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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtttcctgcaatttgattggaattttatgttcaatgatttatggtgtaattttatgataatatgtagtagttttgcagttttttttttgtttggttggtatatatttagtgaagtatgctatttcttatgattgatttgatggatgtattttcatttgttctgattacttatttttctttgtgctgtgcagTCACTTCTTGCAGCACTAGGATCTGTTCAGTTTGTATCTAACATTGCCTTCGCTTACTTTGTCTTGAACAAAATGGTGACAGTAAA

Basic information

species Glycine max
transcript GLYMA16G26550.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


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

upper sequence: GLYMA16G26550.1 (Glycine max), 3'ss of exon 5
lower sequence: AT3G26670.1 (Arabidopsis thaliana), 3'ss of exon 4
gtatgtttcctgcaatttgattggaattttatgttcaatgatttatggtgtaattttatgataatatgtagtagttttgcagttttttttttgtttggttggtatatatttagtgaagtatgctatttcttatgattgatttgatggatgtattttcatttgttctgattacttatttttctttgtgctgtgcagTCACTTCTTGCAGCACTAGGATCTGTTCAGTTTGTATCTAACATTGCCTTCGCTTACTTTGTCTTGAACAAAATGGTGACAGTAAA
                                                                                          | |  || |  |       ||    |  |  |  |||| | | | || |||  ||||     |||   |||| | |  ||||   || |    | | || ||||||| ||||| ||||| || |||||  |||| |||||||| ||||| || || |||||  |||| |||||||||||||| || || ||
-----------------------------------------------------------------------------------------gtagaatgatctgctcgacattgcctacttgcgtgatttgtcaggtttcatt--atgg-----tttctctttggttttcttacc-gttatgaactct-ctttgcagTCCCTTCTAGCAGCTCTTGGATCCATTCAATTTGTATCCAACATAGCATTTGCTTATGTTGTATTGAACAAAATGGTTACTGTCAA

upper sequence: GLYMA16G26550.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv14s0068g00780.t01 (Vitis vinifera), 3'ss of exon 4
gtatgtttcctgcaatttgattggaattttatgttcaatgatttatggtgtaattttatgataatatgtagtagttttgcagttttttttttgtttggttggtatatatttagtgaagtatgctatttcttatgattgatttgatggatgtattttcatttg---ttctgattacttatttttctttgtgctgtgcagTCACTTCTTGCAGCACTAGGATCTGTTCAGTTTGTATCTAACATTGCCTTCGCTTACTTTGTCTTGAACAAAATGGTGACAGTAAA
                                                                                               |||||||   | |||      | | | || ||  || | ||| ||||  |   |    || | ||||   | ||     ||| ||||  ||| |||||||||||||||||||||||| || |||||  |||| || || || |||||||| || || ||||| || ||||||||||||||| | || ||
---------------------------------------------------------------------------------------------gatggttggatgacatt-----gatttttcttttctttctaatttattttttcctttctcttgcctttggcttcctttccccttcttttcttttatgctgtgcagTCACTTCTTGCAGCCCTGGGATCAATTCAATTCGTTTCCAACATTGCATTTGCCTACTTCGTTTTGAACAAAATGGTGTCTGTCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgatggatgtattttcatttgttctgattacttatttttctttgtgctgtgcagTCACTTCTTGCAGCACTAGGATCTGTTCAGTTTGTATCTAACATTGCCTTCGCTTACTTTGTCTTGAACAAAATGGTGACAGTAAA
                      ttctgat  putative branch site (score: 3)
                               cttatttttctttgt  putative PPT
                           attacttatttttctt  TA-rich tract