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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttggggagatgtgttgagtttacatgcaatgtgacattgctagtggacttggttattgtgtgtttacatgtatgttgttaattgttatgtgggcagAGTGACAGTCATAATCTCAAGTACATGGGCATTGATGCCCTTGGTCGGTTGATAAAGTTAAGTCCACATATTGCAGAACAGCACCAACTTGCCGTCATTG

Basic information

species Glycine max
transcript GLYMA09G35240.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G35240.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os01g68750.1 (Oryza sativa), 3'ss of exon 3
gtttggggagatgtgttgagtttacatgcaatgtgacattgctagtggacttggttattgtgtgtttacatgtatgttgttaattgttatgtgggcagAGTGACAGTCATAATCTCAAGTACATGGGCATTGATGCCCTTGGTCGGTTGATAAAGTTAAGTCCACATATTGCAGAACAGCACCAACTTGCCGTCATTG
||      | |  | ||  ||  | |   || ||||  ||  |  ||    ||   || |    || || ||  |  |      | ||||||  ||||||||| || |||||||| |||||||||||||||||||| ||||| ||||| || ||  ||| |||| |||| |||||| ||||||| || || || ||||
gtgcacacaaagttcttatgtg-agacataa-gtgattttcatgatgt-tgtgtccataggaaattaacctgcttcattaactcttttatgtttgcagAGTGATAGCCATAATCTTAAGTACATGGGCATTGATGCTCTTGGCCGGTTAATTAAAATAAATCCAGATATCGCAGAAGAGCACCAGCTGGCTGTTATTG

upper sequence: GLYMA09G35240.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G031352_T01 (Zea mays), 3'ss of exon 2
gtttggggagatgtgttgagtttacatgcaatgtgacattgctagtggacttggttattgtgtgtttacatgtatgttgttaattgttatgtgggcagAGTGACAGTCATAATCTCAAGTACATGGGCATTGATGCCCTTGGTCGGTTGATAAAGTTAAGTCCACATATTGCAGAACAGCACCAACTTGCCGTCATTG-----------
|||||   |      ||    |||   | ||  | | || ||  || |   || |  |||   | | ||     |  |  |  |||   ||   ||||||||| ||||||||||| |||||||||||||||||||| |||||  |||| |||||  ||| |||| ||||||||||| ||||||| || || |||||||           
gtttgcacatgatcttta---ttatgggaaaaataa-atggcatgttg---tgttctttggaggctaaccaacttaatcatccttgcattgattgcagagtgatagtcataatcttaagtacatgggcattgatgctcttggcagGTTAATAAAAATAAATCCAGATATTGCAGAAGAGCACCAGCTGGCTGTCATTGATTGCTTAGAG

upper sequence: GLYMA09G35240.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G031352_T02 (Zea mays), 3'ss of exon 3
gtttggggagatgtgttgagtttacatgcaatgtgacattgctagtggacttggttattgtgtgtttacatgtatgttgttaattgttatgtgggcagAGTGACAGTCATAATCTCAAGTACATGGGCATTGATGCCCTTGGTCGGTTGATAAAGTTAAGTCCACATATTGCAGAACAGCACCAACTTGCCGTCATTG
|||||   |      ||    |||   | ||  | | || ||  || |   || |  |||   | | ||     |  |  |  |||   ||   ||||||||| ||||||||||| |||||||||||||||||||| |||||  |||| |||||  ||| |||| ||||||||||| ||||||| || || |||||||
gtttgcacatgatcttta---ttatgggaaaaataa-atggcatgttg---tgttctttggaggctaaccaacttaatcatccttgcattgattgcagAGTGATAGTCATAATCTTAAGTACATGGGCATTGATGCTCTTGGCAGGTTAATAAAAATAAATCCAGATATTGCAGAAGAGCACCAGCTGGCTGTCATTG

upper sequence: GLYMA09G35240.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G146697_T03 (Zea mays), 3'ss of exon 3
gtttgggga-gatgtgttgagtttacatgcaatgtgacattgctagtggacttggttattgtgtgtttacatgtatgttgttaattgttatgtgggcagAGTGACAGTCATAATCTCAAGTACATGGGCATTGATGCCCTTGGTCGGTTGATAAAGTTAAGTCCACATATTGCAGAACAGCACCAACTTGCCGTCATTG
||||| | | ||| | |    |  | |       ||   |   |  ||||   || ||       |   |||   | | ||| |||          |||||||| ||||||||||| ||||||||||| |||||||| ||||| ||| | |||||  |||  ||| ||||||||||| ||||||| || || |||||||
gtttgcgcatgatctttattatggaaaaatggcatgctgtcttttttgga---ggctaaccaacttaatcatccctttcgttgattt---------cagAGTGATAGTCATAATCTTAAGTACATGGGTATTGATGCTCTTGGCCGGCTAATAAAAATAAACCCAGATATTGCAGAAGAGCACCAGCTAGCTGTCATTG

upper sequence: GLYMA09G35240.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G31730.1 (Arabidopsis thaliana), 3'ss of exon 2
gtttggggagatgtgttgagtttacatgcaatgtgacattgctagtggacttggttattgtgtgtttacatgtatgttgttaattgttatgtgggcagAGTGACAGTCATAATCTCAAGTACATGGGCATTGATGCCCTTGGTCGGTTGATAAAGTTAAGTCCACATATTGCAGAACAGCACCAACTTGCCGTCATTG
|||||  |   | |     || |  ||||| | |    ||| ||    || |    ||||| | |||| ||    |  |  || | ||      ||||||||| ||||| ||||| ||||||||||| |||||||  |||||||| ||||||||  |||| ||| | ||||| || |||||||||||||| || || |
gtttgttg---tcttcctggtatgtatgca-tatactcttgtta----accttacgattgt-tatttaaatcccgg--gcaaactattt-----gcagAGTGATAGTCACAATCTGAAGTACATGGGTATTGATGGTCTTGGTCGATTGATAAAAATAAGCCCAGACATTGCTGAGCAGCACCAACTTGCTGTGATAG

upper sequence: GLYMA09G35240.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv02s0087g00690.t01 (Vitis vinifera), 3'ss of exon 3
---------------------gtttggggagatgtgttgagtttacatgcaatgtgacattgctagtggacttggttattgtgtgtttacatgtatgttgtta----attgttatgtgggcagAGTGACAGTCATAATCTCAAGTACATGGGCATTGATGCCCTTGGTCGGTTGATAAAGTTAAGTCCACATATTGCAGAACAGCACCAACTTGCCGTCATTG
                     |||  |    |    |     || | || | | | |   |  ||| |   ||||||    | | ||   |   ||||| ||     ||| |  | | |||||||||| ||||||||||| ||||| |||||||||||||||||| || |  |||||||| |||||||| | ||||| ||||| |||||| | || |||||||
gtttgtctccacacctttttagttgcgtcccacaactactaatttcctg-attatcatcatcttagagcttttggttgccatattttgtaactcatgtttttctgttattatccttttggcagAGTGATAGTCATAATCTAAAGTATATGGGCATTGATGCCCTTAGTAGACTGATAAAGATAAGTCCAGAAATTGCTGAACAACACCAATTGGCTGTCATTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtggacttggttattgtgtgtttacatgtatgttgttaattgttatgtgggcagAGTGACAGTCATAATCTCAAGTACATGGGCATTGATGCCCTTGGTCGGTTGATAAAGTTAAGTCCACATATTGCAGAACAGCACCAACTTGCCGTCATTG
                                  tgttaat  putative branch site (score: 3)
                                 ttgttaattgttat  TA-rich tract