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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtcgaaacttggaagttaaagcatggccctatgcaagctctgagagtctgagcactgactaattgaaacgctcgtgttgcagTTATTCATGTGCCTAGCTACGAATCTGTCAGGCGCAAGTTCCATTCCAAGTGAGCATTCAGCACCTGGACCTGCGTGGGTTGTTCTGGAATTTCAAGCCG

Basic information

species Oryza sativa
transcript LOC_Os05g44916.2
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g44916.2 (Oryza sativa), 3'ss of exon 11
lower sequence: GRMZM2G005036_T02 (Zea mays), 3'ss of exon 13
gtatgtcgaa-acttggaagttaaagcatggccctatgcaagctctgagagtctgagcactgactaattgaaacgctcgtgttgcagTTATTCATGTGCCTAGCTACGAATCTGTCAGGCGCAAGTTCCATTCCAAGTGAGC--ATTCAGCACCTGGACCTGCGTGGGTTGTTCTGGAATTTCAAGCCG
||||||  |  | ||   |||  |  |||||  |  ||    |    |  || ||      |||||| ||||  |||  | |||||||||||||||| ||||||||||| ||||| || |||||||| || || |||||||   || ||||| | |||| ||| ||   |||||    |  | | |   
gtatgttcagcagtttcgagt--agtcatggtgcattggtgcccgacaaggtatgg----cgactaactgaattgcttttattgcagTTATTCATGTTCCTAGCTACGAGTCTGTTAGCCGCAAGTTTCACTCGAAGTGAGAGGATCCAGCATC-GGACTTGCATGACCTGTTCCAACAACTGATGTG-
















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|86496588|gb|CI139221.1|CI139221
EST:     TGCAAAGAAGATTATTTCTTCGCCGCTTACATTGGCATCATGGGGTGATG                         TTATTCATGTGCCTAGCTACGAATCTGTCAGGCGCAAGTTCCATTCCAAGT
genomic: TGCAAAGAAGATTATTTCTTCGCCGCTTACATTGGCATCATGGGGTGATGgtatgtcgaa ... cgtgttgcagTTATTCATGTGCCTAGCTACGAATCTGTCAGGCGCAAGTTCCATTCCAAGT
EST: gi|87036708|gb|CI191330.1|CI191330
EST:     TGCAAAGAAGATTATTTCTTCGCCGCTTACATTGGCATCATGGGGTGATG                         TTATTCATGTGCCTAGCTACGAATCTGTCAGGCGCAAGTTCCATTCCAAGT
genomic: TGCAAAGAAGATTATTTCTTCGCCGCTTACATTGGCATCATGGGGTGATGgtatgtcgaa ... cgtgttgcagTTATTCATGTGCCTAGCTACGAATCTGTCAGGCGCAAGTTCCATTCCAAGT
EST: gi|88993445|gb|CI257873.1|CI257873
EST:     TGCAAAGAAGATTATTTCTTCGCCGCTTACATTGGCATCATGGGGTGATG                         TTATTCATGTGCCTAGCTACGAATCTGTCAGGCGCAAGTTCCATTCCAAGT
genomic: TGCAAAGAAGATTATTTCTTCGCCGCTTACATTGGCATCATGGGGTGATGgtatgtcgaa ... cgtgttgcagTTATTCATGTGCCTAGCTACGAATCTGTCAGGCGCAAGTTCCATTCCAAGT
EST: gi|88223386|gb|CI223235.1|CI223235
EST:     AGATTATTTCTTCGCCGCTTACATNGGCATCATGGGGTGATG                         TTATTCATGTGCCTAGCTACGAATCTGTCAGGCGCAAGTTCCATTCCAAGT
genomic: AGATTATTTCTTCGCCGCTTACATTGGCATCATGGGGTGATGgtatgtcgaa ... cgtgttgcagTTATTCATGTGCCTAGCTACGAATCTGTCAGGCGCAAGTTCCATTCCAAGT
EST: gi|33654803|gb|CF277417.1|CF277417
EST:     TCGCCGCTTACATTGGCATCATGGGGTGATG                         TTATTCATGTGCCTAGCTACGAATCTGTCAGGCGCAAGTTCCATTCCAAGT
genomic: TCGCCGCTTACATTGGCATCATGGGGTGATGgtatgtcgaa ... cgtgttgcagTTATTCATGTGCCTAGCTACGAATCTGTCAGGCGCAAGTTCCATTCCAAGT
EST: gi|89173544|gb|CI041437.1|CI041437
EST:     TGCAAAGAAGATTATTTCTTCGCCGCTTACATTGGCATCATGGGGTGATG                         TTATTCATGTGCCTAGCTACGAATCTGTCAGGCGCAAGTTCCATTCCAAGT
genomic: TGCAAAGAAGATTATTTCTTCGCCGCTTACATTGGCATCATGGGGTGATGgtatgtcgaa ... cgtgttgcagTTATTCATGTGCCTAGCTACGAATCTGTCAGGCGCAAGTTCCATTCCAAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cctatgcaagctctgagagtctgagcactgactaattgaaacgctcgtgttgcagTTATTCATGTGCCTAGCTACGAATCTGTCAGGCGCAAGTTCCATTCCAAGTGAGCATTCAGCACCTGGACCTGCGTGGGTTGTTCTGGAATTTCAAGCCG
                             gactaat  putative branch site (score: 2)
                                taattgaaa  TA-rich tract