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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttaatcaataatagttgcctaatcagttagacgctgtctctggtgctgtttaggaagttcttatatatctcaaatgtggaccaccatttgcttactacagGTGGCAAGGATAATTTTGTTCATCTACTTGTTTTACCACATATACTTTCACATTGATCAG

Basic information

species Oryza sativa
transcript LOC_Os01g56230.2
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g56230.5 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM5G825226_T03 (Zea mays), 3'ss of exon 7
ttaatcaataatagttgcctaatcagttagacgctgtctctggtgctgtttaggaagttcttatatatctc-----aaatgtggaccaccatttgcttactacagGTGGCAAGGATAATTTTGTTCATCTACTTGTTTTACCACATATACTTTCACATTGATCAG
 | ||   |  | ||  ||||||||||  | |  |   ||| || ||| ||||  | ||  | |   | ||     ||  |||||   ||| ||||||  | ||||||||| |||| ||||||||| ||||||||||||||||||| ||||| |||  |||||||
-tgatttttttttgt--cctaatcagt--gccaatccttcttgtactgcttagtgactttctgttattttctatctaatcgtggagagccaattgcttcatgcagGTGGCACGGATCATTTTGTTCGTCTACTTGTTTTACCACATTTACTTCCACTATGATCAG
















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|300215972|gb|HO088598.1|HO088598
EST:     GATCGAAAGCCTATCTTGTCAATGGTGTTACAATGTTTGTTGCATGGCTG                         GTGGCAAGGATAATTTTGTTCATCTACTTGTTTTACCACATATACTTTCAC
genomic: GATCGAAAGCCTATCTTGTCAATGGTGTTACAATGTTTGTTGCATGGCTGgtaagtgaaa ... cttactacagGTGGCAAGGATAATTTTGTTCATCTACTTGTTTTACCACATATACTTTCAC
EST: gi|24208073|gb|AU225100.1|AU225100
EST:     GATCGAAAGCCTATCTTGTCAATGGTGTTACAATGTTTGTTGCATGGCTG                         GTGGCAAGGATAATTTTGTTCATCTACTTGTTTTACCACATATACT
genomic: GATCGAAAGCCTATCTTGTCAATGGTGTTACAATGTTTGTTGCATGGCTGgtaagtgaaa ... cttactacagGTGGCAAGGATAATTTTGTTCATCTACTTGTTTTACCACATATACT
EST: gi|29660432|gb|CB656707.1|CB656707
EST:     GATCGAAAGCCTATCTTGTCAATGGTGTTACAATGTTTGTTGCATGGCTG                         GTGGCAAGGATAATTTTGTTCATCTACTTGTTTTACCACATATACTTTCAC
genomic: GATCGAAAGCCTATCTTGTCAATGGTGTTACAATGTTTGTTGCATGGCTGgtaagtgaaa ... cttactacagGTGGCAAGGATAATTTTGTTCATCTACTTGTTTTACCACATATACTTTCAC
EST: gi|88260142|gb|CI361643.1|CI361643
EST:     GTTGCATGGCTG                         GTGGCAAGGATAATTTTGTTCATCTACTTGTTTTACCACATATACTTTCAC
genomic: GTTGCATGGCTGgtaagtgaaa ... cttactacagGTGGCAAGGATAATTTTGTTCATCTACTTGTTTTACCACATATACTTTCAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgtttaggaagttcttatatatctcaaatgtggaccaccatttgcttactacagGTGGCAAGGATAATTTTGTTCATCTACTTGTTTTACCACATATACTTTCACATTGATCAG
                                           tgcttac  putative branch site (score: 2)
                                         tttgctt  CT-rich tract
               ttatatatctcaaat  TA-rich tract