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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagacaatgataaactgcaattctgcttaactacatggttttgtgctgttttccagtttatgcattgctgttcagtgttattttgctcatcagtatatttgtctgtgctatatgtaacttgtagGTGACTCTGAACCTGTAAAGATGTTTGAGAGAACAGCGAATTTGGCAAACAACCAAATAATTAATTATAGATGTGATCCTTCTGAAAAATGGTTGGTCTT

Basic information

species Glycine max
transcript GLYMA11G35460.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 4
lower sequence: AT3G08530.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaagacaatgataaactgcaattctgcttaactacatggttttgtgctgttttccagtttatgcattgctgttcagtgttattttgctcat---cagtatatttgtctgtgctatatgt----aacttgtagGTGACTCTGAACCTGTAAAGATGTTTGAGAGAACAGCGAATTTGGCAAACAACCAAATAATTAATTATAGATGTGATCCTTCTGAAAAATGGTTGGTCTT
                                                           || |  ||| | |   | ||| |||||  ||||     || | || || | |  | |   |       || ||||||| ||||| || || ||||||||||| |||||||| |||||||| ||||| ||||| || || ||||  ||   ||||  ||| || |||||||| ||
----------------------------------------------------------gttgtatatttcagcctactgtcattttcttcatatcttgtgttttcgtttctaattttccttcgggttttatagGTGATTCTGAGCCAGTTAAGATGTTTGATAGAACAGCCAATTTGGCCAACAATCAAATTATAAACTATAAGTGCTCTCCTAATGAGAAGTGGTTGGTTTT

upper sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 4
lower sequence: AT3G11130.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaagacaatgataaactgcaattctgcttaactacatggttttgtgctgttttccagtttatgcattgctgttcagtgttattttgctcatcagtatatttgtctgtgctatatgtaacttgtagGTGACTCTGAACCTGTAAAGATGTTTGAGAGAACAGCGAATTTGGCAAACAACCAAATAATTAATTATAGATGTGATCCTTCTGAAAAATGGTTGGTCTT
                                       ||||| |     | |  |  |||      |||  |   | | ||   |   ||     |  |  | | ||||    |  | ||  |||||| ||||| || || ||||||||||| ||||| || |||||||||||||| ||||| || || ||||  ||   ||||  ||| || |||||||||||
---------------------------------------gttttata----tctttaacttactgtcagcttcttcatatcat---gtatatgttgtttctcatttttgcttc--gatatttccagGTGATTCTGAGCCAGTTAAGATGTTTGATAGAACGGCTAATTTGGCAAACAATCAAATTATAAACTATAAGTGCTCTCCTAATGAGAAGTGGTTGGTCTT

upper sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 4
----------------------gtaagacaatgataaactgcaattctgcttaactacatggttttgtgctgtt------ttccagtttatg---cattgctgttcagtgttattttg-ctcatcagtatatttgtctgtgctatatgtaacttgtagGTGACTCTGAACCTGTAAAGATGTTTGAGAGAACAGCGAATTTGGCAAACAACCAAATAATTAATTATAGATGTGATCCTTCTGAAAAATGGTTGGTCTT
                      | |  |   ||  |     || |  |    |  |  |   |||| |    |       |||  |||||||    |||     |  ||||  ||| |  |  |   |     ||  | || | | | |  | | ||||||| |||||||||||||| ||||||||||| || || ||| ||| |||||| || |||||||| ||| |||||||||| |||||||| |||||||| ||
gtaagatgcctttctttggcctgaacaagggtggcatttcccattctttgggagttgaacatttttatttcatgggttgattcatgtttatggtatattttcacttggtgtcttttggatttgttgtttccaatggttttgttgtctctctcatttagGTGATTCTGAACCTGTAAAAATGTTTGAGAGGACTGCTAATCTGGTAAACAATCAGATAATTAACTATCGATGTGATCCATCTGAAAAGTGGTTGGTTTT

upper sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv19s0027g01340.t01 (Vitis vinifera), 3'ss of exon 1
gtaagacaatgataaactgcaattctgcttaactacatggttttgtgctgttttccagtttatgcattgctgttcagtgttattttgctcatcagtatatttgtctgtgctatatgtaacttgtagGTGACTCTGAACCTGTAAAGATGTTTGAGAGAACAGCGAATTTGGCAAACAACCAAATAATTAATTATAGATGTGATCCTTCTGAAAAATGGTTGGTCTT--------------------------------------------------------
                                                                                 |   |  |||   ||| |  |   | |   ||   | | |   |||||| || ||||||||||| ||||||||||||||    ||||||  |||||| || |||||||| ||| ||| |||||| |||||||| |||||||| ||                                                        
--------------------------------------------------------------------------------gagcatagtcac--gtagacctcagtatatcattgatcaatcaaaggtgattcagaacctgtaaaaatgtttgagagaactattaatttgataaacaatcagATAATTAACTATCGATATGATCCGTCTGAAAAGTGGTTGGTTTTGATTGGAATTGCTCCGGGTTCACCTGAGAGACCACAGCTTGTCAAAGGGAATATGC

upper sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 4
lower sequence: PP1S7_102V6.1 (Physcomitrella patens), 3'ss of exon 4
gtaagacaatgataaactgcaattctgctta-actacatggttttgtgctgttttccagtttatgcattgctgttcagtgttattttgctcatcagtata-tttgtctgtgctatatgtaacttgtagGTGACTCTGAACCTGTAAAGATGTTTGAGAGAACAGCGAATTTGGCAAACAACCAAATAATTAATTATAGATGTGATCCTTCTGAAAAATGGTTGGTCTT
                        |  |||    | |||   |   ||  |  ||   || ||||  ||     ||||| |  |  | |  |  |  | | ||| ||  |  |   ||||||    |||||| |||||||||||||||||||||||||| ||||| ||||||     |||||| || || ||||||||||| || || || || || ||| | ||  |
-----------------------acaacttgtgttgcatttctcattggcgaatttt-gtgtatgacttttctatcagtttggtgctccaaacaatgagactttttccctcgtgcctgtaac----agGTGAATCTGAACCTGTAAAGATGTTTGAGAGGACAGCAAATTTGAGTGGCAACCAGATCATCAATTATAGATGCGACCCGTCAGAGAAGTGGCTTGTGCT

upper sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 4
lower sequence: PP1S147_10V6.1 (Physcomitrella patens), 3'ss of exon 4
gtaagacaatgataaactgcaattctgcttaactacatggttt-tgtgctgttttccagtttatgcattgctgttcagt--gttattttgctcatcagtatatttgtctgtgctatatgtaacttgtagGTGACTCTGAACCTGTAAAGATGTTTGAGAGAACAGCGAATTTGGCAAACAACCAAATAATTAATTATAGATGTGATCCTTCTGAAAAATGGTTGGTCTT
           |  |||  |  || |   | |||    | | | || | |   |||   |  ||       | |||  |  ||| ||    |||    |  ||   |     || |  ||   |  ||||||| |||||||||||||||||||||||||| ||||| ||  ||     |||||| || ||||| || ||||| || ||  |||| |||||| | || ||
---------gtacgaacc-cttttgtttctgactgtccgatgtatgagatagcttctgttggattggcgagttttctatcagttcttgcattcacacattaatgctttctctctttgggtctgtaatagGTGAATCTGAACCTGTAAAGATGTTTGAGAGGACAGCAAACCTGAGTGGCAACCAGATCATTAACTACAGATGCGACCCCGCTGAGAAATGGCTTGTATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttcagtgttattttgctcatcagtatatttgtctgtgctatatgtaacttgtagGTGACTCTGAACCTGTAAAGATGTTTGAGAGAACAGCGAATTTGGCAAACAACCAAATAATTAATTATAGATGTGATCCTTCTGAAAAATGGTTGGTCTT
                                          atgtaac  putative branch site (score: 3)
      tgttatttt  TA-rich tract