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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatggattattttcttctattgcatgtttcacacttatatgtcttgttgattcagtgtatttgaacttccaagcaacaattatgctgcatgtgagccaaaactggacagacttttgatcacttaccttttgtttaccattctgcagTCACTGGGTGTTCTTTCTGAAGCACAGTACTTTCAGAATGTCATGCGAACGGGTTTCAGGTTGAGGTCAACATTG

Basic information

species Oryza sativa
transcript LOC_Os04g52900.2
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g52900.1 (Oryza sativa), 3'ss of exon 9
lower sequence: GRMZM2G084181_T01 (Zea mays), 3'ss of exon 9
gtatggattattttcttctattgcatgtttcacacttatatgtcttgttgattcagtgtatttgaacttccaagcaacaattatgctgcatgtgagccaaaactggacagacttttgatcacttaccttttgtttaccattctgcagTCACTGGGTGTTCTTTCTGAAGCACAGTACTTTCAGAATGTCATGCGAACGGGTTTCAGGTTGAGGTCAACATTG
                                         || | | | |||  || |  |  |   |     | ||| || |      | |  |   |      ||||   ||  |  |||||| | |   ||  |||| | |||||||| || |||||| |||| ||||||||||||||||| ||||||||   |||||||||||||||||| ||||||
-----------------------------------------gtatgggtcattttgtttcctgcatgctgtgcaccacatttgtttcttgtttcggtgcagttgaaacagcaattatagtacttacgtctc--ttctcatttt-cagTCACTTGGGGTTCTTGCTGAGGCACAGTACTTTCAGAACGTCATGCGTGTGGGTTTCAGGTTGAGGTCCACATTG

upper sequence: LOC_Os04g52900.1 (Oryza sativa), 3'ss of exon 9
lower sequence: Vv10s0003g04470.t01 (Vitis vinifera), 3'ss of exon 10
gtatggattattttcttctattgcatgtttcacacttatatgtcttgttgattcagtgtatttgaacttccaagcaacaattatgctgcatgtgagccaaaactgga---cagacttttgatcacttacctt---ttg----tttaccattctgcagTCACTGGGTGTTCTTTCTGAAGCACAGTACTTTCAGAATGTCATGCGAACGGGTTTCAGGTTGAGGTCAACATTG
                                                          ||| |||| |   | | || |||||     ||| | |  |||  ||| |        || ||||  |||   ||   |||    |||| | || | |||||| |||| || |||| |||||| ||||||||||||||||| |||||    |||||  || | || |||||  ||
--------------------------------------------------------catatatgaattcaaatgtaaaaattaactgacatctaattcaag-ctgaagttttagtttgtgattccttttattgacttgacaatttaactttgtccagTCATTGGGGGTGCTTTGTGAAGCTCAGTACTTTCAGAATGTTATGCGCGTCGGTTTTCGGCTAAGATCAACTCTG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgagccaaaactggacagacttttgatcacttaccttttgtttaccattctgcagTCACTGGGTGTTCTTTCTGAAGCACAGTACTTTCAGAATGTCATGCGAACGGGTTTCAGGTTGAGGTCAACATTG
                           cacttac  putative branch site (score: 2)
                                            ccattct  putative PPT
                                   ttttgttta  TA-rich tract