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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtctcttcaattttttgttgtcatgcgtctctgttctctggatggccttaacacattgttgtccacttctcatagGCCAGTTTATGGGCTAATTTTTCTCTTCAAGTGGATGGCTGGGGAAAAGGATGAACGGCCTGTCGTCAAAGATCCAAACCCAAACCTTTTCTTTGCTAGC

Basic information

species Oryza sativa
transcript LOC_Os02g57630.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g57630.2 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G108739_T01 (Zea mays), 3'ss of exon 4
gtgagtctcttcaattttt-tgttgtcatgcgtctctgttctctggatggccttaacacattgttgtcc-----acttctcatagGCCAGTTTATGGGCTAATTTTTCTCTTCAAGTGGATGGCTGGGGAAAAGGATGAACGGCCTGTCGTCAAAGATCCAAACCCAAACCTTTTCTTTGCTAGC
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gtgagaatctttattatttatgtcgtcat---tatctgcaatctgaatgccttgaacacatatttgtcctctccacttttcttagGCCAGTATATGGGCTAATTTTTCTCTTCAAGTGGATACCCGGGGAGAAGGATGAACGGCCTGTTGTCAGAGATCCTAACCCAAACCTTTTCTTTGCGCAC
















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|699770|gb|D46061.1|D46061
EST:     GAACTTTACTCTCTTGATGTGGACTCTATTAGTGAACTGCG                         GCCAGTTTATGGGCTAATTTTNCTCTTCAAGTGGATGGCTGGGGAAAAGGA
genomic: GAACTTTACTCTCTTGATGTGGACTCTATTAGTGAACTGCGgtgagtctct ... cttctcatagGCCAGTTTATGGGCTAATTTTTCTCTTCAAGTGGATGGCTGGGGAAAAGGA
EST: gi|29668373|gb|CB664648.1|CB664648
EST:     GTGGAAGAACTTTACTCTCTTGATGTGGACTCTATTAGTGAACTGCG                         GCCAGTTTATGGGCTAATTTTTCTCTTCAAGTGGATGGCTGGGGAAAAGGA
genomic: GTGGAAGAACTTTACTCTCTTGATGTGGACTCTATTAGTGAACTGCGgtgagtctct ... cttctcatagGCCAGTTTATGGGCTAATTTTTCTCTTCAAGTGGATGGCTGGGGAAAAGGA
EST: gi|25798730|gb|CA754699.1|CA754699
EST:     GTGGAAGAACTTTACTCTCTTGATGTGGACTCTATTAGTGAACTGCG                         GCCAGTTTATGGGCTAATTTTTCTCTTCAAGTGGATGGCTGGGGAAAAGGA
genomic: GTGGAAGAACTTTACTCTCTTGATGTGGACTCTATTAGTGAACTGCGgtgagtctct ... cttctcatagGCCAGTTTATGGGCTAATTTTTCTCTTCAAGTGGATGGCTGGGGAAAAGGA
EST: gi|699786|gb|D46077.1|D46077
EST:     GAACTTTACTCTCTTGATGTGGACTCTATTAGTGAACTGCG                         GCCAGTTTATGGGCTAATTTTNCTCTTCAAGTGGATGGCTGGGGAAAAGGA
genomic: GAACTTTACTCTCTTGATGTGGACTCTATTAGTGAACTGCGgtgagtctct ... cttctcatagGCCAGTTTATGGGCTAATTTTTCTCTTCAAGTGGATGGCTGGGGAAAAGGA
EST: gi|218484923|gb|FG943842.1|FG943842
EST:     GTGGAAGAACTTTACTCTCTTAGATGTGGACTCTATTAGTGAACTGCG                         GCCAGTTTATGGGCTAATTTTTCTCTTCAAGTGGATGGCTGGGGAAAAGGA
genomic: GTGGAAGAACTTTACTCTCTT-GATGTGGACTCTATTAGTGAACTGCGgtgagtctct ... cttctcatagGCCAGTTTATGGGCTAATTTTTCTCTTCAAGTGGATGGCTGGGGAAAAGGA
EST: gi|29668412|gb|CB664687.1|CB664687
EST:     GTGGAAGAACTTTACTCTCTTGATGTGGACTCTATTAGTGAACTGCG                         GCCAGTTTATGGGCTAATTTTTCTCTTCAAGTGGATGGCTGGGGAAAAGGA
genomic: GTGGAAGAACTTTACTCTCTTGATGTGGACTCTATTAGTGAACTGCGgtgagtctct ... cttctcatagGCCAGTTTATGGGCTAATTTTTCTCTTCAAGTGGATGGCTGGGGAAAAGGA
EST: gi|218495715|gb|FG959020.1|FG959020
EST:     AGTGAACTGCG                         G-CAG-TTATGGGCT-ATTTTTCTCTTCAAGTGGATGGCTGGGGAAAAGGA
genomic: AGTGAACTGCGgtgagtctct ... cttctcatagGCCAGTTTATGGGCTAATTTTTCTCTTCAAGTGGATGGCTGGGGAAAAGGA
EST: gi|33797877|gb|CF324798.1|CF324798
EST:     GTGGAAGAACTTTACTCTCTTGATGTGGACTCTATTAGTGAACTGCG                         GCCAGTTTATGGGCTAATTTTTCTCTTCAAGTGGATGGCTGGGGAAAAGGA
genomic: GTGGAAGAACTTTACTCTCTTGATGTGGACTCTATTAGTGAACTGCGgtgagtctct ... cttctcatagGCCAGTTTATGGGCTAATTTTTCTCTTCAAGTGGATGGCTGGGGAAAAGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcatgcgtctctgttctctggatggccttaacacattgttgtccacttctcatagGCCAGTTTATGGGCTAATTTTTCTCTTCAAGTGGATGGCTGGGGAAAAGGATGAACGGCCTGTCGTCAAAGATCCAAACCCAAACCTTTTCTTTGCTAGC
                         ccttaac  putative branch site (score: 3)
                                         tccacttctc  putative PPT