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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ccttagtacctgatgaagaaatgcctacatattaccacattttactaaccaaaactcaaaaagtctatatgttgttgattattatcatcctatgttgcagGATGAAGAATTTGCAAGGCTCCAGTACAGAAAGAACACCTCGTTGCTACAAAGACTAGAATCAGGTGACCATGATAAATTGCATGCAGAGAAAGTGCGAG

Basic information

species Oryza sativa
transcript LOC_Os01g40330.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g40330.2 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G142913_T01 (Zea mays), 3'ss of exon 3
-----ccttagtacctgatgaagaaatgcctacatattaccacattttactaaccaaaactcaaaaagtctatatgttgttgattattatcatcct-atgttgca-gGATGAAGAATTTGCAAGGCTCCAGTACAGAAAGAACACCTCGTTGCTACAAAGACTAGAATCAGGTGACCATGATAAATTGCATGCAGAGAAAGTGCGAG
     | | |   | ||||||  ||||   || ||||| |||  ||||| |     |    | |||| || ||   ||| ||||||| |  ||  | || ||||| ||||||||||||||||||||||||||| |  ||  |   |||  |||||||||  || |||||||| |  ||||||| | ||||||| || | | | || |
gagagcatgacagcatgatgagaaaatat-taaatattccca--ttttattgcttta----ccaaaaatcaatgcattgctgattataactatttttatcttgcaagGATGAAGAATTTGCAAGGCTCCAGTATAAGAAACATGTCTCAGTGCTACAAAAGCTGGAATCAGGAGGGCATGATAGACTGCATGCCGAAAGACTTCGGG
















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|66923673|gb|CX110521.1|CX110521
EST:     CACTAGAGAAACTTTATGAAGAGGAGCAAAAACTCTACAAGTTAGTCAAG                         GATGAAGAATTTGCAAGGCTCCAGTACAGAAAGAACACCTCGTTGCTACAA
genomic: CACTAGAGAAACTTTATGAAGAGGAGCAAAAACTCTACAAGTTAGTCAAGgtgaattaca ... tatgttgcagGATGAAGAATTTGCAAGGCTCCAGTACAGAAAGAACACCTCGTTGCTACAA
EST: gi|58658990|gb|CK047670.1|CK047670
EST:     CACTAGAGAAACTTTATGAAGAGGAGCAAAAACTCTACAAGTTAGTCAAG                         GATGAAGAATTTGCAAGGCTCCAGTACAGAAAGAACACCTCGTTGCTACAA
genomic: CACTAGAGAAACTTTATGAAGAGGAGCAAAAACTCTACAAGTTAGTCAAGgtgaattaca ... tatgttgcagGATGAAGAATTTGCAAGGCTCCAGTACAGAAAGAACACCTCGTTGCTACAA
EST: gi|58671997|gb|CK060683.1|CK060683
EST:     GACTAGAGAAACTTTATGAAGAGGAGCAAAAACTCTACAAGTTAGTCAAG                         GATGAAGAATTTGCAAGGCTCCAGTACAGAAAGAACACCTCGTTGCTACAA
genomic: CACTAGAGAAACTTTATGAAGAGGAGCAAAAACTCTACAAGTTAGTCAAGgtgaattaca ... tatgttgcagGATGAAGAATTTGCAAGGCTCCAGTACAGAAAGAACACCTCGTTGCTACAA
EST: gi|33675729|gb|CF303968.1|CF303968
EST:     CACTAGAGAAACTTTATGAAGAGGAGCAAAAACTCTACAAGTTAGTCAAG                         GATGAAGAATTTGCAAGGCTCCAGTACAGAAAGAACACCTCGTTGCTACAA
genomic: CACTAGAGAAACTTTATGAAGAGGAGCAAAAACTCTACAAGTTAGTCAAGgtgaattaca ... tatgttgcagGATGAAGAATTTGCAAGGCTCCAGTACAGAAAGAACACCTCGTTGCTACAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taaccaaaactcaaaaagtctatatgttgttgattattatcatcctatgttgcagGATGAAGAATTTGCAAGGCTCCAGTACAGAAAGAACACCTCGTTGCTACAAAGACTAGAATCAGGTGACCATGATAAATTGCATGCAGAGAAAGTGCGAG
                                       tcatcct  CT-rich tract
                          ttgttgattattat  TA-rich tract