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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttgtcaactctttagtatgcctcaacaactcaacattatatttcttttggattgtctctattgctccacagaaacttctgcaaatgcataactaagttgttaggagaagtgattctgtcacttgtattgcataattgcagGTATGTCGCTTGGATTTGCTTCGCTTCACTATATCATCTTCCCAGCTTCCAATCAATGGGAGTTGATATGCGCATGAACCTTTCACTTTTTTTGACGATA

Basic information

species Oryza sativa
transcript LOC_Os07g01540.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g01540.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G135839_T01 (Zea mays), 3'ss of exon 2
gtatgttgtcaactctttagtatgcctcaacaactcaacattatatttcttttggattgtctctattgctccacagaaacttc-tgcaaatgcataactaagttgttaggagaagtgattctgtcacttgtattgcataattgcagGTATGTCGCTTGGATTTGCTTCGCTTCACTATATCATCTTCCCAGCTTCCAATCAATGGGAGTTGATATGCGCATGAACCTTTCACTTTTTTTGACGATA
||| ||  || ||| || ||  | | |||| || ||||   | |     ||||    | | ||  | |||  | |||| ||   ||  |||   |   | | |||||| |  |  | | ||    | | |||||| | |||||||||||||| |||||||||||||| || || || || |||||||| |||||||| |||||||| |||||||||||||||||||| || ||||| ||||| |||
gtacgt-atccact-ttcaggcttcttcaa-aagtcaatgctttggcgttttt----tatttcattggct--agagaagctctatgtcaat---tgctttaattgttatgt-acatcactcgtatagtggtattgtacaattgcagGTATGTTGCTTGGATTTGCTTTGCATCCCTGTACCATCTTCCTAGCTTCCAGTCAATGGGGGTTGATATGCGCATGAACCTCTCGCTTTTCTTGACAATA

upper sequence: LOC_Os07g01540.1 (Oryza sativa), 3'ss of exon 2
lower sequence: EFJ24167 (Selaginella moellendorffii), 3'ss of exon 1
gtatgttgtcaactctttagtatgcctcaacaactcaacattatatttcttttggattgtctctattgctccacagaaacttctgcaaatgcataactaagttgttaggagaagtgattctgtcacttgtattgcataattgcagGTATGTCGCTTGGATTTGCTTCGCTTCACTATATCATCTTCCCAGCTTCCAATCAATGGGAGTTGATATGCGCATGAACCTTTCACTTTTTTTGACGATA
                                                                                        |  | |   |      ||   |    ||||| | ||  |  | |||| | ||  |||||||||   |||| |     | ||  || ||||||||||||| ||||||||||| ||||||||||| || || |||||| | || || ||  | ||| ||
--------------------------------------------------------------------------------------gtactctttcttgttagattgaaaattatgatttt-tctttctttttgctttatctcagGTATGTTCTTTGGTTGCTTGTTGCGGCAGTATATCATCTTCCAAGCTTCCAATCCATGGGAGTTGACATTCGGATGAACTTATCCCTCTTCCTTACGTTA


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcataactaagttgttaggagaagtgattctgtcacttgtattgcataattgcagGTATGTCGCTTGGATTTGCTTCGCTTCACTATATCATCTTCCCAGCTTCCAATCAATGGGAGTTGATATGCGCATGAACCTTTCACTTTTTTTGACGATA
 gcataac  putative branch site (score: 3)
                                             ataatt  TA-rich tract