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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaccttttttttaacacttctttttaacatacatgtgctcattagattatttgcaattggactccatgtgtttatcatgaattttgtgatgcagTATCTAGTTCAATCGGCCGTTGATGGATATAATGTTTGTATATTTGCTTATGGGCAAACTGGTTCTGGAAAAACTTTTACAATTTATGGATCTGAAAACA

Basic information

species Oryza sativa
transcript LOC_Os04g57140.1
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g57140.2 (Oryza sativa), 3'ss of exon 18
lower sequence: GRMZM2G070273_T01 (Zea mays), 3'ss of exon 17
----------------------------------------gtgaccttttttttaacacttc--tttttaacat-acatgtgctcattagattatttgcaatt-ggactccatgtgtttatcatgaattt-tgtgatgcagTATCTAGTTCAATCGGCCGTTGATGGATATAATGTTTGTATATTTGCTTATGGGCAAACTGGTTCTGGAAAAACTTTTACAATTTATGGATCTGAAAACA
                                        || |      |||||   ||    || ||  | | | |||  ||  | |  |||| | || || ||  | ||| || |  |  ||||||| ||||||||||||||| || ||||| || ||||||||||||||||| ||||||||||| ||||| ||||||||||||||||| ||||| || |||||||| || |||||||
gtgaatatttcaaatgctatcttttgtgttgatgccgtcggtaatacaaattttatttctaagattgttggcttcatatgatctgttgaatttatgttcattttgggtttcatatgatc-tgttgaatttatgtgatgcagTATCTGGTACAATCAGCTGTTGATGGATATAATGTCTGTATATTTGCGTATGGCCAAACTGGTTCTGGAAAGACTTTCACTATTTATGGTTCAGAAAACA

upper sequence: LOC_Os04g57140.2 (Oryza sativa), 3'ss of exon 18
lower sequence: GRMZM2G423861_T02 (Zea mays), 3'ss of exon 17
---------------gtgaccttttttttaacacttctttttaacatacatgtgctcattag-attatttgcaattggactccatgtgtttatcatgaattt-tgtgatgcagTATCTAGTTCAATCGGCCGTTGATGGATATAATGTTTGTATATTTGCTTATGGGCAAACTGGTTCTGGAAAAACTTTTACAATTTATGGATCTGAAAACA
               |  | ||||| | |        |   ||| ||| || |  |   ||| | | ||  |    ||  | ||| || |  |  ||||||| |||||||||||| || || ||||| || |||||||||||||| ||||| |||||||| ||||| ||||||||||||||||| ||||| || |||||||| || || ||||
gtgaatatttcaaatgctatcttttgtgttgatgccatcagtaatataaattttatttctaggactgttcactga-gggtttcatatgat-gtgttgaatttatgtgatgcagTACCTGGTACAATCAGCTGTTGATGGATATAACGTTTGCATATTTGCATATGGTCAAACTGGTTCTGGAAAGACTTTCACTATTTATGGTTCAGATAACA

upper sequence: LOC_Os04g57140.2 (Oryza sativa), 3'ss of exon 18
lower sequence: GLYMA01G35950.1 (Glycine max), 3'ss of exon 19
-------------------------gtgaccttttttttaacacttctttttaacatacatgtgctcattagattatttgcaattggactccatgtgtttatcatg-aattttgtgatgcagTATCTAGTTCAATCGGCCGTTGATGGATATAATGTTTGTATATTTGCTTATGGGCAAACTGGTTCTGGAAAAACTTTTACAATTTATGGATCTGAAAACA-------
                          |    ||||  || | |   | | |  ||||  |  ||    | | ||| |||  | |      | |||| ||| |  || || ||||  ||||||||  |||| ||||| || || ||||| ||||||||||| |||||||||||||| ||||||||||||||||| ||||||||||| ||||||  ||||||||       
gtcttagtataacaaattatagatcatagttttttgctttagatagcatat--acattgaaatggatttaatattttttatactcattaccaatgtttttcttttggaaatttgcaatgcagtacttagTGCAATCTGCTGTGGATGGTTATAATGTTTGCATATTTGCTTATGGTCAAACTGGTTCTGGAAAGACTTTTACAATCTATGGAGTTGAAAACAATCCTGG

upper sequence: LOC_Os04g57140.2 (Oryza sativa), 3'ss of exon 18
lower sequence: GLYMA11G09480.1 (Glycine max), 3'ss of exon 19
-----------------------------gtgaccttttttttaacacttctttttaacatacatgtgctcattagattatttgcaattggactccatgtgtttatcatgaat-tttgtgatgcagTATCTAGTTCAATCGGCCGTTGATGGATATAATGTTTGTATATTTGCTTATGGGCAAACTGGTTCTGGAAAAACTTTTACAATTTATGGATCTGAAAACA
                              |    ||||  || | |     | |  |   | ||    | | ||  || | |  | |        |||| ||| |  || |  ||||  ||||||||  |||| ||||| || || ||||| ||||||||||| ||||||||||| || |||||||||||||| || ||||||||||| |||||| |||||||||
gcaagtcttagtataacaaattaaagatcctagttttttgctttagataatatgtacattgaaatagatttaatat-ttttctatactcattactaatgtttttcttttggacatttgcaatgcagTACTTAGTGCAATCTGCTGTAGATGGTTATAATGTTTGCATATTTGCTTACGGTCAAACTGGTTCTGGGAAGACTTTTACAATCTATGGAGCTGAAAACA

upper sequence: LOC_Os04g57140.2 (Oryza sativa), 3'ss of exon 18
lower sequence: GLYMA09G32740.1 (Glycine max), 3'ss of exon 19
---------------gtgaccttttttttaacacttctttttaacatacatgtgctcattagattatttgcaattggactccatgtgtttatcatgaattttgtgatgcagTATCTAGTTCAATCGGCCGTTGATGGATATAATGTTTGTATATTTGCTTATGGGCAAACTGGTTCTGGAAAAACTTTTACAATTTATGGATCTGAAAACA
                 | |   |  |||| ||  | | |||    |  ||| |  ||| | || | || || |        ||   ||| || || |||| |  ||||||||| | || || || || || ||||| ||||||||||| |||||||| ||||| |||||||| |||||||| || |||||||| ||||||||||| ||||
gtatttgaggatacaaaggcaagtcatttatcatatttatttcttgtttatgggaacat-atataacttacactca----ttatcaatttctcgtggattt-gcaatgcagTATTTGGTGCAGTCTGCTGTAGATGGTTATAATGTTTGCATATTTGCCTATGGTCAAACTGGCTCTGGAAAGACATTTACAATCTATGGATCTGACAACA

upper sequence: LOC_Os04g57140.2 (Oryza sativa), 3'ss of exon 18
lower sequence: GLYMA16G21340.1 (Glycine max), 3'ss of exon 22
gtgaccttttttttaacacttctttttaacatacatgtgctcattagattatttgcaattggactccatgtgtttatcatgaattttgtgatgcagTATCTAGTTCAATCGGCCGTTGATGGATATAATGTTTGTATATTTGCTTATGGGCAAACTGGTTCTGGAAAAACTTTTACAATTTATGGATCTGAAAACA
|  |    |   ||   | || ||| |  | ||      |  ||   || | || || |        |    ||| || || |||| |  ||||||||| | || ||||| || || ||||| ||||||||||| |||||||||||||| |||||||| |||||||| || |||||||| |||||||| || | ||
gcaagtcataaattg-tatttatttcttgcttatggaaacatat---ataacttacactca----ttaccaatttctcgtgtattt-gcaatgcagTATTTGGTGCAATCTGCTGTAGATGGTTATAATGTTTGCATATTTGCTTATGGTCAAACTGGATCTGGAAAGACATTTACAATCTATGGATCGGACATCA

upper sequence: LOC_Os04g57140.2 (Oryza sativa), 3'ss of exon 18
lower sequence: AT5G65930.3 (Arabidopsis thaliana), 3'ss of exon 16
gtgaccttttttttaacacttctttttaac-atacatgtgctcattagattatttgcaattggactccatgtgtttatcatgaattttgtgatgcagTATCTAGTTCAATCGGCCGTTGATGGATATAATGTTTGTATATTTGCTTATGGGCAAACTGGTTCTGGAAAAACTTTTACAATTTATGGATCTGAAAACA
             ||  | |  | | ||||  |     |   | ||  ||  ||||  |||    |     |  | |    |  ||   |    |||||| | || || ||||| || ||||| ||||| ||||| || ||||| ||||| ||||||||||||||||||||||| || || |||||   ||| | ||
------------gtattattgatatgtaactgtgttcatttacctttcatcctttgttattttcttgtggttactaacatcgttttccttttaacagTATTTGGTACAGTCGGCTGTAGATGGGTATAACGTTTGCATCTTTGCATATGGTCAAACTGGTTCTGGAAAAACTTTCACTATATATGGGCATGAGAGCA

upper sequence: LOC_Os04g57140.2 (Oryza sativa), 3'ss of exon 18
lower sequence: Vv04s0044g02020.t01 (Vitis vinifera), 3'ss of exon 18
gtgaccttttttttaacacttctttttaacatacatgtgctcattagattatttgcaattggactccatgtgtttatcatgaattttgtgat-gcagTATCTAGTTCAATCGGCCGTTGATGGATATAATGTTTGTATATTTGCTTATGGGCAAACTGGTTCTGGAAAAACTTTTACAATTTATGGATCTGAAAACA
|  |  |     | |  | |  || ||| || || |||  | |||| |||| ||   | |  |     |||| |  |    |  ||| |||| ||||||| | ||||||||||| || |||||||||||||| || |||||||| ||||| || |||||||||||||| || || ||||||||||| |||||    |
gcaag-tcaacatcatgaatgtttgttagca-acttgt-ttgattacattaattagtagttcaagttgtgtgatattttctatgtttatgattgcagTATTTGGTTCAATCGGCTGTAGATGGATATAATGTGTGCATATTTGCATATGGTCAGACTGGTTCTGGAAAGACATTCACAATTTATGGTTCTGATGGTA

upper sequence: LOC_Os04g57140.2 (Oryza sativa), 3'ss of exon 18
lower sequence: PP1S199_47V6.1 (Physcomitrella patens), 3'ss of exon 20
--------------------------------------------------------------------------------------gtgaccttttttttaacacttctttttaacatacatgtgctcattagattatttgcaa--ttggactccatgtgtttatcatgaattttgtgatgcagTATCTAGTTCAATCGGCCGTTGATGGATATAATGTTTGTATATTTGCTTATGGGCAAACTGGTTCTGGAAAAACTTTTACAATTTATGGATCTGAAAACA
                                                                                       | |       |  || || |   ||  |   || |||     |   || |||    |  |||   ||   | || || | ||  ||      |||||||| | || ||||| ||  |||| ||||| ||||| ||||||||||| || ||||||||||| || || ||||| ||||| ||||| || ||||| ||||
gtatagttggtcagagtaattgagtcaatccgtgcaatctttttatcatggaatggctttggttgtaactactgatcccgatgagaataaaaccaactaaaagaccttgattagatcgacttgtttatttggtatcattgaatactttgtcttctgcgcgtctaacgtgctttaatgtgtgcagTATTTGGTCCAATCAGCAATTGACGGATACAATGTCTGTATATTTGCATACGGGCAAACTGGGTCAGGCAAAACGTTTACGATTTACGGTTCTGACAACA

upper sequence: LOC_Os04g57140.2 (Oryza sativa), 3'ss of exon 18
lower sequence: PP1S83_25V6.1 (Physcomitrella patens), 3'ss of exon 19
gtgaccttttttttaacacttctttttaacatacatgtgctcattagattatttgcaat-----tggactccatgtgtttatcatgaattttgtg-atgcagTATCTAGTTCAATCGGCCGTTGATGGATATAATGTTTGTATATTTGCTTATGGGCAAACTGGTTCTGGAAAAACTTTTACAATTTATGGATCTGAAAACA
     | |  || |    ||  |||     || ||    ||   | | |  |    |||     || | ||   |    || ||||||| |   |  |||||||| | || ||||| ||  ||||||| || ||||| ||||| ||||| || || |||||||| || || ||||||||||| |||||||| |||||||| |
--acacctagttgtcctgctgttttagggtattcaaaaacttcattgttattcaataatgattctgtattctgcgcagctaacatgaatgtaacgtgtgcagTATTTGGTCCAATCAGCGATTGATGGGTACAATGTCTGTATTTTTGCATACGGACAAACTGGATCAGGGAAAACTTTTACTATTTATGGTTCTGAAAATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cattagattatttgcaattggactccatgtgtttatcatgaattttgtgatgcagTATCTAGTTCAATCGGCCGTTGATGGATATAATGTTTGTATATTTGCTTATGGGCAAACTGGTTCTGGAAAAACTTTTACAATTTATGGATCTGAAAACA
                               tttatcatgaatttt  TA-rich tract