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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcttgcatatttctgattgccgatagctatctcaattttgtttgttgaacttgaagtttgacttgtaattttatcagCCATATGCTGCAGCAAAGGCTAGAGAATACCTCGACAAGCCTGCTTTGCATGAAACAATGGTTAAG

Basic information

species Oryza sativa
transcript LOC_Os03g02150.1
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g02150.1 (Oryza sativa), 3'ss of exon 13
lower sequence: GRMZM2G137236_T01 (Zea mays), 3'ss of exon 14
gttcttgcatatttctgattgccgatagctatctcaattttgtttgttgaacttgaagtttgactt--gtaattttatcagCCATATGCTGCAGCAAAGGCTAGAGAATACCTCGACAAGCCTGCTTTGCATGAAACAATGGTTAAG
|||  || |||| | |  |||   | |   ||||| | ||| ||| ||||| ||   |||    ||  | ||||||||||| |||| |||||| | || || |||||||| || |||||||||||||| ||||| || ||||| |||
gtttgtgtatatatatagttgagcaaaatcatctctacttttttttttgaatttatggttcattttttgcaattttatcagTCATACGCTGCAACTAAAGCGAGAGAATATCTTGACAAGCCTGCTTTACATGAGACGATGGTCAAG

upper sequence: LOC_Os03g02150.1 (Oryza sativa), 3'ss of exon 13
lower sequence: GLYMA17G05410.1 (Glycine max), 3'ss of exon 13
--gttcttgcatatttctgattgcc--gatagctatctcaattttgtttgttgaacttgaagtttgacttgtaattttatcagCCATATGCTGCAGCAAAGGCTAGAGAATACCTCGACAAGCCTGCTTTGCATGAAACAATGGTTAAG
  ||  ||| | | || |  |  |   ||||    |  | |||||     |    |   | |  |   || |   ||| |||||| |||||||||||||| ||| ||||||| || ||||| |||||| | ||||| ||||||||||||
gtgtgtttgaa-acttgtagtgactatgatactgcttcctattttacacatcattcacaaggcat--tttctgtctttctcagCCTTATGCTGCAGCAAAAGCTCGAGAATATCTTGACAAACCTGCTATACATGAGACAATGGTTAAG

upper sequence: LOC_Os03g02150.1 (Oryza sativa), 3'ss of exon 13
lower sequence: GLYMA12G30520.1 (Glycine max), 3'ss of exon 13
--gttcttgcatatttctgattgcc--gatagctatctcaattttgtttgttgaacttgaagtttgacttgtaattttatcagCCATATGCTGCAGCAAAGGCTAGAGAATACCTCGACAAGCCTGCTTTGCATGAAACAATGGTTAAG
  ||  ||| | | || |  |  |   ||||    |  | | |||     |    |   | |  |   ||     ||| |||||| |||||||| ||||| ||| ||||||| || ||||| |||||| | ||||| ||||||||||||
gtgtgtttgaa-acttgtagtgactatgatactgcttcctaatttacacatcattcacaaggcat--tttccgtctttgtcagCCTTATGCTGCGGCAAAAGCTCGAGAATATCTTGACAAACCTGCTATACATGAGACAATGGTTAAG

upper sequence: LOC_Os03g02150.1 (Oryza sativa), 3'ss of exon 13
lower sequence: Vv06s0061g01170.t01 (Vitis vinifera), 3'ss of exon 13
------------gttcttgcatatttct---gattgccgatagctatctcaattttgtttgttgaacttgaagtttgacttgtaattttatcagCCATATGCTGCAGCAAAGGCTAGAGAATACCTCGACAAGCCTGCTTTGCATGAAACAATGGTTAAG
             |||||||||  |||    |||||  |    |||| |||    |  |     || |       |      | |  |  |||||| ||||| ||||||||||| ||||| || || |||||||||||| | ||||| |||||||| |||
gtgatcatcatctttcttgcatgattcattggattggtgtcttctatttcagaagtcatccaataattaatttccttgtactttacatcttcagCCCTATGCAGCAGCAAAGGCAAGAGAGTATCTTGACAAGCCTGCTATCCATGAGACAATGGTCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atagctatctcaattttgtttgttgaacttgaagtttgacttgtaattttatcagCCATATGCTGCAGCAAAGGCTAGAGAATACCTCGACAAGCCTGCTTTGCATGAAACAATGGTTAAG
                                 gtttgac  putative branch site (score: 4)
                                              ttttatc  putative PPT
                                      acttgtaattttat  TA-rich tract