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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtactagtgattccacccaatgatattttttttcatatccactccagtattgcaattaacgtaacttggaaaaatgattgtttgtgtaattttattgcagTCACTTCTTGCAGCTCTTGGATCGATTCAATTTGTGTCCAATATTGCATTTGCTTACTTTGTGTTGAACAAGACCATTTCAGTGAA

Basic information

species Oryza sativa
transcript LOC_Os02g31874.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g31874.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G144254_T06 (Zea mays), 3'ss of exon 3
---------gtactagtgattccacccaatgatattttttttcatatccactccagtattgcaattaacgtaacttggaaaaatgattgtttgtgtaattttattgcagTCACTTCTTGCAGCTCTTGGATCGATTCAATTTGTGTCCAATATTGCATTTGCTTACTTTGTGTTGAACAAGACCATTTCAGTGAA
         |  ||| | || ||| ||||| ||||||| |||      |  || ||    |   ||    |   ||| || | ||||| |||   |   | |||| |||||||| ||||||||||||||||| || || ||||||||||| ||||| ||||| |||||||| ||||||||||| |||||||||||
tgtttcttagagctaataatgccatccaatcatattttctttt---ctctttctagcccagtgttt----tggtttg-aacattgattatttacttg-ctatattacagTCACTACTTGCAGCTCTTGGATCAATCCAGTTTGTGTCCAACATTGCTTTTGCCTACTTTGTTTTGAACAAGACTATTTCAGTGAA

upper sequence: LOC_Os02g31874.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G477146_T01 (Zea mays), 3'ss of exon 4
gtactagtgattccacccaatgatattttttt-tcatatccactccagtattgc-aattaacgtaacttggaaaaatgattgtttgtgtaattttattgcagTCACTTCTTGCAGCTCTTGGATCGATTCAATTTGTGTCCAATATTGCATTTGCTTACTTTGTGTTGAACAAGACCATTTCAGTGAA
    |  |  || || | ||| |||   |    ||||||   ||    | || | |  ||  ||   |||| |     |||| |||| || ||   ||||||||||| ||||||||||||||||| ||||| ||||| ||||| ||||| ||||| |||||||||||||||||||| |||||||||||
-gcttcttacttacagctaataataccatccaatcatattttcttttctttttccagctagtgtt-tttggtacggaaattgattgtttacttgctttgcagTCACTGCTTGCAGCTCTTGGATCAATTCAGTTTGTTTCCAACATTGCTTTTGCCTACTTTGTGTTGAACAAGACTATTTCAGTGAA

upper sequence: LOC_Os02g31874.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GLYMA02G07510.2 (Glycine max), 3'ss of exon 5
---------------------------------------------------------------------------------------------gtactagtgat-tccacccaatgatattttt--tttcatatccactccagtattgcaattaacgtaacttggaaaaatga-ttgtttgtgtaattttattgcagTCACTTCTTGCAGCTCTTGGATCGATTCAATTTGTGTCCAATATTGCATTTGCTTACTTTGTGTTGAACAAGACCATTTCAGTGAA
                                                                                              |     ||   |  |  |  ||| || |    |||| |||  | |    || || |  ||   | | |||     || | || ||  | |   |    ||||||||||||||||||| || |||||  |||| ||||| || || ||||| || ||||||||||| |||||||| |   |  |||| ||
gtatgtttcccctatttaattgggattttttgttcaataatatatggtgtaaactgtaaattatgatagtatgtagtagttttgcatttttttatttggttggcatatattcggtgaaatatgcgatttcttatg-attgatttaatggatgtattttcatttgttctgattacttattcttctgtgtgctgtgcagTCACTTCTTGCAGCGCTGGGATCTGTTCAGTTTGTATCTAACATTGCCTTCGCTTACTTTGTCTTGAACAAAATGGTGACAGTCAA

upper sequence: LOC_Os02g31874.1 (Oryza sativa), 3'ss of exon 4
lower sequence: GLYMA16G26550.1 (Glycine max), 3'ss of exon 5
--------------------------------------------------------------------------------------------gtactagtgat-tccacccaatga--tattttttttcatatccactccagtattgcaattaacgtaacttggaaaaatga-ttgtttgtgtaattttattgcagTCACTTCTTGCAGCTCTTGGATCGATTCAATTTGTGTCCAATATTGCATTTGCTTACTTTGTGTTGAACAAGACCATTTCAGTGAA
                                                                                            ||     || | |  |   | |||  |||  | |||| |||  | |    |  || |  ||   | | |||     || | || ||| | |   |    ||||||||||||||||||| || |||||  |||| ||||| || || ||||| || ||||||||||| |||||||| |   |  |||| ||
gtatgtttcctgcaatttgattggaattttatgttcaatgatttatggtgtaattttatgataatatgtagtagttttgcagttttttttttgtttggttggtatatatttagtgaagtatgctatttcttatg-attgatttgatggatgtattttcatttgttctgattacttatttttctttgtgctgtgcagTCACTTCTTGCAGCACTAGGATCTGTTCAGTTTGTATCTAACATTGCCTTCGCTTACTTTGTCTTGAACAAAATGGTGACAGTAAA

upper sequence: LOC_Os02g31874.1 (Oryza sativa), 3'ss of exon 4
lower sequence: AT3G26670.1 (Arabidopsis thaliana), 3'ss of exon 4
gtactagtgattccacccaatgatattttttttcatatccactccagtattgcaattaacgtaacttggaaaaatgattgtttgtgtaattttattgcagTCACTTCTTGCAGCTCTTGGATCGATTCAATTTGTGTCCAATATTGCATTTGCTTACTTTGTGTTGAACAAGACCATTTCAGTGAA
|||  | |||| |  | | |   |   |  || | |      ||  || |    ||         ||||     | |  |||  || | | |  |||||||| ||||| |||||||||||||| ||||||||||| ||||| || |||||||||||  |||| |||||||| |   || | || ||
gtag-aatgat-ctgctcgacattgcctacttgcgtgatttgtcaggtttcattatggtttctctttggttttcttaccgtt-atgaactctctttgcagTCCCTTCTAGCAGCTCTTGGATCCATTCAATTTGTATCCAACATAGCATTTGCTTATGTTGTATTGAACAAAATGGTTACTGTCAA

upper sequence: LOC_Os02g31874.1 (Oryza sativa), 3'ss of exon 4
lower sequence: Vv14s0068g00780.t01 (Vitis vinifera), 3'ss of exon 4
gtactagtgattccacc-caatgatattttttttcatatccactccagtattgcaattaacgtaactt-ggaaaaatgattgtttgtgtaattttat----tgcagTCACTTCTTGCAGCTCTTGGATCGATTCAATTTGTGTCCAATATTGCATTTGCTTACTTTGTGTTGAACAAGACCATTTCAGTGAA
       || ||  |   || |||| ||| ||||| | || | |  | | || |  ||  | |  ||| ||     |      || | |  ||||||    ||||||||||||||||||| || ||||| |||||||| || ||||| ||||||||||| ||||| || |||||||| |   | || || ||
-----gatggttggatgacattgatttttcttttc-tttctaatttattttttcctttctcttgcctttggcttcctttccccttcttttcttttatgctgtgcagTCACTTCTTGCAGCCCTGGGATCAATTCAATTCGTTTCCAACATTGCATTTGCCTACTTCGTTTTGAACAAAATGGTGTCTGTCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtattgcaattaacgtaacttggaaaaatgattgtttgtgtaattttattgcagTCACTTCTTGCAGCTCTTGGATCGATTCAATTTGTGTCCAATATTGCATTTGCTTACTTTGTGTTGAACAAGACCATTTCAGTGAA
                                            ttttatt  CT-rich tract
                        aaaaatgattgtttgt  TA-rich tract