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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaataatttagttccccaattattgaaattgtaccactagtatgatcaatgattttcactgatggactgttcctttgctgattctcctttgaatattgataatctgttaaatttacagGTCCGGTTTATAAGATTCAATTTAAGTTTCGGCGAAGGGATATTCCACCAAATTTTGATGTCGATCACCTCG

Basic information

species Oryza sativa
transcript LOC_Os03g06900.1
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g06900.1 (Oryza sativa), 3'ss of exon 17
lower sequence: GRMZM2G470438_T03 (Zea mays), 3'ss of exon 11
gtgaataatttagttccccaattattgaaattgtaccactagtatgatcaatgattttcactgatggactgttcctttgctgattctcctttgaatat-tgataa-tctgttaaatttacagGTCCGGTTTATAAGATTCAATTTAAGTTTCGGCGAAGGGATATTCCACCAAATTTTGATGTCGATCACCTCG
      |  ||||   |||| || ||||   ||             ||  ||| |  | | || |    | | || ||||  ||||  ||   | | | ||  || |||   | |  |||||| || ||||||||||||||||| ||||| || || |||||||||||||||||||| ||||| |||||||| |
---gtcatcttagagtcccatttgttgaccctg-------------atttatgttggttattgtttagttttcccattgcc-attccgctcaaattgtatggcaactctaccacacctacagGCCCTGTTTATAAGATTCAATTCAAGTTCCGTCGGAGGGATATTCCACCAAATTTCGATGTTGATCACCTAG

upper sequence: LOC_Os03g06900.1 (Oryza sativa), 3'ss of exon 17
lower sequence: Vv04s0044g01570.t01 (Vitis vinifera), 3'ss of exon 12
--------------------------------------------------------gtgaataatttagttccccaattat--tgaaattgtaccactagtatgatcaatgattttcactgatggactgttcctttgctgattctcctttgaatattgataatctgttaaa-------------tttacagGTCCGGTTTATAAGATTCAATTTAAGTTTCGGCGAAGGGATATTCCACCAAATTTTGATGTCGATCACCTCG
                                                         ||| || |          | || |  ||    ||  | || |       |   |     | |   |   ||   |  ||  |  | ||  ||   || |   | || | ||||              |||| |||||| ||||| |||||||||||||||||||| ||    || |||||||| ||||   || |||||||  | |
gtaccccactataagatatattactctttgtctagcttgttgagttgtttctttgtttgattagtgctagcatttacttgtgatgtggctgcccaaccacccacccccgcgccccccccccctcccctcccctcttttttttcctgtttcagatttcatttatttattaataatacaaaattgttttatagGTCCTGTTTACAAGATTCAATTTAAGTTTCGCCGGCTAGAAATTCCACCGAATTACAATATCGATCATTTGG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggactgttcctttgctgattctcctttgaatattgataatctgttaaatttacagGTCCGGTTTATAAGATTCAATTTAAGTTTCGGCGAAGGGATATTCCACCAAATTTTGATGTCGATCACCTCG
                              tattgat  putative branch site (score: 3)
                        tttgaatattgataat  TA-rich tract