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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagatgataatttgcttaactaaatatttttgtgttatactatattttccagtttacgtattctttatgcagtgtgcttgtggtttctgcaaattgttgactggtacatggttcatgatctatataacttgtagGTGACTCTGAACCTGTTAAGATGTTTGAGAGAACAGCAAATTTGGCAAACAACCAGATAATTAATTATCGATGTGACCCTACAGAAAAATGGTTGGTTTT

Basic information

species Glycine max
transcript GLYMA14G06340.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G06340.2 (Glycine max), 3'ss of exon 4
lower sequence: AT3G08530.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaagatgataatttgcttaactaaatatttttgtgttatactatattttccagtttacgtattctttatgcagtgtgcttgtggtttctgcaaattgttgactggtacatggttcatgatctatataacttgtagGTGACTCTGAACCTGTTAAGATGTTTGAGAGAACAGCAAATTTGGCAAACAACCAGATAATTAATTATCGATGTGACCCTACAGAAAAATGGTTGGTTTT
| ||| || ||| ||| | | ||| | | |||||| |||| || | | | ||| || || ||||||| ||||| || |||||||||||||| |||||||| |||||||| ||||| || || || || ||| || |||| || || |||||||||||
----------------------------------------gttgtatatttcagcctac-tgtcattttcttcatat-cttgtgttttc-----gtttctaatt---------ttc-----cttcgggttttatagGTGATTCTGAGCCAGTTAAGATGTTTGATAGAACAGCCAATTTGGCCAACAATCAAATTATAAACTATAAGTGCTCTCCTAATGAGAAGTGGTTGGTTTT

upper sequence: GLYMA14G06340.2 (Glycine max), 3'ss of exon 4
lower sequence: AT3G11130.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaagatgataatttgcttaactaaatatttttgtgttatactatattttccagtttacgtattctttatgcagtgtgcttgtggtttctgcaaattgttgactggtacatggttcatgat--ctatataacttgtagGTGACTCTGAACCTGTTAAGATGTTTGAGAGAACAGCAAATTTGGCAAACAACCAGATAATTAATTATCGATGTGACCCTACAGAAAAATGGTTGGTTTT
|| || | | | | | || | |||| || || | | || | |||| | || | || |||||| ||||| || |||||||||||||| ||||| || |||||||||||||| || || || || ||| || |||| || || |||||||| ||
-----------------------------------------------------------gttttatatctttaacttactgtcagcttcttcatatcatgtatatgt-tgtttctcatttttgcttcgatatttccagGTGATTCTGAGCCAGTTAAGATGTTTGATAGAACGGCTAATTTGGCAAACAATCAAATTATAAACTATAAGTGCTCTCCTAATGAGAAGTGGTTGGTCTT

upper sequence: GLYMA14G06340.2 (Glycine max), 3'ss of exon 4
lower sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 4
------------------gtaagatgataatttgcttaactaaatatttttgtgttatac---tatattttccagtttacgtattctttatgcagtgt----gcttgtggtttctgcaaattgttgactggtacatggttcatgatctatataacttgtagGTGACTCTGAACCTGTTAAGATGTTTGAGAGAACAGCAAATTTGGCAAACAACCAGATAATTAATTATCGATGTGACCCTACAGAAAAATGGTTGGTTTT
| || | | || | | | | ||| | ||| || | ||||| | || | | |||||| | | |||| || | | | |||||| | |||||| || | | | | | | ||||||| ||||||||||| || ||||||||||| || || ||| ||| |||||| ||||||||||| ||||||||||| || | ||||| |||||||||||
gtaagatgcctttctttggcctgaacaagggtggcatttcccattctttgggagttgaacatttttatttcatgggttgattcatgtttatggtatattttcacttggtgtcttttggatttgttgttt--ccaatggttt-tgttgtctctctcatttagGTGATTCTGAACCTGTAAAAATGTTTGAGAGGACTGCTAATCTGGTAAACAATCAGATAATTAACTATCGATGTGATCCATCTGAAAAGTGGTTGGTTTT

upper sequence: GLYMA14G06340.2 (Glycine max), 3'ss of exon 4
lower sequence: Vv19s0027g01340.t01 (Vitis vinifera), 3'ss of exon 1
gtaagatgataatttgcttaactaaatatttttgtgttatactatattttccagtttacgtattctttatgcagtgtgcttgtggtttctgcaaattgttgactggtacatggttcatgatctatataacttgtagGTGACTCTGAACCTGTTAAGATGTTTGAGAGAACAGCAAATTTGGCAAACAACCAGATAATTAATTATCGATGTGACCCTACAGAAAAATGGTTGGTTTT--------------------------------------------------------
| || || | | | || || || || | | |||||| || |||||||| || |||||||||||||| |||||| |||||| ||||||||||| ||||||| ||| || | ||||| |||||||||||
------------------------------------------------------------------------------------------gagcatagtcacgtagacctcagtatatcattgatcaa--tcaaaggtgattcagaacctgtaaaaatgtttgagagaactattaatttgataaacaatcagATAATTAACTATCGATATGATCCGTCTGAAAAGTGGTTGGTTTTGATTGGAATTGCTCCGGGTTCACCTGAGAGACCACAGCTTGTCAAAGGGAATATGC

upper sequence: GLYMA14G06340.2 (Glycine max), 3'ss of exon 4
lower sequence: PP1S7_102V6.1 (Physcomitrella patens), 3'ss of exon 4
gtaagatgataatttgcttaactaaatatttttgtgttatactatattttccagtttacgtattctttatgcagtgtgcttgtggtttctgcaaattgttgactggtacatggttcatgatctatataacttgtagGTGACTCTGAACCTGTTAAGATGTTTGAGAGAACAGCAAATTTGGCAAACAACCAGATAATTAATTATCGATGTGACCCTACAGAAAAATGGTTGGTTTT
|| | | |||| || || || ||| | | | | | | || | | || || | | | | | | |||| |||||| ||||||||||| |||||||||||||| |||||||||||| ||||||||| || |||||| |||| ||||| |||| || ||| | || |
-------------------------------acaacttgtgttgcatttctca-ttggcgaattttgtgtatgacttttctatcagtttggtgctccaaacaatgagactttttccctcgtgcctgtaac----agGTGAATCTGAACCTGTAAAGATGTTTGAGAGGACAGCAAATTTGAGTGGCAACCAGATCATCAATTATAGATGCGACCCGTCAGAGAAGTGGCTTGTGCT

upper sequence: GLYMA14G06340.2 (Glycine max), 3'ss of exon 4
lower sequence: PP1S147_10V6.1 (Physcomitrella patens), 3'ss of exon 4
gtaagatgataatttgcttaactaaatatttttgtgttatactatattttccagtttacgt-attctttatgcagtgtgcttgtggtttctgcaaattgttg-actggtacat-ggttcatgatctatataactt----gtagGTGACTCTGAACCTGTTAAGATGTTTGAGAGAACAGCAAATTTGGCAAACAACCAGATAATTAATTATCGATGTGACCCTACAGAAAAATGGTTGGTTTT
|| |||||| | ||| | || | || | || || || | | | | ||||| | || ||| | | |||| | | | ||| | | | ||||||| ||||||||||| |||||||||||||| |||||||| || ||||||||| ||||| || |||| ||||| | || |||||| | || ||
-------------------gtacgaacccttttgtttctgactgt-----ccgatgtatgagatagcttctgttggattggcgagttttctatcagttcttgcattcacacattaatgctttctctctttgggtctgtaatagGTGAATCTGAACCTGTAAAGATGTTTGAGAGGACAGCAAACCTGAGTGGCAACCAGATCATTAACTACAGATGCGACCCCGCTGAGAAATGGCTTGTATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtggtttctgcaaattgttgactggtacatggttcatgatctatataacttgtagGTGACTCTGAACCTGTTAAGATGTTTGAGAGAACAGCAAATTTGGCAAACAACCAGATAATTAATTATCGATGTGACCCTACAGAAAAATGGTTGGTTTT
                                          atataac  putative branch site (score: 3)
 atctatataa  TA-rich tract