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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttttcaaggaaaaaaaaagtggtcttgtgaacaccgtggcttctaagggtttgggatgctttcactttacatgacctcactttcattgttctgctgcagGACTTGTTGGCAAAGTGGACTTCACTGTCAGGCATCTTTCTTCAGCAGTTGAGACATTTCCAAATTCATTCACTAGTTTCTCAACTGGTCAACCTTGCAT

Basic information

species Oryza sativa
transcript LOC_Os06g03760.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g03760.2 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM5G871262_T02 (Zea mays), 3'ss of exon 2
tttttcaaggaaaaaaaaagtggtcttgtgaacaccgt---ggcttctaagggtttgggatgctttcactttacatgacctcactttcattgttctgctgcagGACTTGTTGGCAAAGTGGACTTCACTGTCAGGCATCTTTCTTCAGCAGTTGAGACATTTCCAAATTCATTCACTAGTTTCTCAACTGGTCAACCTTGCAT
    |||||     ||      |   ||| ||  |  |   |  || | | ||| || | |    | | |   | ||| | ||  | |||| |   ||| ||||||||||||| ||||||||||||||||||||||| || |||||  | ||  ||||||||||||| |||||  || | ||||||| ||| || || |||||
--catcaagttcctaactttcagcaatgtcaaaccttttcagttttgtgatggtgtgtgtttacctaagtaggc-tgatcccatctccattttgtcgcttcagGACTTGTTGGTAAAGTGGACTTCACTGTCAGGCACCTATCTTCCTCGGTCCAGACATTTCCAAACTCATTTTCTGGATTCTCAAGTGGCCAGCCGTGCAT
















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|58680419|gb|CK069106.1|CK069106
EST:     GGTCGCCGTCTCCGCGGTGGTTTGCGGCCTCATCCTCGGCATCCTATACG                         GACTTGTTGGCAAAGTGGACTTCACTGTCAGGCATCTTTCTTCAGCAGTTG
genomic: GGTCGCCGTCTCCGCGGTGGTTTGCGGCCTCATCCTCGGCATCCTATACGgtgcggatca ... tctgctgcagGACTTGTTGGCAAAGTGGACTTCACTGTCAGGCATCTTTCTTCAGCAGTTG
EST: gi|58671154|gb|CK059840.1|CK059840
EST:     GGTCGCCGTCTCCGCGGTGGTTTGCGGCCTCATCCTCGGCATCCTATACG                         GACTTGTTGGCAAAGTGGACTTCACTGTCAGGCATCTTTCTTCAGCAGTTG
genomic: GGTCGCCGTCTCCGCGGTGGTTTGCGGCCTCATCCTCGGCATCCTATACGgtgcggatca ... tctgctgcagGACTTGTTGGCAAAGTGGACTTCACTGTCAGGCATCTTTCTTCAGCAGTTG
EST: gi|58667548|gb|CK056234.1|CK056234
EST:     GGTCGCCGTCTCCGCGGTGGTTTGCGGCCTCATCCTCGGCATCCTATACG                         GACTTGTTGGCAAAGTGGACTTCACTGTCAGGCATCTTTCTTCAGCAGTTG
genomic: GGTCGCCGTCTCCGCGGTGGTTTGCGGCCTCATCCTCGGCATCCTATACGgtgcggatca ... tctgctgcagGACTTGTTGGCAAAGTGGACTTCACTGTCAGGCATCTTTCTTCAGCAGTTG
EST: gi|88730217|gb|CI753832.1|CI753832
EST:     TTGCGGCCTCATCCTCGGCATCCTATACG                         GACTTGTTGGCAAAGTGGACTTCACTGTCAGGCATCTTTCTTCAGCAGTTG
genomic: TTGCGGCCTCATCCTCGGCATCCTATACGgtgcggatca ... tctgctgcagGACTTGTTGGCAAAGTGGACTTCACTGTCAGGCATCTTTCTTCAGCAGTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagggtttgggatgctttcactttacatgacctcactttcattgttctgctgcagGACTTGTTGGCAAAGTGGACTTCACTGTCAGGCATCTTTCTTCAGCAGTTGAGACATTTCCAAATTCATTCACTAGTTTCTCAACTGGTCAACCTTGCAT
                             acctcac  putative branch site (score: 3)
                                         ttgttct  putative PPT
                     tttacat  TA-rich tract