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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactgtatttttgtagttcacaaattacaagtagtgaagtcattaactcatttttcctttttttttcccttttatgtattctacttttttctcttggcagATTGTTCCTATGAAATACAATCCAAGAGATGTGGATTCAATTAAGGCTGTCATGGCCAAATCCAATGTGGTCATTAACCTAATAG

Basic information

species Oryza sativa
transcript LOC_Os02g57180.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g57180.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G143651_T01 (Zea mays), 3'ss of exon 4
gtactgtatttttgtagttcacaaattaca-agtagtgaagtcattaactcatttttcctttttttttcccttttatgtattctacttttttctcttggcagATTGTTCCTATGAAATACAATCCAAGAGATGTGGATTCAATTAAGGCTGTCATGGCCAAATCCAATGTGGTCATTAACCTAATAG
                         | | | ||||   ||||   | |||   |||    |||   |    ||||||  || ||  ||||  ||  ||||||||||| || ||||||||| |||| |||||||| ||||||||||||||||| |||||||| || |||||||| |||||||| ||||
------------------------gtgaaacagtaagcaagtagattactatatttagtatttaaatcattttttattcatcct--ttttggcttctggcagATTGTGCCCATGAAATACCATCCGAGAGATGTTGATTCAATTAAGGCTGTTATGGCCAAGTCAAATGTGGTTATTAACCTCATAG
















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|58690755|gb|CK079442.1|CK079442
EST:     GTTCTGAGGATTGTCACCGACACCTGAAGTTGATGGGTGACCTGGGTCAG                         ATTGTTCCTATGAAATACAATCCAAGAGATGTGGATTCAATTAAGGCTGTC
genomic: GTTCTGAGGATTGTCACCGACACCTGAAGTTGATGGGTGACCTGGGTCAGgtactgtatt ... ctcttggcagATTGTTCCTATGAAATACAATCCAAGAGATGTGGATTCAATTAAGGCTGTC
EST: gi|58597371|gb|CK007899.1|CK007899
EST:     GTTCTGAGGATTGTCACCGACACCTGAAGTTGATGGGTGACCTGGGTCAG                         ATTGTTCCTATGAAATACAATCCAAGAGATGTGGATTCAATTAAGGCTGTC
genomic: GTTCTGAGGATTGTCACCGACACCTGAAGTTGATGGGTGACCTGGGTCAGgtactgtatt ... ctcttggcagATTGTTCCTATGAAATACAATCCAAGAGATGTGGATTCAATTAAGGCTGTC
EST: gi|29639479|gb|CB644488.1|CB644488
EST:     GTTCTGAGGATTGTCACCGACACCTGAAGTTGATGGGTGACCTGGGTCAG                         ATTGTTCCTATGAAATACAATCCAAGAGATGTGGATTCAATTAAGGCTGTC
genomic: GTTCTGAGGATTGTCACCGACACCTGAAGTTGATGGGTGACCTGGGTCAGgtactgtatt ... ctcttggcagATTGTTCCTATGAAATACAATCCAAGAGATGTGGATTCAATTAAGGCTGTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actcatttttcctttttttttcccttttatgtattctacttttttctcttggcagATTGTTCCTATGAAATACAATCCAAGAGATGTGGATTCAATTAAGGCTGTCATGGCCAAATCCAATGTGGTCATTAACCTAATAG
 cattaac  putative branch site (score: 2)
       tttcctttttttttcc  putative PPT
                        ttttatgtattctact  TA-rich tract