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

GCGGCTTAATGACAACAGTTTAAACGGTCCAATCCCGAGGGATCTGGCAAAAATATCTAGTCTCAAAGTGATgtaagtgctcagttaacaatgctgtttcacataatttttatgttctgtacatattaatgatgatcttttatttgtctatctattcttgcttccag

Basic information

species Oryza sativa
transcript LOC_Os01g17250.1
intron # 4
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|87025893|gb|CI282470.1|CI282470
EST:     AACGGTCCAATCCCGAGGGATCTGGCAAAAATATCTAGTCTCAAAGTGAT                         AGATGTCTCGAACAATGATCTTTGCGGCACGATTCCTACTAGCGGGCCTTT
genomic: AACGGTCCAATCCCGAGGGATCTGGCAAAAATATCTAGTCTCAAAGTGATgtaagtgctc ... ttgcttccagAGATGTCTCGAACAATGATCTTTGCGGCACGATTCCTACTAGCGGGCCTTT
EST: gi|15849919|gb|BI798195.1|BI798195
EST:     ACCGGTCCAATCCCGAGGGATCTGGCAAAAATATCTAGTCTCAAAGTGAT                         AGATGTCTCGAACAATGATCTTTGCGGCACGATTCCTACTAGCGGGCCTTT
genomic: AC-GGTCCAATCCCGAGGGATCTGGCAAAAATATCTAGTCTCAAAGTGATgtaagtgctc ... ttgcttccagAGATGTCTCGAACAATGATCTTTGCGGCACGATTCCTACTAGCGGGCCTTT
EST: gi|86828695|gb|CI280551.1|CI280551
EST:     AACGGTCCAATCCCGAGGGATCTGGCAAAAATATCTAGTCTCAAAGTGAT                         AGATGTCTCGAACAATGATCTTTGCGGCACGATTCCTACTAGCGGGCCTTT
genomic: AACGGTCCAATCCCGAGGGATCTGGCAAAAATATCTAGTCTCAAAGTGATgtaagtgctc ... ttgcttccagAGATGTCTCGAACAATGATCTTTGCGGCACGATTCCTACTAGCGGGCCTTT
EST: gi|88221261|gb|CI221217.1|CI221217
EST:     AACGGTCCAATCCCGAGGGATCTGGCAAAAATATCTAGTCTCAAAGTGAT                         AGATGTCTCGAACAATGATCTTTGCGGCACGATTCTTACTAGCGGGCCTTT
genomic: AACGGTCCAATCCCGAGGGATCTGGCAAAAATATCTAGTCTCAAAGTGATgtaagtgctc ... ttgcttccagAGATGTCTCGAACAATGATCTTTGCGGCACGATTCCTACTAGCGGGCCTTT
EST: gi|29668540|gb|CB664815.1|CB664815
EST:     AACGGTCCAATCCCGAGGGATCTGGCAAAAATATCTAGTCTCAAAGTGAT                         AGATGTCTCGAACAATGATCTTTGCGGCACGATTCCTACTAGCGGGCCTTT
genomic: AACGGTCCAATCCCGAGGGATCTGGCAAAAATATCTAGTCTCAAAGTGATgtaagtgctc ... ttgcttccagAGATGTCTCGAACAATGATCTTTGCGGCACGATTCCTACTAGCGGGCCTTT
EST: gi|86530237|gb|CI170443.1|CI170443
EST:     GGCAAAAATATCTAGTCTCAAAGTGAT                         AGATGTCTCGAACAATGATCTTTGCGGCACGATTCCTACTAGCGGGCCTTT
genomic: GGCAAAAATATCTAGTCTCAAAGTGATgtaagtgctc ... ttgcttccagAGATGTCTCGAACAATGATCTTTGCGGCACGATTCCTACTAGCGGGCCTTT
EST: gi|86533916|gb|CI174122.1|CI174122
EST:     CGGTCCAATCCCGAGGGATCTGGCAAAAATATCTAGTCTCAAAGTGAT                         AGATGTCTCGAACAATGATCTTTGCGGCACGATTCCTACTAGCGGGCCTTT
genomic: CGGTCCAATCCCGAGGGATCTGGCAAAAATATCTAGTCTCAAAGTGATgtaagtgctc ... ttgcttccagAGATGTCTCGAACAATGATCTTTGCGGCACGATTCCTACTAGCGGGCCTTT
EST: gi|88226240|gb|CI226156.1|CI226156
EST:     AACGGTCCAATCCCGAGGGATCTGGCAAAAATATCTAGTCTCAAAGTGAT                         AGATGTCTCGAACAATGATCTTTGCGGCACGATTCCTACTAGCGGGCCTTT
genomic: AACGGTCCAATCCCGAGGGATCTGGCAAAAATATCTAGTCTCAAAGTGATgtaagtgctc ... ttgcttccagAGATGTCTCGAACAATGATCTTTGCGGCACGATTCCTACTAGCGGGCCTTT
EST: gi|58686473|gb|CK075160.1|CK075160
EST:     AACGGTCCAATCCCGAGGGATCTGGCAAAAATATCTAGTCTCAAAGTGAT                         AGATGTCTCGAACAATGATCTTTGCGGCACGATTCCTACTAGCGGGCCTTT
genomic: AACGGTCCAATCCCGAGGGATCTGGCAAAAATATCTAGTCTCAAAGTGATgtaagtgctc ... ttgcttccagAGATGTCTCGAACAATGATCTTTGCGGCACGATTCCTACTAGCGGGCCTTT
EST: gi|7206590|gb|C97644.2|C97644
EST:     AACGGTCCAATCCCGAGGGATCTGGCAAAAATATCTAGTCTCAAAGTGAT                         AGATGTCTCGAACAATGATCTTTGCGGCACGATTCCTACTAGCGGGCCTTT
genomic: AACGGTCCAATCCCGAGGGATCTGGCAAAAATATCTAGTCTCAAAGTGATgtaagtgctc ... ttgcttccagAGATGTCTCGAACAATGATCTTTGCGGCACGATTCCTACTAGCGGGCCTTT
EST: gi|88838832|gb|CI012708.1|CI012708
EST:     AACGGTCCAATCCCGAGGGATCTGGCAAAAATATCTAGTCTCAAAGTGAT                         AGATGTCTCGAACCATGATCTTTGCGGCACGATTCCTACTAGCGGGCCTTT
genomic: AACGGTCCAATCCCGAGGGATCTGGCAAAAATATCTAGTCTCAAAGTGATgtaagtgctc ... ttgcttccagAGATGTCTCGAACAATGATCTTTGCGGCACGATTCCTACTAGCGGGCCTTT

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: 73 (upstream exon), 67 (downstream exon)
Score: 56

GCGGCTTAATGACAACAGTTTAAACGGTCCAATCCCGAGGGATCTGGCAAAAATATCTAGTCTCAAAGTGATgtaagtgctc ... ttgcttccagAGATGTCTCGAACAATGATCTTTGCGGCACGATTCCTACTAGCGGGCCTTTTGAGCATATACCCCTGAACAA




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