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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagatcaggtttgccttaaaattacttgtatcatttggtaattggtacattttcttttcgagtaggatttgatgtctccaaatactgtcttcattgcagGTAAAATGTTACATGCATCAGCTGCTATCAGGACTTGAGCACTGTCATAACCGTCGTGTACTTCACCGTGATATTAAAGGATCAAATCTTCTTATTGACA

Basic information

species Glycine max
transcript GLYMA19G42960.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G42960.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G156251_T01 (Zea mays), 3'ss of exon 2
gttagatcaggtttgccttaaaattacttgtatcatttggtaattggtacattttcttttcgagta----ggatttgatgtctccaaatactgtcttcattgcagGTAAAATGTTACATGCATCAGCTGCTATCAGGACTTGAGCACTGTCATAACCGTCGTGTACTTCACCGTGATATTAAAGGATCAAATCTTCTTATTGACA
             ||  | ||| |   |||     |  | ||   |||  |||   |  | || ||    || ||||||||| | |  |  | ||||    |||| ||||||||||||| || |||||| | ||||| |||||||| |||||| ||  |  |||| | ||||| ||||| || || |||||  |  |  | || |
------------gtgtgtgaaactgggttgctgtttcagata--cggtcgattacatggtggaataatgtgggtttgatgtcacta--tgttatctt----gcagATAAAATGTTACATACAGCAGCTGTTGTCAGGGCTTGAGCATTGTCATGACAATAATGTATTGCACCGGGATATCAAGGGGTCAAACTTGTTGTTGGATA

upper sequence: GLYMA19G42960.1 (Glycine max), 3'ss of exon 2
lower sequence: AT3G05050.1 (Arabidopsis thaliana), 3'ss of exon 3
gttagatcaggtttgccttaaaattacttgtatcatttggtaattggtacattttcttttcgagtaggatttgatgtctccaaatactgtcttcattg-cagGTAAAATGTTACATGCATCAGCTGCTATCAGGACTTGAGCACTGTCATAACCGTCGTGTACTTCACCGTGATATTAAAGGATCAAATCTTCTTATTGACA
                 |||    |   || |  |       |||   | ||      | ||||   |||   |    |   |||| |||||   ||  ||||| ||||| || ||| | || || || ||||| || ||||| || ||||||||  | || || ||||||||||||||||||||||| |||||||| ||  
----------------gttaggccttggtgaaata------gattcacaaatacaaaatccgaggcagatcctaaccttgttaataatgtctatgttttcagGTTAAATGCTATATGAAGCAACTACTTTCAGGGCTCGAGCATTGCCATAACCGAGGAGTTCTACACCGTGATATTAAAGGATCAAACCTTCTTATAGATG

upper sequence: GLYMA19G42960.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G54610.1 (Arabidopsis thaliana), 3'ss of exon 3
gttagatcaggtttgccttaaaattacttgtatcatttggtaattggtacattttcttttcgagtaggatttgatgtctccaaatactgtctt-cattgcagGTAAAATGTTACATGCATCAGCTGCTATCAGGACTTGAGCACTGTCATAACCGTCGTGTACTTCACCGTGATATTAAAGGATCAAATCTTCTTATTGACA
      | || |  || ||  | |  || | ||  |    | || ||   ||  | ||    ||| |  ||| | |  ||  | |||| | || | |||||||| |||||||  |||| |||| || |||| ||  | ||||| |||||||  ||| |||||||||| ||||| || |||||||||||||||||||||||  
-----gttagttaggcgttttagtatctcgcattctaaatttataggctaataatattc---agtcgttttttaaga-tcagattactcttttacgttgcagGTTAAATGTTTGATGCGTCAGTTGATATCTGGTTTGGAGCATTGTCATAGTCGTGGTGTACTTCATCGTGACATCAAAGGATCAAATCTTCTTATTGATG

upper sequence: GLYMA19G42960.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv14s0030g01260.t01 (Vitis vinifera), 3'ss of exon 5
gttagatcaggtttgccttaaaattacttgtatcatttggtaattggtacattttcttttcga----------gtagg-atttgatgtctcca---aatac-tgtctt-cattgcagGTAAAATGTTACATGCATCAGCTGCTATCAGGACTTGAGCACTGTCATAACCGTCGTGTACTTCACCGTGATATTAAAGGATCAAATCTTCTTATTGACA
||||||     || | |||   |||   || | ||  |    ||||| | |  |||||| | |          || |   | || || ||  |   || |  ||| |   |||  |||| |||||||||||| | || || ||||| || || ||||| ||||| |||||  |||| ||||||||||| || |||||||||||||| ||| |||| |
gttagactgaatt-gtcttggcatt---tgaaacaaatatgcattggcaaacattctttgcaaaataatgatcgtggatgtatgttgcctttatttaacatatgtttcatattatagGTCAAATGTTACATGAAACAACTACTATCTGGCCTAGAGCATTGTCACAACCGCGGTGTGCTTCACCGTGACATCAAAGGATCAAATCTCCTTCTTGATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtacattttcttttcgagtaggatttgatgtctccaaatactgtcttcattgcagGTAAAATGTTACATGCATCAGCTGCTATCAGGACTTGAGCACTGTCATAACCGTCGTGTACTTCACCGTGATATTAAAGGATCAAATCTTCTTATTGACA
                      atttgat  putative branch site (score: 5)
                                        ctgtcttc  putative PPT
     ttttctttt  TA-rich tract