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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atataacattaccattcgggggttaatatttcattaaggatgatgcatattcgtacatttgaccttaccagagagtaacacttgcattttctttcttcagGCTTGAAGAACTTCAAGTATTGGACATCAAGTTCCTGTATGGCTGTGTTAAACCTACTATAGTTGTCCTCTACCAG

Basic information

species Oryza sativa
transcript LOC_Os05g51480.2
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g51480.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G402002_T01 (Zea mays), 3'ss of exon 7
-atataacattaccat--tcgggggttaatatttcattaaggatgatgcatattcgtacatttgaccttaccagagagtaacacttgcattttctttcttcagGCTTGAAGAACTTCAAGTATTGGACATCAAGTTCCTGTATGGCTGTGTTAAACCTACTATAGTTGTCCTCTACCAG
    |||| |||      |   |   |   || |  | |   ||  ||  || | ||  || | |  |||    ||| |||   | ||||||||||   |||| |||||||||||||||||| |||||||||| || ||  |||| |||| |||||||||||| |||||||||||||||
cgattaactttattgggatgatgaacttcgatattctgagtaatattgtctaatagttaatgttatgttattc-agactaag--tagcattttcttctgtcagACTTGAAGAACTTCAAGTACTGGACATCAAATTTCTACATGGTTGTGCTAAACCTACTATTGTTGTCCTCTACCAG

upper sequence: LOC_Os05g51480.1 (Oryza sativa), 3'ss of exon 7
lower sequence: Vv10s0003g04360.t01 (Vitis vinifera), 3'ss of exon 7
atataac--attaccattcgggggttaatat-ttcattaaggatgatgcatattcgtacatttgaccttaccagagagtaacacttgcattttctttcttcagGCTTGAAGAACTTCAAGTATTGGACATCAAGTTCCTGTATGGCTGTGTTAAACCTACTATAGTTGTCCTCTACCAG
|  |||   | ||   ||      || |||| ||  || | | || |  || | | ||  |||    | ||       |   | |      | ||||  |||||||||| || |||||||| ||||| |||||||| || ||||| |||   ||||| ||||| ||||| |||||||||
acttaattgaatagtttttcatcctttatatgtttcttgaagttgttttatctac-tatttttagtttaacactttccttctaatgatgaatgcttt--tcagGCTTGAGGAGCTTCAAGTTTTGGATATCAAGTTTCTTTATGGATGTTCAAAACCAACTATTGTTGTTCTCTACCAG

upper sequence: LOC_Os05g51480.1 (Oryza sativa), 3'ss of exon 7
lower sequence: PP1S458_4V6.1 (Physcomitrella patens), 3'ss of exon 7
---------------atataacattaccattcgggggttaatatttcattaaggatgatgcatattcgtacatttgaccttaccagagagtaacacttgcattttctttctt-cagGCTTGAAGAACTTCAAGTATTGGACATCAAGTTCCTGTATGGCTGTGTTAAACCTACTATAGTTGTCCTCTACCAG
                | |    |   | |  |    ||   ||||| ||     |  |   | ||  ||  |||  | ||        ||  |    |   | |   ||   |||| | ||||| || ||||| |||||||||||||| || |||||||||| |||||||||||| |  || ||||| |||
tgttttctttcttccttcttctttctacttctgcatctttccatttctttctttctctt-tgtgtttttattttttccttttttttttggtttcttaagagGTCTACGTCGCGCAGGTTGGAAGAGCTGCAAGTTTTGGACATCAAGTTTCTTTATGGCTGTGCTAAACCTACTATTGCAGTTCTCTATCAG

upper sequence: LOC_Os05g51480.1 (Oryza sativa), 3'ss of exon 7
lower sequence: EFJ23079 (Selaginella moellendorffii), 3'ss of exon 7
atataacattaccattcgggggttaatatttcattaaggatgatgcatattcgtacatttgaccttaccagagagtaacacttgcattttctttcttcagGCTTGAAGAACTTCAAGTATTGGACATCAAGTTCCTGTATGGCTGTGTTAAACCTACTATAGTTGTCCTCTACCAG
                                                    |||    ||   || || | | | ||| |||    ||       | ||||| |||||||| |||||  ||||||| |||||||||||||||||    ||||| || || | |||||| ||||||
----------------------------------------------------gtaagaatgttttt-cctgtgtgcaacgcttaggattgtcaatcttagGCTGGAAGAACTGCAAGTGCTGGACATAAAGTTCCTGTATGGCTGCTCGAAACCAACAATTGCTGTCCTTTACCAG

upper sequence: LOC_Os05g51480.1 (Oryza sativa), 3'ss of exon 7
lower sequence: EFJ30457 (Selaginella moellendorffii), 3'ss of exon 7
atataacattaccattcgggggttaatatttcattaaggatgatgcatattcgtacatttgaccttaccagagagtaacactt-gcattttctttcttcagGCTTGAAGAACTTCAAGTATTGGACATCAAGTTCCTGTATGGCTGTGTTAAACCTACTATAGTTGTCCTCTACCAG
                                                    |||    ||   || || | | | ||| | | | ||| ||  |||| ||||| |||||||| |||||  ||||||| |||||||||||||||||    ||||| || || | |||||| ||||||
----------------------------------------------------gtaagaatgttttt-cctgtgtgcaacgcgtagtattgtcaatctt-agGCTGGAAGAACTGCAAGTGCTGGACATAAAGTTCCTGTATGGCTGCTCGAAACCAACAATTGCTGTCCTTTACCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catattcgtacatttgaccttaccagagagtaacacttgcattttctttcttcagGCTTGAAGAACTTCAAGTATTGGACATCAAGTTCCTGTATGGCTGTGTTAAACCTACTATAGTTGTCCTCTACCAG
                           gagtaac  putative branch site (score: 2)
                                   cttgcattttctttct  CT-rich tract
                                        attttcttt  TA-rich tract