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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtagcatgtgcactactactcttctcttgatgtttgttgtgtgttgaatgaatatataatataccagttaccatgaaaaatgcagGGATCTCTCGAGTAACAACCTCTCAGGACCAGTCTCATCCAATGGCTCCTTTTCACTCTTCACCCCTATAAG

Basic information

species Zea mays
transcript GRMZM2G150024_T01
intron # 5
splice site 3'
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|26456609|gb|CA828192.1|CA828192
EST:     GTTGGTCCCATTCCTGTAGCCTTGACCAATATCTCCACTCTCCAAGTACT                         GGATCTCTCGAGTAACAACCTCTCAGGACCAGTCTCATCCAATGGCTCCTT
genomic: GTTGGTCCCATTCCTGTAGCCTTGACCAATATCTCCACTCTCCAAGTACTgtaagtagca ... aaaaatgcagGGATCTCTCGAGTAACAACCTCTCAGGACCAGTCTCATCCAATGGCTCCTT
EST: gi|148934569|gb|EC878617.2|EC878617
EST:     GTTGGTCCCATTCCTGTAGCCTTGACCAATATCTCCACTCTCCAAGTACT                         GGATCTCTCGAGTAACAACCTCTCAGGAC
genomic: GTTGGTCCCATTCCTGTAGCCTTGACCAATATCTCCACTCTCCAAGTACTgtaagtagca ... aaaaatgcagGGATCTCTCGAGTAACAACCTCTCAGGAC
EST: gi|22542236|gb|BU092674.1|BU092674
EST:     GTTGGTCCCATTCCTGTAGCCTTGACCAATATCTCCACTCTCCAAGTACT                         GGATCTCTCGAGTAACAACCTCTCAGGACCAGTCTCATCCAATGGCTCCTT
genomic: GTTGGTCCCATTCCTGTAGCCTTGACCAATATCTCCACTCTCCAAGTACTgtaagtagca ... aaaaatgcagGGATCTCTCGAGTAACAACCTCTCAGGACCAGTCTCATCCAATGGCTCCTT
EST: gi|26559220|gb|CA831455.1|CA831455
EST:     GCTGGTCCCATTCCTGTAGCCTTGACCAATATCTCCACTCTCCAAGTACT                         GGATCTCTCGAGTAACAACCTCTCAGGACCAGTCTCATCCAATGGCTCCTT
genomic: GTTGGTCCCATTCCTGTAGCCTTGACCAATATCTCCACTCTCCAAGTACTgtaagtagca ... aaaaatgcagGGATCTCTCGAGTAACAACCTCTCAGGACCAGTCTCATCCAATGGCTCCTT
EST: gi|20512844|gb|BQ280038.1|BQ280038
EST:     CTTGACCAATATCTCCACTCTCCAAGTACT                         GGATCTCTCGAGTAACAACCTCTCAGGACCAGTCTCATCCAATGGCTCCTT
genomic: CTTGACCAATATCTCCACTCTCCAAGTACTgtaagtagca ... aaaaatgcagGGATCTCTCGAGTAACAACCTCTCAGGACCAGTCTCATCCAATGGCTCCTT
EST: gi|87156676|gb|DY401465.1|DY401465
EST:     GTTGGTCCCATTCCTGTAGCCTTGACCAATATCTCCACTCTCCAAGTACT                         GGATCTCTCGAGTAACAACCTCTCAGGACCAGTCTCATCCAATGGCTCCTT
genomic: GTTGGTCCCATTCCTGTAGCCTTGACCAATATCTCCACTCTCCAAGTACTgtaagtagca ... aaaaatgcagGGATCTCTCGAGTAACAACCTCTCAGGACCAGTCTCATCCAATGGCTCCTT

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: 48 (upstream exon), 47 (downstream exon)
Score: 96

ACGTCTTAACAACAACAGCTTGGTTGGTCCCATTCCTGTAGCCTTGACCAATATCTCCACTCTCCAAGTACTgtaagtagca ... aaaaatgcagGGATCTCTCGAGTAACAACCTCTCAGGACCAGTCTCATCCAATGGCTCCTTTTCACTCTTCACCCCTATAAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 122

ACGTCTTAACAACAACAGCTTGGTTGGTCCCATTCCTGTAGCCTTGACCAATATCTCCACTCTCCAAGTACTgtaagtagca ... aaaaatgcagGGATCTCTCGAGTAACAACCTCTCAGGACCAGTCTCATCCAATGGCTCCTTTTCACTCTTCACCCCTATAAG


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 130

ACGTCTTAACAACAACAGCTTGGTTGGTCCCATTCCTGTAGCCTTGACCAATATCTCCACTCTCCAAGTACTgtaagtagca ... aaaaatgcagGGATCTCTCGAGTAACAACCTCTCAGGACCAGTCTCATCCAATGGCTCCTTTTCACTCTTCACCCCTATAAG


Block sizes: 46 (upstream exon), 46 (downstream exon)
Score: 21

ACGTCTTAACAACAACAGCTTGGTTGGTCCCATTCCTGTAGCCTTGACCAATATCTCCACTCTCCAAGTACTgtaagtagca ... aaaaatgcagGGATCTCTCGAGTAACAACCTCTCAGGACCAGTCTCATCCAATGGCTCCTTTTCACTCTTCACCCCTATAAG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtttgttgtgtgttgaatgaatatataatataccagttaccatgaaaaatgcagGGATCTCTCGAGTAACAACCTCTCAGGACCAGTCTCATCCAATGGCTCCTTTTCACTCTTCACCCCTATAAG
           tgttgaatgaatatat  TA-rich tract