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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatttacacagttaacccttcatgatgatgttctttacatggttttgttacgctttgctgttgacatgaattactgaaagatgccaaattcatcttctttgtttcctttataatatagGTCATGCTTGATTTTCAAGCAGCTGAGAGGCAAAGACTTGAGGAACCAGCTTCTGATGTTGGCTTGGAATCTCTATGTGCATTG

Basic information

species Oryza sativa
transcript LOC_Os02g51430.2
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g51430.2 (Oryza sativa), 3'ss of exon 14
lower sequence: GRMZM2G070045_T01 (Zea mays), 3'ss of exon 10
gtatttacacagttaaccctt-------catgatgatgttctttacatggttttgttacgctttgctgttgacatgaattactgaaagatgccaaattcatcttctttgtttcctttataatat--agGTCATGCTTGATTTTCAAGCAGCTGAGAGGCAAAGACTTGAGGAACCAGCTTCTGATGTTGGCTTGGAATCTCTATGTGCATTG
||||||| | ||||| |   |       | |||  ||||   |    ||| ||||||  | |  |||    || |   | |       ||     ||| |  |  ||| |||  ||| | || |  ||||||||||||||||||||||||||||||||||||| |||||||| |||||||||||||||||  ||||||||||||||||||||
gtatttatatagttaccatatgaaattacgtgactatgtgagtctactgggtttgttgtgttacgcttcacacttttgtaatcagttaatttgttatttagatgttttattttatttgtcatttgcagGTCATGCTTGATTTTCAAGCAGCTGAGAGGCAAAGGCTTGAGGAGCCAGCTTCTGATGTTGGTCTGGAATCTCTATGTGCATTG

upper sequence: LOC_Os02g51430.2 (Oryza sativa), 3'ss of exon 14
lower sequence: GLYMA03G03120.1 (Glycine max), 3'ss of exon 16
gtatttacacagttaacccttcatgatgatgttctttacatggttttgt-tacgctttgctgttgacatgaattactgaaagatgccaaattcatcttctttgtttcctttataatatagGTCATGCTTGATTTTCAAGCAGCTGAGAGGCAAAGACTTGAGGAACCAGCTTCTGATGTTGGCTTGGAATCTCTATGTGCATTG
             ||    | ||||| | || || | | |  |   ||| ||    || ||  | | ||   |  ||     || | |  || ||  | | | |||         || |||| ||| ||||||||||||||||||| | | | ||||| || ||||||||||||||  ||||  ||||| || |||||||  ||
---------tcactagaaatccatgaag-tgctcctcatagcgcaatgtgtagtgcttactccttatatcggtagctttgt-atcctaggtt-atactatgtatttt--------tacagGTGATGATTGATTTTCAAGCAGCTGAAAAGAAGAGACTAGAAGAACCAGCTTCTGAAATTGGTCTGGAACCTTTATGTGCTATG

upper sequence: LOC_Os02g51430.2 (Oryza sativa), 3'ss of exon 14
lower sequence: Vv12s0034g02360.t01 (Vitis vinifera), 3'ss of exon 15
gtatttacacagttaacccttcatgatgatgttctttacatggttttgttacgctttgctgttgacatgaattactgaaagatgc-caaattcatcttctttgtttcctttataatatagGTCATGCTTGATTTTCAAGCAGCTGAGAGGCAAAGACTTGAGGAACCAGCTTCTGATGTTGGCTTGGAATCTCTATGTGCATTG
 ||    |    || ||   ||||  || |  ||| | ||||||||    | |   |  |       | || |  | |  ||||  || |||||  |  | | |||           ||||| ||| ||||||||||||||||||| | || ||||||||| ||||| ||||||||  ||||  |||||||| |||||||| ||
-taaaccccttttttacttctcattgtggttgtctat-catggtttgtcaatgtcctatt-------taaaatcataattgatgttcagattcacttcatgttttt-----------tagGTAATGATTGATTTTCAAGCAGCTGAAAAGCGAAGACTTGAAGAACCTGCTTCTGAAATTGGTCTGGAATCTTTATGTGCAATG

upper sequence: LOC_Os02g51430.2 (Oryza sativa), 3'ss of exon 14
lower sequence: Vv03s0097g00670.t01 (Vitis vinifera), 3'ss of exon 15
gtatttacacagttaacccttcatgatgatgttctttacatggttttgttacgctttgctgttgacatgaattactgaaagatgccaaattcatcttctttgtttcctt-tataatatagGTCATGCTTGATTTTCAAGCAGCTGAGAGGCAAAGACTTGAGGAACCAGCTTCTGATGTTGGCTTGGAATCTCTATGTGCATTG
              | ||| |  |  |  |  || ||       | | | | | ||||    || |      || | |||    |  |||| || |||    |  | |  | |  | ||||| ||| ||||||||||||||||||| | || ||||||||| ||||| ||||||||  ||||  |||||||| |||||||| ||
-------------aaccccctttttttacttctcattgtggttgtctatcatggtttgtcaatgtc-----ctatttaaaatcac--aattgatgttcggattcacttcgtgttttttagGTAATGATTGATTTTCAAGCAGCTGAAAAGCGAAGACTTGAAGAACCTGCTTCTGAAATTGGTCTGGAATCTTTATGTGCAATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acatgaattactgaaagatgccaaattcatcttctttgtttcctttataatatagGTCATGCTTGATTTTCAAGCAGCTGAGAGGCAAAGACTTGAGGAACCAGCTTCTGATGTTGGCTTGGAATCTCTATGTGCATTG
 tgttgac  putative branch site (score: 3)
                         ttcatcttctttgttt  putative PPT
                                      tttcctttataatata  TA-rich tract