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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagatgataatttgctcaactaaatatttttgtgttatactatattttccagttcacatattctttacagtgtgcttgtagtttctgcaaattgttgactggtacatggttcatgatctatataacttgtagGTGACTCTGAACCTGTTAAGATGTTTGAGAGAACAGCAAATTTGGCAAACAACCAGATAATTAATTATCGATGTGACCCTACAGAAAAATGGTTGGTCTT

Basic information

species Glycine max
transcript GLYMA02G42560.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G42560.1 (Glycine max), 3'ss of exon 4
lower sequence: AT3G08530.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaagatgataatttgctcaactaaatatttttgtgttatactatattttccagttcacatattctttacagtgtgcttgtagtttctgcaaattgttgactggtacatggttcatgatctatataactt-gtagGTGACTCTGAACCTGTTAAGATGTTTGAGAGAACAGCAAATTTGGCAAACAACCAGATAATTAATTATCGATGTGACCCTACAGAAAAATGGTTGGTCTT
                                                       |   |||||     |||  | ||   | ||||| || ||  |    |  | | |   | ||  ||  |     ||  ||||||| ||||| || |||||||||||||| |||||||| |||||||| ||||| || || || || |||   ||    ||||  || || |||||||| ||
------------------------------------------------------gttgtatattt----cagcctactgtcattttcttcatatcttgtgtt--ttcgtttctaattttccttcgggttttatagGTGATTCTGAGCCAGTTAAGATGTTTGATAGAACAGCCAATTTGGCCAACAATCAAATTATAAACTATAAGTGCTCTCCTAATGAGAAGTGGTTGGTTTT

upper sequence: GLYMA02G42560.1 (Glycine max), 3'ss of exon 4
lower sequence: AT3G11130.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaagatgataatttgctcaactaaatatttttgtgttatactatattttccagttcacatattctttacagtgtgcttgtagtttctgcaaattgttgactggtacatggttcatgat--ctatataacttgtagGTGACTCTGAACCTGTTAAGATGTTTGAGAGAACAGCAAATTTGGCAAACAACCAGATAATTAATTATCGATGTGACCCTACAGAAAAATGGTTGGTCTT
                                                     |||   ||||  ||   |   | ||   || |||| || ||  |  |   ||   |   ||||  |  ||     | ||  |||||| ||||| || |||||||||||||| ||||| || |||||||||||||| || || || || |||   ||    ||||  || || |||||||||||
-----------------------------------------------------gttt-tatatcttt---aacttactgtcagcttcttcatatcatgtatatgt-tgtttctcatttttgcttcgatatttccagGTGATTCTGAGCCAGTTAAGATGTTTGATAGAACGGCTAATTTGGCAAACAATCAAATTATAAACTATAAGTGCTCTCCTAATGAGAAGTGGTTGGTCTT

upper sequence: GLYMA02G42560.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 4
------------------gtaagatgataatttgctcaactaaatatttttgtgttatac---tatattttccagttcacatattctttacagtgtgcttgtagtttctgcaaattg--ttgactggtac--atggttcatgatctatataacttgtagGTGACTCTGAACCTGTTAAGATGTTTGAGAGAACAGCAAATTTGGCAAACAACCAGATAATTAATTATCGATGTGACCCTACAGAAAAATGGTTGGTCTT
                  |   ||  |    | ||    |  | | |||  | |||  ||   | |||||    | |    |  | ||||  || |  ||  | ||  ||    |||  ||   || | |  ||||||  || | | | |  | | ||||||| ||||||||||| || ||||||||||| || || ||| ||| |||||| ||||||||||| ||||||||||| ||  | ||||| |||||||| ||
gtaagatgcctttctttggcctgaacaagggtggcatttcccattctttgggagttgaacatttttatttcatgggttgattcatgtttatggtatattttcacttggtgtcttttggatttgttgtttccaatggttt-tgttgtctctctcatttagGTGATTCTGAACCTGTAAAAATGTTTGAGAGGACTGCTAATCTGGTAAACAATCAGATAATTAACTATCGATGTGATCCATCTGAAAAGTGGTTGGTTTT

upper sequence: GLYMA02G42560.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv19s0027g01340.t01 (Vitis vinifera), 3'ss of exon 1
gtaagatgataatttgctcaactaaatatttttgtgttatactatattttccagttcacatattctttacagtgtgcttgtagtttctgcaaattgttgactggtacatggttcatgatctatataacttgtagGTGACTCTGAACCTGTTAAGATGTTTGAGAGAACAGCAAATTTGGCAAACAACCAGATAATTAATTATCGATGTGACCCTACAGAAAAATGGTTGGTCTT--------------------------------------------------------
                                                                                        |   || ||    | |  |   ||  || ||  ||   | |   |||||| || |||||||| || ||||||||||||||    ||||||  |||||| ||||||||||| ||||||| ||| ||  | ||||| |||||||| ||                                                        
----------------------------------------------------------------------------------------gagcatagtcacgtagacctcagtatatcattgatc--aatcaaaggtgattcagaacctgtaaaaatgtttgagagaactattaatttgataaacaatcagATAATTAACTATCGATATGATCCGTCTGAAAAGTGGTTGGTTTTGATTGGAATTGCTCCGGGTTCACCTGAGAGACCACAGCTTGTCAAAGGGAATATGC

upper sequence: GLYMA02G42560.1 (Glycine max), 3'ss of exon 4
lower sequence: PP1S7_102V6.1 (Physcomitrella patens), 3'ss of exon 4
gtaagatgataatttgctcaactaaatatttttgtgttatactatattttccagtt-cacatattctttacagtgtgcttgtagtttctgcaaattgttgactggtacatggttcatgatctatataacttgtagGTGACTCTGAACCTGTTAAGATGTTTGAGAGAACAGCAAATTTGGCAAACAACCAGATAATTAATTATCGATGTGACCCTACAGAAAAATGGTTGGTCTT
                                    || |  |  ||||  || |  |  || || | ||     |   | |   ||  |          | ||  || |  | | |  |   | ||||    |||||| ||||||||||| |||||||||||||| ||||||||||||     ||||||||| || |||||| |||| |||||  |||| || ||| | ||  |
-------------------------------acaacttgtgttgcatttctcattggcgaattttgtgtatgacttttctatcagtttggtgctccaaacaatgagactttttccctcgtgcctgtaac----agGTGAATCTGAACCTGTAAAGATGTTTGAGAGGACAGCAAATTTGAGTGGCAACCAGATCATCAATTATAGATGCGACCCGTCAGAGAAGTGGCTTGTGCT

upper sequence: GLYMA02G42560.1 (Glycine max), 3'ss of exon 4
lower sequence: PP1S147_10V6.1 (Physcomitrella patens), 3'ss of exon 4
gtaagatgataatttgctcaactaaatatttttgtgttatactatattttccagttcacatattctttacagtgtgcttgtagtttctgcaaattgttg-actggtacat-ggttcatgatctatataactt----gtagGTGACTCTGAACCTGTTAAGATGTTTGAGAGAACAGCAAATTTGGCAAACAACCAGATAATTAATTATCGATGTGACCCTACAGAAAAATGGTTGGTCTT
                        ||   |||||| |   ||| |    |  |  | | |||   | |   |  |    |   |||||   | || ||| | |   ||||   | | |  ||| | |   |      ||||||| ||||||||||| |||||||||||||| ||||||||  ||     ||||||||| ||||| ||  |||| |||||  | || |||||| | || ||
-------------------gtacgaacccttttgtttctgactgtccgatgta--tgagatagcttctgttggattggcgagttttctatcagttcttgcattcacacattaatgctttctctctttgggtctgtaatagGTGAATCTGAACCTGTAAAGATGTTTGAGAGGACAGCAAACCTGAGTGGCAACCAGATCATTAACTACAGATGCGACCCCGCTGAGAAATGGCTTGTATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

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