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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CATCAGTATTGTCTAGTGACAGCATGCATATTGGTCTGCTTGCTGCAGCTGCTCACGCCGCATCAACAAATAGCCGGTTTACTATTTTCTATAATCCAAGgtaaaccatattttgcacatatctgatcatttcgtacaagtactcaattcgcattcattttgcag

Basic information

species Oryza sativa
transcript LOC_Os02g06910.1
intron # 8
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|58678281|gb|CK066968.1|CK066968
EST:     GCTCACGCCGCATCAACAAATAGCCGGTTTACTATTTTCTATAATCCAAG                         AGCAAGCCCTTCGGAGTTTGTTATACCACTGGCTAAATATGTAAAGGCTGT
genomic: GCTCACGCCGCATCAACAAATAGCCGGTTTACTATTTTCTATAATCCAAGgtaaaccata ... cattttgcagAGCAAGCCCTTCGGAGTTTGTTATACCACTGGCTAAATATGTAAAGGCTGT
EST: gi|58661860|gb|CK050540.1|CK050540
EST:     GCTCACGCCGCATCAACAAATAGCCGGTTTACTATTTTCTATAATCCAAG                         AGCAAGCCCGGCGGAGTTTGTTATACCACTGGCTAAATATGTAAAGGCTGT
genomic: GCTCACGCCGCATCAACAAATAGCCGGTTTACTATTTTCTATAATCCAAGgtaaaccata ... cattttgcagAGCAAGCCCTTCGGAGTTTGTTATACCACTGGCTAAATATGTAAAGGCTGT
EST: gi|58667339|gb|CK056025.1|CK056025
EST:     GCTCACGCCGCATCAACAAATAGCCGGTTTACTATTTTCTATAATCCAAG                         AGCAAGCCCTTCGGAGTTTGTTATACCACTGGCTAAATATGTAAAGGCTGT
genomic: GCTCACGCCGCATCAACAAATAGCCGGTTTACTATTTTCTATAATCCAAGgtaaaccata ... cattttgcagAGCAAGCCCTTCGGAGTTTGTTATACCACTGGCTAAATATGTAAAGGCTGT
EST: gi|29634511|gb|CB639520.1|CB639520
EST:     GCTCACGCCGCATCAACAAATAGCCGGTTTACTATTTTCTATAATCCAAG                         AGCAAGCCCTTCGGAGTTTGTTATACCACTGGCTAAATATGTAAAGGCTGT
genomic: GCTCACGCCGCATCAACAAATAGCCGGTTTACTATTTTCTATAATCCAAGgtaaaccata ... cattttgcagAGCAAGCCCTTCGGAGTTTGTTATACCACTGGCTAAATATGTAAAGGCTGT
EST: gi|58661213|gb|CK049893.1|CK049893
EST:     CTATAATCCAAG                         AGCAAGCCCTTCGGAG-TTGTTATACCACTGGCTAAATATGTAAAGGCGGG
genomic: CTATAATCCAAGgtaaaccata ... cattttgcagAGCAAGCCCTTCGGAGTTTGTTATACCACTGGCTAAATATGTAAAGGCTGT

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: 66 (upstream exon), 59 (downstream exon)
Score: 21

CATCAGTATTGTCTAGTGACAGCATGCATATTGGTCTGCTTGCTGCAGCTGCTCACGCCGCATCAACAAATAGCCGGTTTACTATTTTCTATAATCCAAGgtaaaccata ... cattttgcagAGCAAGCCCTTCGGAGTTTGTTATACCACTGGCTAAATATGTAAAGGCTGTCTACCATACCCGCATATCGGTGGGCATGCGTTTCCGGATGCTTTTTGAA




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