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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacatgaccgccaaatgtatgcatctttgtgattattattaacatttcactgtattaacagtgttgtgcctgtagAAGGTGCAAGGGCTGCTTTGAACCTGTCTGGAACCATGCTTGGATATTACCCGTTGAGAGTGCTACCTTCAAAAACTGCTATTGTCCCTGTTAATCCAAC

Basic information

species Glycine max
transcript GLYMA02G35640.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G35640.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os08g02330.1 (Oryza sativa), 3'ss of exon 4
gtaacatgaccgccaaatgtatgcatctttgtgattattattaacatttcactgtattaacag--tgttgtgcctgtagAAGGTGCAAGGGCTGCTTTGAACCTGTCTGGAACCATGCTTGGATATTACCCGTTGAGAGTGCTACCTTCAAAAACTGCTATTGTCCCTGTTAATCCAAC
||||  ||  ||  |    ||   |    | |  |||  || || | |  | ||  |||| |   || | ||| || |||  |||||||||||||| | ||  |||| |||||| ||||||||||||| ||  | || ||||| || ||||||||||| ||||  |||||||| |||||
gtaa-gtggtcg--agtgataattaagcatatacttag-atcaatagtcaattg-gttaataaactgctctgc-tgcagAGAGTGCAAGGGCTGCTCTAAATTTGTCGGGAACCGTGCTTGGATATTATCCTGTCAGGGTGCTGCCATCAAAAACTGCGATTGCACCTGTTAACCCAAC

upper sequence: GLYMA02G35640.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G044246_T02 (Zea mays), 3'ss of exon 4
gtaacatgaccgc-caaatgtatgcatctttgtgattatt-----------attaacatttcactgtattaacagtgttgtgcctgtagAAGGTGCAAGGGCTGCTTTGAACCTGTCTGGAACCATGCTTGGATATTACCCGTTGAGAGTGCTACCTTCAAAAACTGCTATTGTCCCTGTTAATCCAAC
|||| ||  ||      |   |||  ||  | || ||| |           ||  ||  || |  |  | || |   | |       ||| ||||||||||||||| |||| ||||| |||||| ||||||||||||| ||  | |  || || |  ||||||||||| ||||  || || ||   |||
gtaatatatccatatccaaccatgtttcagtttgcttactctgtgtaatggatctactgtttatggggtgaaaaacatcgatgtcccagAGGGTGCAAGGGCTGCTCTGAATCTGTCAGGAACCGTGCTTGGATATTATCCTATCAATGTTCTGCTGTCAAAAACTGCCATTGCACCAGTCAACGAAAC

upper sequence: GLYMA02G35640.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G376619_T01 (Zea mays), 3'ss of exon 5
gtaacatgaccgc-caaatgtatgcatctttgtgattatt-----------attaacatttcactgtattaacagtgttgtgcctgtagAAGGTGCAAGGGCTGCTTTGAACCTGTCTGGAACCATGCTTGGATATTACCCGTTGAGAGTGCTACCTTCAAAAACTGCTATTGTCCCTGTTAATCCAAC-------------------------------------------------------------------------------------
|||| ||  ||      |   |||  ||  | || ||| |           ||  ||  || |  |  | || |   | |       ||| ||||||||||||||| |||| ||||| |||||| ||||||||||||| ||  | |  || ||||| ||||||||||| ||||  || || ||   |||                                                                                     
gtaatatatccatatccaaccatgtttcagtttgcttactctgtgtaatggatctactgtttatcgggtgaaaaacatcgatgtcccagagggtgcaagggctgctctgaatctgtcaggaaccgtgcttggatattatcctatcaatgttctaccgtcaaaaactgc-attgcaccagTCAACGAAACATTCCTACCCAGGGTATGCAAACCTTCCGGAACCAACATGCTTGTCTTAAGTTCATGGCTCAATGTTCATGCTCTATCTGATATG

upper sequence: GLYMA02G35640.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G349794_T01 (Zea mays), 3'ss of exon 5
gtaacatgaccg---ccaaatgtatgcatctttg-tgattatt--------attaacatttcactgtattaacagtgttgtgcctgtagAAGGTGCAAGGGCTGCTTTGAACCTGTCTGGAACCATGCTTGGATATTACCCGTTGAGAGTGCTACCTTCAAAAACTGCTATTGTCCCTGTTAATCCAAC
|||| ||  ||    ||||   | |     |||| | | |||         ||  ||| || |  |  | || |   | |       ||| ||||||||||||||| |||| ||||| |||| ||||||||||||||| ||  | |  || ||||| ||||||||||| ||||  || || |||  |||
gtaatatatccatatccaaccatgtttcagtttgcttactatgtgtaatggatctacagtttatcgagtgaaaaacatcgatgtccaagAGGGTGCAAGGGCTGCTCTGAATCTGTCAGGAAACATGCTTGGATATTATCCTGTCAATGTTCTACCGTCAAAAACTGCCATTGCACCAGTCAATGAAAC

upper sequence: GLYMA02G35640.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G175541_T02 (Zea mays), 3'ss of exon 4
gtaacatgaccgc-caaatgtatgcatctttgtgattatt-----------attaacatttcactgtattaacagtgttgtgcctgtagAAGGTGCAAGGGCTGCTTTGAACCTGTCTGGAACCATGCTTGGATATTACCCGTTGAGAGTGCTACCTTCAAAAACTGCTATTGTCCCTGTTAATCCAAC
|||| ||  ||    | |   |||  ||  | || ||| |           ||  ||  || |  |  | || |   | |      |||| ||||||||||||||| |||| |||||  ||||| ||||||||||||| ||  | |  || || || ||||||||||| ||||  || || ||   |||
gtaatatatccatatacaaccatgtttcagtttgcttactctgtgtaatggatctactgtttatggggtgaaaaacatcgatgtcctagAGGGTGCAAGGGCTGCTCTGAATCTGTCAAGAACCGTGCTTGGATATTATCCTGTCAATGTTCTGCCGTCAAAAACTGCCATTGCACCAGTCAACAAAAC

upper sequence: GLYMA02G35640.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G456149_T01 (Zea mays), 3'ss of exon 6
gtaacatgaccg---cca--aatgtatgcat-------ctttgtgattattattaacatttcactgtattaacagtgttgtgcctgtagAAGGTGCAAGGGCTGCTTTGAACCTGTCTGGAACCATGCTTGGATATTACCCGTTGAGAGTGCTACCTTCAAAAACTGCTATTGTCCCTGTTAATCCAAC
|||| ||  ||    |||  ||||| |  ||       || ||||      ||  ||  || |  |  | || |   | |       ||| ||||||||||||||| |||| ||||| ||||||  |||||||||||| ||  | |  || || || ||||||||||| ||||  || || ||   |||
gtaatatatccatatccaacaatgtttcaatttacttactctgtgtaatggatctactgtttatcgggtgaaaaacatcgatgtcccagAGGGTGCAAGGGCTGCTCTGAATCTGTCAGGAACCGAGCTTGGATATTATCCAGTCAATGTTCTGCCGTCAAAAACTGCCATTGCACCAGTCAACGAAAC

upper sequence: GLYMA02G35640.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G069102_T01 (Zea mays), 3'ss of exon 4
-------------gtaacatgaccgccaaatgtatgca-tctttgtgattattattaacatttcactgtattaacagtgttgtgcctgtagAAGGTGCAAGGGCTGCTTTGAACCTGTCTGGAACCATGCTTGGATATTACCCGTTGAGAGTGCTACCTTCAAAAACTGCTATTGTCCCTGTTAATCCAAC
              |  ||  |      | | |    | ||| ||| ||    ||  ||  || |  |  | || |   | |       ||| |||||||| |||||| |||| ||||| |||||| ||||||||||||| ||  | |  || || || ||||||||||| ||||  || || ||   |||
gtaatatatccatatcccaccatgtttcagtttgcttactctatgtaatgg--atctactgtttatcgggtgaaaaacatcgatgtcccagAGGGTGCAAGAGCTGCTCTGAATCTGTCAGGAACCGTGCTTGGATATTATCCTGTCAAGGTTCTGCCGTCAAAAACTGCCATTGCACCAGTCAACGAAAC

upper sequence: GLYMA02G35640.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G457231_T01 (Zea mays), 3'ss of exon 6
gtaacatgaccg---ccaa--atgtatgcatctttgtgattattattaacatttcactgtat------taacagtgttgtgcctgtagAAGGTGCAAGGGCTGCTTTGAACCTGTCTGGAACCATGCTTGGATATTACCCGTTGAGAGTGCTACCTTCAAAAACTGCTATTGTCCCTGTTAATCCAAC-
|||| ||  ||    ||||  |||| |   | |   |  |   | | |    |  ||||| |      | | |   | |       ||| ||||||||||||||  |||| ||||| |||||| ||||||||||||| ||  | |  || || || |||||| |||| ||||  || || ||   ||| 
gtaatatatccatatccaaccatgtttcagtttgcttactctgtgtaatggatctactgtttatcgggtgaaaacatcgatgtcccagAGGGTGCAAGGGCTGCCCTGAATCTGTCAGGAACCGTGCTTGGATATTATCCTGTCAATGTTCTGCCGTCAAAA-CTGCCATTGCACCAGTCAAAGAAACA

upper sequence: GLYMA02G35640.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G014573_T01 (Zea mays), 3'ss of exon 2
gtaacatgaccg---ccaaatgtatgcatctttg-tgattatt--------attaacatttcactgtattaacagtgttgtgcctgtagAAGGTGCAAGGGCTGCTTTGAACCTGTCTGGAACCATGCTTGGATATTACCCGTTGAGAGTGCTACCTTCAAAAACTGCTATTGTCCCTGTTAATCCAAC
|||| ||  ||    ||||   | |     |||| | | |||         ||  ||| || |  |  | || |   | |       ||| ||||||||||||||| |||| ||||| |||| | ||||||||||||| ||  | |  || ||||| ||||||||||| ||||  || || ||   |||
gtaatatatccatatccaaccatgtttcagtttgcttactatgtgtaatggatctacagtttatcgggtgaaaaacatcgatgtcccagAGGGTGCAAGGGCTGCTCTGAATCTGTCAGGAAACGTGCTTGGATATTATCCTGTCAATGTTCTACCATCAAAAACTGCCATTGCACCAGTCAACGAAAC

upper sequence: GLYMA02G35640.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv16s0098g01040.t01 (Vitis vinifera), 3'ss of exon 5
-------------gtaaca--tgaccgccaaatgta-----tgcatctttgtgatt-attattaacatttcac-tgta-ttaacagtgttgtgcctgtagAAGGTGCAAGGGCTGCTTTGAACCTGTCTGGAACCATGCTTGGATATTACCCGTTGAGAGTGCTACCTTCAAAAACTGCTATTGTCCCTGTTAATCCAAC
              ||||   ||||||    |||||     |||||| |  ||  | |  |||    ||| |  | || |||||| |  ||||| || |||||| ||  |||||||| |||   || | ||||| |||||||| ||||| ||  ||||||||||||||||||||||||| ||||  |||||||| |||||
acattaaattggtttaaccgttgaccgttgtatgtagcgcatgcatcctcttgcctgaacattgtttttttaggtataattaacattcatgtgcttgcagAAGGCGCGCGGGCTGCTCTGAGTTTGGCGGGAACAATGCTTGGGTATTATCCAGTGAGAGTGCTACCTTCAAAAACTGCAATTGCACCTGTTAACCCAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcatctttgtgattattattaacatttcactgtattaacagtgttgtgcctgtagAAGGTGCAAGGGCTGCTTTGAACCTGTCTGGAACCATGCTTGGATATTACCCGTTGAGAGTGCTACCTTCAAAAACTGCTATTGTCCCTGTTAATCCAAC
                                tattaac  putative branch site (score: 1)
           attattattaacattt  TA-rich tract