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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AACACTGAACGAGATGTAGTCGACGGCTCTAGCGCTGAAGCTGGTCACATAATAGCTACTACGATCCGTGGCCGAAATGGTCTACCTAAACAGgtaaaaatagtttcgctttcatccttgcaatttgtgatgtttggccatgaaacaatgctgataaagtggttatggtaatggaacag

Basic information

species Oryza sativa
transcript LOC_Os03g62500.1
intron # 3
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|58665971|gb|CK054657.1|CK054657
EST:     GTCACATAATAGCTACTACGATCCGTGGCCGAAATGGTCTACCTAAACAG                         TCTGTCACTTATATTGCTGAGCATGTGGTCGGAACTGGTTCTTTTGGGGTT
genomic: GTCACATAATAGCTACTACGATCCGTGGCCGAAATGGTCTACCTAAACAGgtaaaaatag ... aatggaacagTCTGTCACTTATATTGCTGAGCATGTGGTCGGAACTGGTTCTTTTGGGGTT
EST: gi|29633185|gb|CB638194.1|CB638194
EST:     GTCACATAATAGCTACTACGATCCGTGGCCGAAATGGTCTACCTAAACAG                         TCTGTCACTTATATTGCTGAGCATGTGGTCGGAACTGGTTCTTTT
genomic: GTCACATAATAGCTACTACGATCCGTGGCCGAAATGGTCTACCTAAACAGgtaaaaatag ... aatggaacagTCTGTCACTTATATTGCTGAGCATGTGGTCGGAACTGGTTCTTTT
EST: gi|29633183|gb|CB638192.1|CB638192
EST:     GTCACATAATAGCTACTACGATCCGTGGCCGAAATGGTCTACCTAAACAG                         TCTGTCACTTATATTGCTGAGCATGTGGTCGGAACTG
genomic: GTCACATAATAGCTACTACGATCCGTGGCCGAAATGGTCTACCTAAACAGgtaaaaatag ... aatggaacagTCTGTCACTTATATTGCTGAGCATGTGGTCGGAACTG
EST: gi|29633212|gb|CB638221.1|CB638221
EST:     GTCACATAATAGCTACTACGATCCGTGGCCGAAATGGTCTACCTAAACAG                         TCTGTCACTTATATTGCTGAGCATGTGGTCGGAACTGGT
genomic: GTCACATAATAGCTACTACGATCCGTGGCCGAAATGGTCTACCTAAACAGgtaaaaatag ... aatggaacagTCTGTCACTTATATTGCTGAGCATGTGGTCGGAACTGGT
EST: gi|58600090|gb|CK010618.1|CK010618
EST:     GTCACATAATAGCTACTACGATCCGTGGCCGAAATGGTCTACCTAAACAG                         TCTGTCACTTATATTGCTGAGCATGTGGTCGGAACTGGTTC
genomic: GTCACATAATAGCTACTACGATCCGTGGCCGAAATGGTCTACCTAAACAGgtaaaaatag ... aatggaacagTCTGTCACTTATATTGCTGAGCATGTGGTCGGAACTGGTTC
EST: gi|29633239|gb|CB638248.1|CB638248
EST:     TCACATAATAGCTACTACGATCCGTGGCCCGAAA-GGTCTACCTAAACAG                         TCTGTCACTTATATTGCTG
genomic: TCACATAATAGCTACTACGATCCGTGGCC-GAAATGGTCTACCTAAACAGgtaaaaatag ... aatggaacagTCTGTCACTTATATTGCTG
EST: gi|58608773|gb|CK036806.1|CK036806
EST:     GTCACATAATAGCTACTACGATCCGTGGNCGAAATGGTCTACCTAAACAG                         TCTGTCACTTATATTGCTGAGCATGTGGTCGGAACTGGTT
genomic: GTCACATAATAGCTACTACGATCCGTGGCCGAAATGGTCTACCTAAACAGgtaaaaatag ... aatggaacagTCTGTCACTTATATTGCTGAGCATGTGGTCGGAACTGGTT
EST: gi|29633152|gb|CB638161.1|CB638161
EST:     GTCACATAATAGCTACTACGATCCGTGGCCGAAATGGTCTACCTAAACAG                         TCTGTCACTTATATTGCTG
genomic: GTCACATAATAGCTACTACGATCCGTGGCCGAAATGGTCTACCTAAACAGgtaaaaatag ... aatggaacagTCTGTCACTTATATTGCTG
EST: gi|58663686|gb|CK052372.1|CK052372
EST:     GTCACATAATAGCTACTACGATCCGTGGCCGAAATGGTCTACCTAAACAG                         TCTGTCACTTATATTGCTGAGCATGTGGTCGGAACTGGTTCTTTTGGGGTT
genomic: GTCACATAATAGCTACTACGATCCGTGGCCGAAATGGTCTACCTAAACAGgtaaaaatag ... aatggaacagTCTGTCACTTATATTGCTGAGCATGTGGTCGGAACTGGTTCTTTTGGGGTT

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: 72 (upstream exon), 59 (downstream exon)
Score: 17

AACACTGAACGAGATGTAGTCGACGGCTCTAGCGCTGAAGCTGGTCACATAATAGCTACTACGATCCGTGGCCGAAATGGTCTACCTAAACAGgtaaaaatag ... aatggaacagTCTGTCACTTATATTGCTGAGCATGTGGTCGGAACTGGTTCTTTTGGGGTTGTATATCAG




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