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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgatgttagttcaccattttgatttttttataaaaaaatccatgtgatgtttattttgtatggttattcctttaattttttttgtattcatactctgaagGTGGACAATGATGCTTATTTCTTGAATCTGAGAAGATGGTGGAAAGGTGTAGATATATTTAAAAAGGCATACATAATAATTCCTGTGCATGCAGA

Basic information

species Oryza sativa
transcript LOC_Os06g29310.2
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g29310.1 (Oryza sativa), 3'ss of exon 9
lower sequence: GRMZM2G351786_T01 (Zea mays), 3'ss of exon 9
---tgatgttagttcaccattttgatttttttataaaaaaatcca-tgtgatgtttattttgtatggttattcctttaattttttttgtattcatactctgaagGTGGACAATGATGCTTATTTCTTGAATCTGAGAAGATGGTGGAAAGGTGTAGATATATTTAAAAAGGCATACATAATAATTCCTGTGCATGCAGA
   | ||  || ||||  |||| |||   ||||| |  | ||    || | | |  || |  ||   || ||   || | || |||| | ||| || |||||||  ||||||     ||||||| |||||  |||||||||||||||| ||||||||||||||| ||| |||||| ||| | || ||||||||||||||
acctcatactaattcagaattt-gatgcctttattatgatatttgctgcgctatccatatacta--attttttgattgacttcttttat-ttcttaatctgaagAAGGACAAGATCACTTATTTTTTGAAATTGAGAAGATGGTGGAAGGGTGTAGATATATTTCAAATGGCATATATATTGATGCCTGTGCATGCAGA
















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|88334047|gb|CI641098.1|CI641098
EST:     ATATTTTCAATACATACTTCTTCAGCAAACTTGAAGCCTTGACATCAAAG                         GTGGACAATGATGCTTATTTCTTGAATCTGAGAAGATGGTGGAAAGGTGTA
genomic: ATATTTTCAATACATACTTCTTCAGCAAACTTGAAGCCTTGACATCAAAGgttttttcct ... tactctgaagGTGGACAATGATGCTTATTTCTTGAATCTGAGAAGATGGTGGAAAGGTGTA
EST: gi|88331767|gb|CI640798.1|CI640798
EST:     ATATTTTCAATACATACTTCTTCAGCAAACTTGAAGCCTTGACATCAAAG                         GTGGACAATGATGCTTATTTCTTGAATCTGAGAAGATGGTGGAAAGGTGTA
genomic: ATATTTTCAATACATACTTCTTCAGCAAACTTGAAGCCTTGACATCAAAGgttttttcct ... tactctgaagGTGGACAATGATGCTTATTTCTTGAATCTGAGAAGATGGTGGAAAGGTGTA
EST: gi|33793431|gb|CF322595.1|CF322595
EST:     ATATTTTCAATACATACTTCTTCAGCAAACTTGAAGCCTTGACATCAAAG                         GTGGACAATGATGCTTATTTCTTGAATCTGAGAAGATGGTGGAAAGGTGTA
genomic: ATATTTTCAATACATACTTCTTCAGCAAACTTGAAGCCTTGACATCAAAGgttttttcct ... tactctgaagGTGGACAATGATGCTTATTTCTTGAATCTGAGAAGATGGTGGAAAGGTGTA
EST: gi|33794144|gb|CF322962.1|CF322962
EST:     ATATTTTCAATACATACTTCTTCAGCAAACTTGAAGCCTTGACATCAAAG                         GTGGACAATGATGCTTATTTCTTGAATCTGAGAAGATGGTGGAAAGGTGTA
genomic: ATATTTTCAATACATACTTCTTCAGCAAACTTGAAGCCTTGACATCAAAGgttttttcct ... tactctgaagGTGGACAATGATGCTTATTTCTTGAATCTGAGAAGATGGTGGAAAGGTGTA
EST: gi|88331768|gb|CI640799.1|CI640799
EST:     ATATTTTCAATACATACTTCTTCAGCAAACTTGAAGCCTTGACATCAAAG                         GTGGACAATGATGCTTATTTCTTGAATCTGAGAAGATGGTGGAAAGGTGTA
genomic: ATATTTTCAATACATACTTCTTCAGCAAACTTGAAGCCTTGACATCAAAGgttttttcct ... tactctgaagGTGGACAATGATGCTTATTTCTTGAATCTGAGAAGATGGTGGAAAGGTGTA
EST: gi|88573239|gb|CI664810.1|CI664810
EST:     ATATTTTCAATACATACTTCTTCACCAAACTTGAAGCCTTGACATCAAAG                         GTGGACAATGATGCTTATTTCTTGAATCTGAGAAGATGGTGGAAACGTGTA
genomic: ATATTTTCAATACATACTTCTTCAGCAAACTTGAAGCCTTGACATCAAAGgttttttcct ... tactctgaagGTGGACAATGATGCTTATTTCTTGAATCTGAGAAGATGGTGGAAAGGTGTA
EST: gi|88333541|gb|CI656613.1|CI656613
EST:     ATATTTTCAATACATACTTCTTCAGCAAACTTGAAGCCTTGACATCAAAG                         GTGGACAATGATGCTTATTTCTTGAATCTGAGAAGATGGTGGAAAGGTGTA
genomic: ATATTTTCAATACATACTTCTTCAGCAAACTTGAAGCCTTGACATCAAAGgttttttcct ... tactctgaagGTGGACAATGATGCTTATTTCTTGAATCTGAGAAGATGGTGGAAAGGTGTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatgtttattttgtatggttattcctttaattttttttgtattcatactctgaagGTGGACAATGATGCTTATTTCTTGAATCTGAGAAGATGGTGGAAAGGTGTAGATATATTTAAAAAGGCATACATAATAATTCCTGTGCATGCAGA
                        ctttaat  putative branch site (score: 4)
                  ttattcctttaatttt  TA-rich tract