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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactacagttacccttttttaccttttgcagctatatctattcatacctctgtggattaacgtaggctttcatgttaaatttagttctattgaatgttacatttacatcttaataacaatttttgtcagGATACCAAACTCTTGATCCAAAGGTCGAAGAAGGCATCTGTCAGGTTCTAGCTCATATGTGGCTCGAGTCAGAAATAACATCAGGATCTAGTAGCATCAT

Basic information

species Oryza sativa
transcript LOC_Os03g42820.4
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g42820.3 (Oryza sativa), 3'ss of exon 13
lower sequence: GRMZM2G342105_T02 (Zea mays), 3'ss of exon 8
gtactacagttacccttttttaccttttgcagctatatc-tattcatacctctgtggattaacgtaggctttcatgttaaatttagttctattgaatgttacatttac-atcttaataacaatttttgtcagGATACCAAACTCTTGATCCAAAGGTCGAAGAAGGCATCTGTCAGGTTCTAGCTCATATGTGGCTCGAGTCAGAAATAACATCAGGATCTAGTAGCATCAT
||| |   |||   | | |||| ||      ||   ||| | ||||| | ||  |  |  |   || | || ||    |                  |    |||||| |||||||||    |||| |  |||||||| ||| ||   |||| |||| |||||||||||||||||||||||||||||| | ||||| ||||||||||| |||||||| ||| |||||||   
gtattctggttgtgcctgtttatctacgtttgcagcatcctcttcattcttcgat--accattctatgtttgcacaaca------------------gcagtatttactatcttaatactttttttgggtagGATACCGAACCCTGAGTCCAGAGGTTGAAGAAGGCATCTGTCAGGTTCTAGCTCATCTTTGGCTTGAGTCAGAAATCACATCAGGTTCTGGTAGCATGTC

upper sequence: LOC_Os03g42820.3 (Oryza sativa), 3'ss of exon 13
lower sequence: Vv18s0001g11820.t01 (Vitis vinifera), 3'ss of exon 11
gtactacagttacccttttttaccttttgcagctatatctattcatacctctgtggattaacgtaggctttcatgttaaatttagttctattgaatgttacat--ttacatcttaataacaatttttgtcagGATACCAAACTCTTGATCCAAAGGTCGAAGAAGGCATCTGTCAGGTTCTAGCTCATATGTGGCTCGAGTCAGAAATAACATCAGGATCTAGTAGCATCAT
                               |  | ||  |      ||  | | |  |    |   | ||      ||  |||| | | ||| || | | ||  | |  | ||           |||  ||| || | ||||||||  | | | || |||||||| ||||||||||| |||||| |||||||||| ||  | ||  | ||||| |||||| | || |   |
------------------------------ggaaacattaaactgatccattctagcattgtctcctcatttccac-aatcttaggtat-ttgcatctcagatgctaatgtatttgctgtttcccttggaagGTTATCGAACTCTTGCACAAGATGTGGAAGAAGGTATCTGTCAGGTGCTAGCTTATATGTGGCTAGATGCTGAGCTGACATCTGGATCTGGAAGTAATGT


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaaatttagttctattgaatgttacatttacatcttaataacaatttttgtcagGATACCAAACTCTTGATCCAAAGGTCGAAGAAGGCATCTGTCAGGTTCTAGCTCATATGTGGCTCGAGTCAGAAATAACATCAGGATCTAGTAGCATCAT
                                    taataac  putative branch site (score: 1)
                                             tttttgtc  putative PPT
                      ttacatttacatctta  TA-rich tract