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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttcttttgatagtctcaccatttacctaaaatgctacattattagttccatatttctagtacatgtagatataattaccatgccatatattctgagatattccagattgtatggaatttataattctcagatgaacaacttgtcaatgtacttgactagacgttgttaagaactaatttttgcttccaattgcagTCTGCAGCATTAGTAGGTGACTTCAACAATTGGAATCCAAATGCAGACCGCATGAGCAAA

Basic information

species Oryza sativa
transcript LOC_Os02g32660.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g32660.1 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G032628_T01 (Zea mays), 3'ss of exon 5
gtatgttctttt----gatagtctcaccat-ttacctaaaatgctacattattagttccatatttctagtacatgtagatataattaccatgccatatattctgagatattccagattgtatggaatttataattctcagatgaacaacttgtcaatgtacttgactagacgttgttaagaactaatttttgcttccaattgcagTCTGCAGCATTAGTAGGTGACTTCAACAATTGGAATCCAAATGCAGACCGCATGAGCAAA
||||| |||||       || ||| | | | || | ||  ||| |||| || ||||||||| ||||       | |    || || ||  | |||  ||  |  || || || | |||  ||  |  || ||  |   | ||  | |  ||||||   |      ||||  ||| || |||| | | |  ||||| | ||   ||||||||||||| || |||||||||||||| ||| ||||||||||||| || |||||||||
gtatgatctttcttcaattattctaatcttattgcttatcatgatacaatactagttccatgtttcat-----tatgagaatgatcactctcccagcta--cgaagctactc-atatttaataaatcttttaccttcaaaatatatacattgtcagacttagctcctag-tgttattcagaattgactcctgctttctatcttagTCTGCAGCATTGGTGGGTGACTTCAACAACTGGGATCCAAATGCAGATCGTATGAGCAAA

upper sequence: LOC_Os02g32660.1 (Oryza sativa), 3'ss of exon 5
lower sequence: GLYMA03G35020.1 (Glycine max), 3'ss of exon 5
gtatgttcttttgatagtctcaccatttacctaaaatgctacattattagttccatatttctagtacatgtagatataattaccatgccatatattctgagatattccagattgtatggaatttataattctcagatgaacaacttgtcaatgtacttgactagacgttgttaagaactaatttttgcttccaattgcagTCTGCAGCATTAGTAGGTGACTTCAACAATTGGAATCCAAATGCAGACCGCATGAGCAAA
                                                                                          | | |  | | || ||  |||    ||    |    ||||   | |  | |   || |  || | ||   | |  | || |  |       || ||| ||  | || ||||| ||||||||| | || |||||||||||||||||||||||||||||    |||| ||| 
------------------------------------------------------------------------------------------tgtgtctttaaat-ttgaagaca--attacttgcgcaatttctata-aagctggttttttatttcctctgcaaaccattatggatg-----ttattgattg-attttcagTCGGCAGCATTAATTGGAGACTTCAACAATTGGAATCCAAATGCAGATGTAATGACCAAG

upper sequence: LOC_Os02g32660.1 (Oryza sativa), 3'ss of exon 5
lower sequence: GLYMA19G37750.1 (Glycine max), 3'ss of exon 5
gtatgttcttttgatagtctcaccatttacctaaaatgctacattattagttccatatttctagtacatgtagatataattaccatgccatatattctgagatattccagattgtatggaatttataattctcagatgaacaacttgtcaatgtacttgactagacgttgttaagaactaatttttgcttccaattgcagTCTGCAGCATTAGTAGGTGACTTCAACAATTGGAATCCAAATGCAGACCGCATGAGCAAA
                                                                                          | | |  | | || ||  |||    ||    |    ||||   | |  | |   || | | |   | ||   | ||  |  |      || |  ||||||     | ||||| ||||||||| | || |||||||||||||||||||||||||||||    |||| ||  
-----------------------------------------------------------------------------------------gtgtgtctttaaat-ttgaagaca--attacttacgcaatttctata-aagctgttttttatttcccctg--caaaccattatggatgttattgattgctt-----ttcagTCAGCAGCATTAATTGGAGACTTCAACAATTGGAATCCAAATGCAGATGTAATGACCAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtcaatgtacttgactagacgttgttaagaactaatttttgcttccaattgcagTCTGCAGCATTAGTAGGTGACTTCAACAATTGGAATCCAAATGCAGACCGCATGAGCAAA
                              aactaat  putative branch site (score: 2)
                                    tttttgcttcc  CT-rich tract
                         ttaagaactaattttt  TA-rich tract