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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgcagataaaagtccctttttttctgaaatatcattttgtgaaactacactatacaatttgaggtgttgtacgcactcaactgtatataattagaacttatttatatttactccttgtttcttaatgcagGTCCCAAGATCTGGTTTCTTGCTGTCATCTATTTCATTCTTGGATGCCCAGGTGCCTACTATCTGTGGTACCGACCACTTTACCGTGCCATGAG

Basic information

species Oryza sativa
transcript LOC_Os03g38590.2
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g38590.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G124918_T01 (Zea mays), 3'ss of exon 7
----------------------------------------------gtgtgca-gataaaagtccctttttttctgaaatatcattttgtgaaact-acactatacaatttgaggtgttgtacgcactcaactgtatataattagaacttatttatatttactccttgtttcttaatgcagGTCCCAAGATCTGGTTTCTTGCTGTCATCTATTTCATTCTTGGATGCCCAGGTGCCTACTATCTGTGGTACCGACCACTTTACCGTGCCATGAG
                                               || ||  ||| | |   ||    | | ||    |      |||| | ||   | |  | |      || | | || |  | |     | | |||  | ||    |     ||| ||||||| |   | |||||||||| || || |||||||| ||  |||| || ||||||||||||||||| || |||||||| || |||||||| ||||| ||||||||||||||
gtatgtcgataaaacattaaaacattgctctttctaaattctaatcatgcgctcgatcataa--ccgacgtgtatggttcacggccatgtgcatcttgtaatgcagaggccagggcgatctatgaccccgttgttgtctaaaaaaaatgcgtgctattttgctccttgata--tgatgcagGTCCTAAAATATGGTTTCTCGCAATCATATACTTCATTCTTGGATGCCCCGGCGCCTACTACCTTTGGTACCGGCCACTATACCGTGCCATGAG
















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|25799630|gb|CA755591.1|CA755591
EST:     CTTGTTTTGGAACATCATCTGTGTTACGGCTGCTTGGATTAAAGGGGAAG                         GTCCCAAGATCTGGTTTCTTGCTGTCATCTATTTCATTCTTGGATGCCCAG
genomic: CTTGTTTTGGAACATCATCTGTGTTACGGCTGCTTGGATTAAAGGGGAAGgtgtgcagat ... cttaatgcagGTCCCAAGATCTGGTTTCTTGCTGTCATCTATTTCATTCTTGGATGCCCAG
EST: gi|29662682|gb|CB658957.1|CB658957
EST:     CTTGTTTTGGAACATCATCTGTGTTACGGCTGCTTGGATTAAAGGGGAAG                         GTCCCAAGATCTGGTTTCTTGCTGTCATCTATTTCATTCTTGGATGCCCAG
genomic: CTTGTTTTGGAACATCATCTGTGTTACGGCTGCTTGGATTAAAGGGGAAGgtgtgcagat ... cttaatgcagGTCCCAAGATCTGGTTTCTTGCTGTCATCTATTTCATTCTTGGATGCCCAG
EST: gi|29662718|gb|CB658993.1|CB658993
EST:     CTTGTTTTGGAACATCATCTGTGTTACGGCTGCTTGGATTAAAGGGGAAG                         GTCCCAAGATCTGGTTTCTTGCTGTCATCTATTTCATTCTTGGATGCCCAG
genomic: CTTGTTTTGGAACATCATCTGTGTTACGGCTGCTTGGATTAAAGGGGAAGgtgtgcagat ... cttaatgcagGTCCCAAGATCTGGTTTCTTGCTGTCATCTATTTCATTCTTGGATGCCCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcaactgtatataattagaacttatttatatttactccttgtttcttaatgcagGTCCCAAGATCTGGTTTCTTGCTGTCATCTATTTCATTCTTGGATGCCCAGGTGCCTACTATCTGTGGTACCGACCACTTTACCGTGCCATGAG
                                            tcttaat  putative branch site (score: 3)
                               tttactccttgtttct  CT-rich tract
      tgtatataattagaac  TA-rich tract