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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtaaactattttaattcatttttgtcattgaacccaccaactgaaatttgtttctagtgtcacatttcttacttgttattttcttgtgttcactttttttgcagCCAATCATCTAGATTATCTGGGAGTGCAGGTGGCATGGGTTACTGGACCATGGTTCCTGTCCATTTTTGTGAACATGCTTCCTTGGGAAAGTG

Basic information

species Glycine max
transcript GLYMA10G44110.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G44110.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os05g38950.2 (Oryza sativa), 3'ss of exon 8
gtttgtaaactattttaattcatttttgtcattgaacccaccaactgaaatttgtttctagtgtcacatttcttacttgttattttcttgtgttcactttttttgcagCCAATCATCTAGATTATCTGGGAGTGCAGGTGGCATGGGTTACTGGACCATGGTTCCTGTCCATTTTTGTGAACATGCTTCCTTGGGAAAGTG
||| | ||  ||||  ||   || |     ||||      |   |   | || | |  ||   ||| |  | | | |  |||    ||  | |||  ||||| |||||| ||||| || ||||| || ||  | || || |||||||||||||||||||||||||| ||||||||    ||  ||||||||||||| ||||
gttcgcaacttattgcaa---atatgatatattggtgtggcgtgcctcatttagctagtaacttcaaaaatataa-taattaaaagctgat-ttccttttttgtgcagCAAATCACCTGGATTACCTTGGTCTTCAAGTTGCATGGGTTACTGGACCATGGTTCCTATCCATTTTCACCAATGTGCTTCCTTGGGAGAGTG

upper sequence: GLYMA10G44110.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os01g61860.1 (Oryza sativa), 3'ss of exon 8
gtttgtaaactattttaattcatttttgtcattgaacccaccaactgaaatttgtttctagtgtcacatttcttacttgttattttcttgtgttcactttttttgcagCCAATCATCTAGATTATCTGGGAGTGCAGGTGGCATGGGTTACTGGACCATGGTTCCTGTCCATTTTTGTGAACATGCTTCCTTGGGAAAGTG
|||||   | |||| |      ||| | | |    | |     |     | |||       ||| | |      | ||    |  | || ||     |||||| ||||  ||||| || ||||| || || || || || ||||||||||||||||||||||| || || || ||  |||||||||| || ||||||||||
gtttgcgcattattct----tgtttgtattaaaatatctgtatatcatgacttggcatatatgtta-accgacaattttgactacttttatgcatggtttttt-gcagTAAATCACCTGGATTACCTCGGCGTTCAAGTTGCATGGGTTACTGGACCATGGTTTCTATCTATATTCATGAACATGCTACCATGGGAAAGTG

upper sequence: GLYMA10G44110.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G096470_T01 (Zea mays), 3'ss of exon 8
gtttgtaaactattttaattcatttttgtcattgaacccaccaactgaaatttgtttctagt-gtcacatttcttacttgttattttcttg--tgttcactttttttgcagCCAATCATCTAGATTATCTGGGAGTGCAGGTGGCATGGGTTACTGGACCATGGTTCCTGTCCATTTTTGTGAACATGCTTCCTTGGGAAAGTG
                        | ||| | | |  |||  |  || |     |   |    | || |||     |     |||  |  |     |||  | |||| |||  |||||||| ||||| || || || || || |||||||| ||||| ||||||||||| || |||||| ||||||||||||| ||||||||||
-----------------------gtgtgtgacttattccattatttgtaccacatgattgtcagacatattaacagcacaagattgacaagaacactcatgtattttccagTAAATCATCTTGATTACCTTGGTGTACAAGTTGCATGGGTCACTGGTCCATGGTTCCTATCTATTTTTATGAACATGCTTCCCTGGGAAAGTG

upper sequence: GLYMA10G44110.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G051050_T01 (Zea mays), 3'ss of exon 8
gtttgtaaactattttaattcatttttgtcattgaacccaccaactgaaatttgtttctagtgtcacatttcttacttgttattttcttgtgttcactttttttgcagCCAATCATCTAGATTATCTGGGAGTGCAGGTGGCATGGGTTACTGGACCATGGTTCCTGTCCATTTTTGTGAACATGCTTCCTTGGGAAAGTG
||| | || ||||  | | | | ||     ||||       ||  |||   ||  | |     | | |      |  | |||   | |    | |  | ||   ||||| ||||| || ||||| || ||| | || || |||||||||||||| ||||||||| | ||||| ||   |||  ||||||||||||||||||
gttagcaacctatcatgaataaattgaaatattgg---tggcatgtgactctttgtgccctaataaaaaaatccaagtattaggatttaacatactttcttgacgcagCAAATCACCTGGATTACCTTGGACTTCAAGTTGCATGGGTTACTGGGCCATGGTTCTTATCCATCTTCACGAATGTGCTTCCTTGGGAAAGTG

upper sequence: GLYMA10G44110.1 (Glycine max), 3'ss of exon 8
lower sequence: AT2G39280.1 (Arabidopsis thaliana), 3'ss of exon 8
gtttgtaaactattttaattcatttttgtcattgaacccaccaactgaaatttgtttctagtgtcacatttcttacttgttattttcttgtgttcactttttttgcagCCAATCATCTAGATTATCTGGGAGTGCAGGTGGCATGGGTTACTGGACCATGGTTCCTGTCCATTTTTGTGAACATGCTTCCTTGGGAAAGTG
    || |  | ||| |   || | ||||  || | |  |||||   |||||||    | |||  |       ||||||| ||||     ||| ||     | |||||   |||||||||||||||| |||||||||||||| || ||||| || |||||||| ||  |||| ||  | || |||||||| ||||||||||
----gttagttttttca---cagtcttgt--ttcatcttaccaa---aaatttggagttggtgctaa---cactacttgtgatttc----tgtcca-----tctgcagTTCATCATCTAGATTATCTTGGAGTGCAGGTGGCTTGCGTTACAGGGCCATGGTTTCTTACCATCTTCATTAATATGCTTCCATGGGAAAGTG

upper sequence: GLYMA10G44110.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv13s0067g03420.t01 (Vitis vinifera), 3'ss of exon 8
gtttgtaaactattttaattcatttttgtcattgaaccca-ccaactgaaatttgtttctagtgtcacatttcttacttg--ttattttcttgtgttcactttttttgcagCCAATCATCTAGATTATCTGGGAGTGCAGGTGGCATGGGTTACTGGACCATGGTTCCTGTCCATTTTTGTGAACATGCTTCCTTGGGAAAGTG
||||||    | ||  | |   || || || |||  |    |||| |   |||| ||  |  | | |    | ||   ||  || || | |    ||    |  | |||||  ||||| || |||| ||||||||||||||||||||||||||||||||| ||||| || ||||||||| |||| |||||||| ||||||||||
gtttgtttcttgttgca-tattttattatcgttgcccttttccaattattattttttctttatatgaggcattttggatggcttcttatttcacctttgtgtcatgtgcagTTAATCACCTGGATTTTCTGGGAGTGCAGGTGGCATGGGTTACTGGACCGTGGTTTCTTTCCATTTTTATGAATATGCTTCCATGGGAAAGTG

upper sequence: GLYMA10G44110.1 (Glycine max), 3'ss of exon 8
lower sequence: PP1S31_313V6.1 (Physcomitrella patens), 3'ss of exon 8
gtttgtaaactattttaattcatttttgtcattgaacccacc-aactgaaatttgtttctagtgtcacat---ttcttacttgttattttcttgtgttcactttttttgcagCCAATCATCTAGATTATCTGGGAGTGCAGGTGGCATGGGTTACTGGACCATGGTTCCTGTCCATTTTTGTGAACATGCTTCCTTGGGAAAGTG
    || |    | | |    | | |||   ||  ||| ||   | |    || || |    | | | |    |||| |       |  |  ||| ||   | |  ||||||| | |||||| ||    || ||||||||||| |||||||||| ||| || |||||||| ||||| ||||||||| |  | || ||||| | ||
----gtgagtcgtatca---tactcttgattttttacctacttgatttcgtttagtataggatataataggaattctcagaaaaattgctaatgtatttg-tgtcattgcagCAACTCATCTGGAGAGCCTTGGAGTGCAGGTAGCATGGGTTAGTGGCCCTTGGTTCCTTTCCATCTTTGTGAACGTCGTACCATGGGAGACTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtttctagtgtcacatttcttacttgttattttcttgtgttcactttttttgcagCCAATCATCTAGATTATCTGGGAGTGCAGGTGGCATGGGTTACTGGACCATGGTTCCTGTCCATTTTTGTGAACATGCTTCCTTGGGAAAGTG
                ttcttac  putative branch site (score: 2)
                             ttttcttgtgttcact  putative PPT
                   ttacttgttatttt  TA-rich tract