Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagtactaacaaaattcactcgaattcgacaaaattcaaccaaacagctcactaaaactgaacaaataaactcatctgatccagGTGGACTACATACTCGGGGCGAATCCGGCGGGGATGTCGTACATGGTGGGGTTCGGGGCGAGGTACCCGCGGCACGTGCACCACCGCGGCGCGTCCATGC

Basic information

species Oryza sativa
transcript LOC_Os02g03120.1
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|88199769|gb|CI199619.1|CI199619
EST:     CCACCGCCGTCTCCCCCTCCACCCTCATCTCCCTCGCCAAGAAACAG                         GTGGACTACATACTCGGGGCGAATCCGGCGGGGATGTCGTACATGGTGGGT
genomic: CCACCGCCGTCTCCCCCTCCACCCTCATCTCCCTCGCCAAGAAACAGgtagtactaa ... tctgatccagGTGGACTACATACTCGGGGCGAATCCGGCGGGGATGTCGTACATGGTGGGG
EST: gi|88245071|gb|CI244920.1|CI244920
EST:     ATCTCCCTCGCCAAGAAACAG                         GTGGACTACATACTCGGGGCGAATCCGGCGGGGATGTCGTACATGGTGGGC
genomic: ATCTCCCTCGCCAAGAAACAGgtagtactaa ... tctgatccagGTGGACTACATACTCGGGGCGAATCCGGCGGGGATGTCGTACATGGTGGGG
EST: gi|88226337|gb|CI226253.1|CI226253
EST:     CACCGCCGTCTCCCCCTCCACCCTCATCTCCCTCGCCAAGAAACAG                         GTGGACTACATACTCGGGGCGAATCCGGCGGGGATGTCGTACATGGTGGGG
genomic: CACCGCCGTCTCCCCCTCCACCCTCATCTCCCTCGCCAAGAAACAGgtagtactaa ... tctgatccagGTGGACTACATACTCGGGGCGAATCCGGCGGGGATGTCGTACATGGTGGGG
EST: gi|87026829|gb|CI259482.1|CI259482
EST:     CTCGCACCGCCGTCTCCCCCTCCACCCTCATCTCCCTCGCCAAGAAACAG                         GTGGACTACATACTCGGGGCGAATCCGGCGGGGATGTCGTACATGGTGGGG
genomic: CTC-CACCGCCGTCTCCCCCTCCACCCTCATCTCCCTCGCCAAGAAACAGgtagtactaa ... tctgatccagGTGGACTACATACTCGGGGCGAATCCGGCGGGGATGTCGTACATGGTGGGG
EST: gi|87032445|gb|CI264226.1|CI264226
EST:     CCCCCTCCACCCTCATCTCCCTCGCCAAGAAACAG                         GTGGACTACATACTCGGGGCGAATCCGGCGGGGATGTCGTACATGGTGGGG
genomic: CCCCCTCCACCCTCATCTCCCTCGCCAAGAAACAGgtagtactaa ... tctgatccagGTGGACTACATACTCGGGGCGAATCCGGCGGGGATGTCGTACATGGTGGGG
EST: gi|86602396|gb|CI264724.1|CI264724
EST:     TCCACCCTCATCTCCCTCGCCAAGAAACAG                         GTGGACTACATACTCGGGGCGAATCCGGCGGGGATGTCGTACATGGTGGGG
genomic: TCCACCCTCATCTCCCTCGCCAAGAAACAGgtagtactaa ... tctgatccagGTGGACTACATACTCGGGGCGAATCCGGCGGGGATGTCGTACATGGTGGGG
EST: gi|86492998|gb|CI135631.1|CI135631
EST:     GCTCCACCGCCGTCTCCCCCTCCACCCTCATCTCCCTCGCCAAGAAACAG                         GTGGACTACATACTCGGGGCGAATCCGGCGGGGATGTCGTACATGGTGGGG
genomic: GCTCCACCGCCGTCTCCCCCTCCACCCTCATCTCCCTCGCCAAGAAACAGgtagtactaa ... tctgatccagGTGGACTACATACTCGGGGCGAATCCGGCGGGGATGTCGTACATGGTGGGG
EST: gi|88233007|gb|CI232856.1|CI232856
EST:     GCTCCACCGCCGTCTCCCCCTCCACCCTCATCTCCCTCGCCAAGAAACAG                         GTGGACTACATACTCGGGGCGAATCCGGCGGGGATGTCGTACATGGTGGGG
genomic: GCTCCACCGCCGTCTCCCCCTCCACCCTCATCTCCCTCGCCAAGAAACAGgtagtactaa ... tctgatccagGTGGACTACATACTCGGGGCGAATCCGGCGGGGATGTCGTACATGGTGGGG
EST: gi|86492714|gb|CI135347.1|CI135347
EST:     GCTCCACCGCCGTTTCCCCCTCCACCCTCATCTCCCTCGCCAAGAAACAG                         GTGGACTACATACTCGGGGCGAATCCGGCGGGGATTTCGTACATGGTGGGG
genomic: GCTCCACCGCCGTCTCCCCCTCCACCCTCATCTCCCTCGCCAAGAAACAGgtagtactaa ... tctgatccagGTGGACTACATACTCGGGGCGAATCCGGCGGGGATGTCGTACATGGTGGGG

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 1 RNA-Seqlibrary.


Block sizes: 22 (upstream exon), 73 (downstream exon)
Score: 2

CCTCACCTACGCCAAGTACCTCTCCTCCAGCGCCGCCACCGTCTCCTGCGGCTCCACCGCCGTCTCCCCCTCCACCCTCATCTCCCTCGCCAAGAAACAGgtagtactaa ... tctgatccagGTGGACTACATACTCGGGGCGAATCCGGCGGGGATGTCGTACATGGTGGGGTTCGGGGCGAGGTACCCGCGGCACGTGCACCACCGCGGCGCGTCCATGC




<











<


<











 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caaaattcaaccaaacagctcactaaaactgaacaaataaactcatctgatccagGTGGACTACATACTCGGGGCGAATCCGGCGGGGATGTCGTACATGGTGGGGTTCGGGGCGAGGTACCCGCGGCACGTGCACCACCGCGGCGCGTCCATGC
                                         ctcatct  CT-rich tract
                               aacaaataaa  TA-rich tract