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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCCCGCTCGTGCTGATCCGAGCCGAGAGTACCCTTGAGGCTCTTCTGCGGTGCATTGATTCTGTCGGCGCCACCAGATTGGTTTATAATCATCTGTATGgtatggctactttctcatggcgtttcctgcatcaatggagtttcttatatgttgtgttattctatttctttgtgaaaatatttttttttctttacacttt...

Basic information

species Oryza sativa
transcript LOC_Os02g41550.1
intron # 2
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|29675695|gb|CB671970.1|CB671970
EST:     GTGCATTGATTCTGTCGGCGCCACCAGATTGGTTTATAATCATCTGTATG                         ACCCTGTTTCTCTTGTGCGTGATGACAAAATNNNNNNNGAGCTTTCGGCAC
genomic: GTGCATTGATTCTGTCGGCGCCACCAGATTGGTTTATAATCATCTGTATGgtatggctac ... taaattttagACCCTGTTTCTCTTGTGCGTGATGACAAAATAAAAAAAGAGCTTTCGGCAC
EST: gi|29674937|gb|CB671212.1|CB671212
EST:     GTGCATTGATTCTGTCGGCGCCACCAGATTGGTTTATAATCATCTGTATG                         ACCCTGTTTCTCTTGTGCGTGATGACAAAATNNNNNNNGAGCTTTCGGCAC
genomic: GTGCATTGATTCTGTCGGCGCCACCAGATTGGTTTATAATCATCTGTATGgtatggctac ... taaattttagACCCTGTTTCTCTTGTGCGTGATGACAAAATAAAAAAAGAGCTTTCGGCAC
EST: gi|29629647|gb|CB634656.1|CB634656
EST:     GTGCATTGATTCTGTCGGCGCCACCAGATTGGTTTATAATCATCTGTATG                         ACCCTGTTTCTCTTGTGCGTGATGACAAAATNNNNNNNGAGCTTTCGGCAC
genomic: GTGCATTGATTCTGTCGGCGCCACCAGATTGGTTTATAATCATCTGTATGgtatggctac ... taaattttagACCCTGTTTCTCTTGTGCGTGATGACAAAATAAAAAAAGAGCTTTCGGCAC
EST: gi|29682325|gb|CB678600.1|CB678600
EST:     GTGCATTGATTCTGTCGGCGCCACCAGATTGGTTTATAATCATCTGTATG                         ACCCTGTTTCTCTTGTGC
genomic: GTGCATTGATTCTGTCGGCGCCACCAGATTGGTTTATAATCATCTGTATGgtatggctac ... taaattttagACCCTGTTTCTCTTGTGC
EST: gi|29671259|gb|CB667534.1|CB667534
EST:     GTGCATTGATTCTGTCGGCGCCACCAGATTGGTTTATAATCATCTGTATG                         ACCCTGTTTCTCTTGTGCGTGATGACAAAATNNNNNNNGAGCTTTCGGCAC
genomic: GTGCATTGATTCTGTCGGCGCCACCAGATTGGTTTATAATCATCTGTATGgtatggctac ... taaattttagACCCTGTTTCTCTTGTGCGTGATGACAAAATAAAAAAAGAGCTTTCGGCAC
EST: gi|29622509|gb|CB627520.1|CB627520
EST:     GTGCATTGATTCTGTCGGCGCCACCAGATTGGTTTATAATCATCTGTATG                         ACCCTGTTTCTCTT
genomic: GTGCATTGATTCTGTCGGCGCCACCAGATTGGTTTATAATCATCTGTATGgtatggctac ... taaattttagACCCTGTTTCTCTT
EST: gi|29627388|gb|CB632399.1|CB632399
EST:     GTGCATTGATTCTGTCGGCGCCACCAGATTGGTTTATAATCATCTGTATG                         ACCCTGTTTCTCTTGTGCGTGATGACAAAATNNNNNNNGAGCTTTCGGCAC
genomic: GTGCATTGATTCTGTCGGCGCCACCAGATTGGTTTATAATCATCTGTATGgtatggctac ... taaattttagACCCTGTTTCTCTTGTGCGTGATGACAAAATAAAAAAAGAGCTTTCGGCAC
EST: gi|29635139|gb|CB640148.1|CB640148
EST:     GTGCATTGATTCTGTCGGCGCCACCAGATTGGTTTATAATCATCTGTATG                         ACCCTGTTTCTCTTGTGCGTGATGACAAAATNNNNNNNGAGCTTTCGGCAC
genomic: GTGCATTGATTCTGTCGGCGCCACCAGATTGGTTTATAATCATCTGTATGgtatggctac ... taaattttagACCCTGTTTCTCTTGTGCGTGATGACAAAATAAAAAAAGAGCTTTCGGCAC
EST: gi|29641884|gb|CB646891.1|CB646891
EST:     GTGCATTGATTCTGTCGGCGCCACCAGATTGGTTTATAATCATCTGTATG                         ACCCTGTTTCTCTTGTGCGTGATGACAAAATNNNNNNNGAGCTTTCGGCAC
genomic: GTGCATTGATTCTGTCGGCGCCACCAGATTGGTTTATAATCATCTGTATGgtatggctac ... taaattttagACCCTGTTTCTCTTGTGCGTGATGACAAAATAAAAAAAGAGCTTTCGGCAC
EST: gi|29668745|gb|CB665020.1|CB665020
EST:     GTGCATTGATTCTGTCGGCGCCACCAGATTGGTTTATAATCATCTGTATG                         ACCCTGTTTCTCTTGTGCGTGATGACAAAATNNNNNNNGAGCTTTCGGCAC
genomic: GTGCATTGATTCTGTCGGCGCCACCAGATTGGTTTATAATCATCTGTATGgtatggctac ... taaattttagACCCTGTTTCTCTTGTGCGTGATGACAAAATAAAAAAAGAGCTTTCGGCAC
EST: gi|29678609|gb|CB674884.1|CB674884
EST:     GTGCATTGATTCTGTCGGCGCCACCAGATTGGTTTATAATCATCTGTATG                         ACCCTGTTTCTCTTGTGCGTGATGACAAAAT
genomic: GTGCATTGATTCTGTCGGCGCCACCAGATTGGTTTATAATCATCTGTATGgtatggctac ... taaattttagACCCTGTTTCTCTTGTGCGTGATGACAAAAT

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: 45 (upstream exon), 74 (downstream exon)
Score: 15

TGCCCGCTCGTGCTGATCCGAGCCGAGAGTACCCTTGAGGCTCTTCTGCGGTGCATTGATTCTGTCGGCGCCACCAGATTGGTTTATAATCATCTGTATGgtatggctac ... taaattttagACCCTGTTTCTCTTGTGCGTGATGACAAAATAAAAAAAGAGCTTTCGGCACTGGGAATTTCCATCCAGAGTTTTAATGGTGATCTGCTGTATGAGCCATG




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