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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

taagtattcaattggactctgaaaaataaggagtcattatttgtagttggttacttaggttttggttccaaagcctcaattaatttcaagattatgattttacttgaatttttttttatattaatagatatttcttttgaatgtatgcaggATCCTTTTCAAGGTCAGCTGTAAATCATGAAAGTGGTGCAAAATCTGGTGTATCTGGGATTGTTTCAGGAATTATAATGACCTGTGCACTTTTGTTTCTA

Basic information

species Glycine max
transcript GLYMA18G52270.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G52270.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os09g06499.1 (Oryza sativa), 3'ss of exon 10
taagtattcaattggactctgaaaaataaggagt-cattatttgtagttggttacttaggttttggttccaaagcctcaattaatttcaagattatgattttacttgaatttttttttatattaatagatatttcttttgaatgtatgcaggATCCTTTTCAAGGTCAGCTGTAAATCATGAAAGTGGTGCAAAATCTGGTGTATCTGGGATTGTTTCAGGAATTATAATGACCTGTGCACTTTTGTTTCTA
                    | ||||||   |    |||| |   || |  || ||  | || |   ||   |   | |  |||||  || ||| | | || ||| ||  |    || | |    |   |||||  |   | | | | |||| |||||||| ||||||||||| |||||||||||||| |||||| ||||| ||||||| ||  |    || || |||||     |||| || |||||| | 
--------------------gtaaaatactaaccatattaatgagagatcatttctgtgcttatttatctgta-tattacataatt--aaaattcttaattcactagagctaagcttcaaaaagctgattattttgtactattcttt-cagGTTCCTTTTCTAGGTCAGCTGTGAATCATGAAAGTGGAGCAAAAACTGGTCTATCTGGAATCATAATGGGCATAATAATTGGTGGTGCTCTCTTGTTTAT-

upper sequence: GLYMA18G52270.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G068212_T01 (Zea mays), 3'ss of exon 9
taagtattcaattggactctgaaaaataaggagtcattatttgtagttggttacttaggttttggttccaaagcctcaattaatttcaagattatgattttacttgaatttttttttatattaatagatatttcttttgaatgtatgcaggATCCTTTTCAAGGTCAGCTGTAAATCATGAAAGTGGTGCAAAATCTGGTGTATCTGGGATTGTTTCAGGAATTATAATGACCTGTGCACTTTTGTTTCTA
                                   | |||||    ||   || | |    |     || |  |||   ||| | |   |  |||  | ||| |||  |   |    ||||||  ||      ||  ||  |  ||||||| |||||||| |||||||| || |||||||||||||| |||||| ||||  ||||||| ||  |    || || || ||     |||| || || ||| | 
-------------------------------gtaaaatatttaacattatatagtgataaataa---cccagtcctttgttagtcttttgcatattgtcttagttgc-tagatcaaaatattacaagcctaaactactggtt-catgcagGCTCCTTTTCTAGGTCAGCAGTGAATCATGAAAGTGGGGCAAAAACTGGGTTATCTGGAATCATAATGGGCATAATCATTGGTGGTGCTCTCTTATTTAT-

upper sequence: GLYMA18G52270.1 (Glycine max), 3'ss of exon 9
lower sequence: AT5G13550.1 (Arabidopsis thaliana), 3'ss of exon 9
taagtattcaattggactctgaaaaataaggagtcattatttgtagttggttacttaggttttggttccaaagcctcaattaatttcaagattatgattttacttgaatttttttttatattaatagatatttcttttgaatgtatgcaggATCCTTTTCAAGGTCAGCTGTAAATCATGAAAGTGGTGCAAAATCTGGTGTATCTGGGATTGTTTCAGGAATTATAATGACCTGTGCACTTTTGTTTCTA
                 |  |  || |   || | || |   |   |   | | | | | | ||| |  ||    | | |  |||||   | |||  ||  |  | ||||    |    ||   |  || |      || |   ||  |||||||||||| ||||||||||| ||| |||||||||  || ||  ||||  |||| ||| || |  ||||||| || ||    ||| | ||  ||||  | 
----------------gtacgttaacttgagaatgat-aaaagctatcaataattgacgctatggatataatctgtta-tacatttcgtaaatatatttcaaagttaattaacata---atctgtgaatgtcctgaatgca-aaatttagGATCCTTTTCTAGGTCAGCTGTGAATAATGAAAGTGAAGCTAAGACTGGCCTATCAGGGCTTATAACAGGAATCATCATTGGATGTTCTCTACTGTTCTT-

upper sequence: GLYMA18G52270.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv13s0019g00010.t01 (Vitis vinifera), 3'ss of exon 9
-taagtattcaattggactctgaaaaataaggagtcattatttgtagttggttacttaggttttggttc---caaagcctcaattaa---tttcaagattatgattttacttgaattttttttta-----------tattaatagata-----------tttcttttgaatgt-atgcaggATCCTTTTCAAGGTCAGCTGTAAATCATGAAAGTGGTGCAAAATCTGGTGTATCTGGGATTGTTTCAGGAATTATAATGACCTGTGCACTTTTGTTTCTA
 | || ||| | |||   | ||   |      | |     ||  |   |  |  ||   ||   | ||    |||||| | |||| |    |||| |||   |  |||  | ||| ||||| | |           | || | || ||           ||  |||||||| | ||||||| |||||||| ||||| ||||||||||||||||| || |||||| ||||  ||||||| |||||| ||||||| |||||   |||||| ||||||||||| 
gtgag-atttatttgaggtttgctgagctgcaaattgaggttcatcagtcatacctgtagtggagattaacacaaagcattaatttaatccttcaggatctagtgtttcatggaaatttttataaccaagatatgcttttgaaaggtagcttcttttatttatttttgaatattatgcagGCTCCTTTTCTAGGTCGGCTGTAAATCATGAAAGCGGAGCAAAAACTGGATTATCTGGAATTGTTACAGGAATCATAATAGGCTGTGCTCTTTTGTTTCT-


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attttacttgaatttttttttatattaatagatatttcttttgaatgtatgcaggATCCTTTTCAAGGTCAGCTGTAAATCATGAAAGTGGTGCAAAATCTGGTGTATCTGGGATTGTTTCAGGAATTATAATGACCTGTGCACTTTTGTTTCTA
                      tattaat  putative branch site (score: 2)
       ttgaatttttttttat  TA-rich tract