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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagccatacattctcatcctgctatctaattataagcactaaatccagcattaggtcatattagtacttttcgctgtatacagGTGTGGACACCTAGAGTGATCACCCTCTGGGAGGCCTTGCTGACAGTACTGCAATATGGACTGCTTCTGCTTCATGCATATGCGCAGGATAAGCGCTGGC

Basic information

species Oryza sativa
transcript LOC_Os11g43860.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os11g43860.2 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G126601_T01 (Zea mays), 3'ss of exon 3
----------------------gtaagccatacattctcatcctgctatctaattataagcactaaatccagcattaggtcatattagtactttt--cgctgtatacagGTGTGGACACCTAGAGTGATCACCCTCTGGGAGGCCTTGCTGACAGTACTGCAATATGGACTGCTTCTGCTTCATGCATATGCGCAGGATAAGCGCTGGC
                        |  | | | | | |  || | |   | || ||      ||| ||     | || |||  |  | |  | |   |||||    ||||||||||| |||||||||||||||||||||||||| | ||||||||| ||||| ||||| |||||||| || ||||| |||||||||||||| || || |
gtactagaaaccatcaccagccaaagtcgaaagaattttgtcataca--caaaatagttctgctatatatgcaagtatgtctgaacactcttctctgcgctgcgctcagGTGTGGACGCCTAGAGTGATCACCCTCTGGGAGGCATCGCTGACAGTCCTGCAGTATGGGCTGCTTCTACTCCATGCGTATGCGCAGGATAAACGATGTC

upper sequence: LOC_Os11g43860.2 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G037831_T02 (Zea mays), 3'ss of exon 2
----------------------------------gtaagccatacattctcatcctgctatctaattataagcactaaatccagcattaggtcatattagtactttt--cgctgtatacagGTGTGGACACCTAGAGTGATCACCCTCTGGGAGGCCTTGCTGACAGTACTGCAATATGGACTGCTTCTGCTTCATGCATATGCGCAGGATAAGCGCTGGC
                                   |    |  |   ||   | || | | |  |   |  |   ||  |     | || |||  |  | |  | |   ||||| |  ||||||||||| |||||||||||||||||||||||||| | ||||||||| ||||| ||||| ||||||||||| ||||| |||||||||||||| || ||||
gtacgagataccatcaccagccaaagtcgaaagaatttatctcatggtcatgtgct-ccaccagaaggttgggtgtatgtatgcaagtatgtctgaacaatcttctctgcgctgcactcagGTGTGGACGCCTAGAGTGATCACCCTCTGGGAGGCATAGCTGACAGTCCTGCAGTATGGGCTGCTTCTGCTCCATGCGTATGCGCAGGATAAACGGTGGC


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attataagcactaaatccagcattaggtcatattagtacttttcgctgtatacagGTGTGGACACCTAGAGTGATCACCCTCTGGGAGGCCTTGCTGACAGTACTGCAATATGGACTGCTTCTGCTTCATGCATATGCGCAGGATAAGCGCTGGC
        cactaaa  putative branch site (score: 2)
                                      cttttcgct  putative PPT
                             atattagtactttt  TA-rich tract