTAATTAGGCCCAGgtgtgcatcc ... tgttttttagAGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCTCA
EST: gi|149008951|gb|EE041170.2|EE041170
EST:     GGACGAGCATCATCTATAGTTGTGTCTGGAACCGATGTAATTAGGCCCAG                         AGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCTCA
genomic: GGACGAGCATCATCTATAGTTGTGTCTGGAACCGATGTAATTAGGCCCAGgtgtgcatcc ... tgttttttagAGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCTCA
EST: gi|60401451|gb|DN234258.1|DN234258
EST:     GGACGAGCATCATCTATAGTTGTGTCTGGAACCGATGTAATTAGGCCCAG                         AGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCTCA
genomic: GGACGAGCATCATCTATAGTTGTGTCTGGAACCGATGTAATTAGGCCCAGgtgtgcatcc ... tgttttttagAGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCTCA
EST: gi|12046552|gb|BF728691.1|BF728691
EST:     GGACGAGCATCATCTATAGTTGTGTCTGGAACCGATGTAATTAGGCCCAG                         AGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCTCA
genomic: GGACGAGCATCATCTATAGTTGTGTCTGGAACCGATGTAATTAGGCCCAGgtgtgcatcc ... tgttttttagAGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCTCA
EST: gi|19058676|gb|BM737343.1|BM737343
EST:     GGACGAGCATCATCTATAGTTGTGTCTGGAACCGATGTAATTAGGCCCAG                         AGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCTCA
genomic: GGACGAGCATCATCTATAGTTGTGTCTGGAACCGATGTAATTAGGCCCAGgtgtgcatcc ... tgttttttagAGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCTCA
EST: gi|149094603|gb|EE180134.2|EE180134
EST:     GGACGAGCATCATCTATAGTTGTGTCTGGAACCGATGTAATTAGGCCCAG                         AGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCTCA
genomic: GGACGAGCATCATCTATAGTTGTGTCTGGAACCGATGTAATTAGGCCCAGgtgtgcatcc ... tgttttttagAGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCTCA
EST: gi|101398071|gb|EB820910.1|EB820910
EST:     GGACGAGCATCATCTATAGTTGTGTCTGGAACCGATGTAATTAGGCCCAG                         AGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCTCA
genomic: GGACGAGCATCATCTATAGTTGTGTCTGGAACCGATGTAATTAGGCCCAGgtgtgcatcc ... tgttttttagAGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCTCA
EST: gi|31350712|gb|CD435069.1|CD435069
EST:     GGACGAGCATCATCTATAGTTGTGTCTGGAACCGATGTAATTAGGCCCAG                         AGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCTCA
genomic: GGACGAGCATCATCTATAGTTGTGTCTGGAACCGATGTAATTAGGCCCAGgtgtgcatcc ... tgttttttagAGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCTCA
EST: gi|31355275|gb|CD439632.1|CD439632
EST:     GGACGAGCATCATCTATAGTTGTGTCTGGAACCGATGTAATTAGGCCCAG                         AGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCTCA
genomic: GGACGAGCATCATCTATAGTTGTGTCTGGAACCGATGTAATTAGGCCCAGgtgtgcatcc ... tgttttttagAGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCTCA
EST: gi|71424525|gb|DR806344.1|DR806344
EST:     GGACGAGCATCATCTATAGTTGTGTCTGGAACCGATGTAATTAGGCCCAG                         AGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCTCA
genomic: GGACGAGCATCATCTATAGTTGTGTCTGGAACCGATGTAATTAGGCCCAGgtgtgcatcc ... tgttttttagAGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCTCA
EST: gi|149106513|gb|EE188405.2|EE188405
EST:     GGACGAGCATCATCTATAGTTGTGTCTGGAACCGATGTAATTAGGCCCAG                         AGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCTCA
genomic: GGACGAGCATCATCTATAGTTGTGTCTGGAACCGATGTAATTAGGCCCAGgtgtgcatcc ... tgttttttagAGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCTCA
EST: gi|89253028|gb|DY624814.1|DY624814
EST:     GGACGAGCATCATCTATAGTTGTGTCTGGAACCGATGTAATTAGGCCCAG                         AGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGCCCCTCTCA
genomic: GGACGAGCATCATCTATAGTTGTGTCTGGAACCGATGTAATTAGGCCCAGgtgtgcatcc ... tgttttttagAGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCTCA

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), 48 (downstream exon)
Score: 137

GTTTTATCTTCCAATAGGATACAATGGACGAGCATCATCTATAGTTGTGTCTGGAACCGATGTAATTAGGCCCAGgtgtgcatcc ... tgttttttagAGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCTCAGAAGCTTGATTTTGAGCTTGAGATG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 150

GTTTTATCTTCCAATAGGATACAATGGACGAGCATCATCTATAGTTGTGTCTGGAACCGATGTAATTAGGCCCAGgtgtgcatcc ... tgttttttagAGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCTCAGAAGCTTGATTTTGAGCTTGAGATG


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 109

GTTTTATCTTCCAATAGGATACAATGGACGAGCATCATCTATAGTTGTGTCTGGAACCGATGTAATTAGGCCCAGgtgtgcatcc ... tgttttttagAGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCTCAGAAGCTTGATTTTGAGCTTGAGATG


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 143

GTTTTATCTTCCAATAGGATACAATGGACGAGCATCATCTATAGTTGTGTCTGGAACCGATGTAATTAGGCCCAGgtgtgcatcc ... tgttttttagAGGACAAGGACATCCAACAGGAAACTCCGCTCCTTATTTTGGTCCCTCTCAGAAGCTTGATTTTGAGCTTGAGATG