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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaccactcctcccaataacttgtacactaaatttcgtaattcaacggaatcttgattgattttctgtaatttctggtatattggcttgctttaatatagATACATCTTTTTGATATTGACATCCCTGGGAAGATTACTTTTATTGAATCAAAAACTCTTACTGTTGGGGAGACTCTGACAATTGTGGACACAG

Basic information

species Glycine max
transcript GLYMA20G02020.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G02020.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os03g07910.1 (Oryza sativa), 3'ss of exon 3
gtaccactcctcccaataacttgtacactaaatttcgtaattcaacggaatcttgattgattttctgtaatttctggtatattggc-ttgctttaatatagATACATCTTTTTGATATTGACATCCCTGGGAAGATTACTTTTATTGAATCAAAAACTCTTACTGTTGGGGAGACTCTGACAATTGTGGACACAG
 |  || ||      |   | | |    | | || ||   | |       |||   |     |  |||   | ||   ||| ||   |  | ||| |  |||| ||||||||||| |||||||| ||||| |||||||| || |  ||||| || |||||||||| |||| ||  ||| ||  |||| |||||||
-tcacattctgatttacttcattttgctttatttgcggtgtcccgttttttctcattctccataatgtgcatgctataatactgaaatcacattagtgcagATCCATCTTTTTGACATTGACATTCCTGGAAAGATTACATTCAAGGAATCGAAGACTCTTACTGCTGGGCAGGATCTTACTGTTGTAGACACAG

upper sequence: GLYMA20G02020.1 (Glycine max), 3'ss of exon 2
lower sequence: AT5G12040.2 (Arabidopsis thaliana), 3'ss of exon 3
gtaccactcctcccaataacttgtacactaaatttcgtaattcaacgga-atcttgatt--gattttctgtaatttctggtatattggcttgcttta--atatagATACATCTTTTTGATATTGACATCCCTGGGAAGATTACTTTTATTGAATCAAAAACTCTTACTGTTGGGGAGACTCTGACAATTGTGGACACAG
       |   |   |    || ||  || |  ||   |||||   | | |||||| ||  ||||   || | ||  | || | |   ||||  |    ||| |||||||| | |||||||| ||||| || ||||||||||||||||| ||||| ||||||||||||| ||| ||||| |  ||||| || |||||||
----agatggccttgaccgttt-tatgcttatattatcaattctcagaacatcttgtttttgattgcttgcacttatttgtgtttgtacttgtgtgtgcatacagATACATTTATTTGATATAGACATTCCCGGGAAGATTACTTTTATGGAATCCAAAACTCTTACTGCTGGAGAGACACCAACAATCGTTGACACAG

upper sequence: GLYMA20G02020.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv04s0008g01690.t01 (Vitis vinifera), 3'ss of exon 3
gtaccactcctcccaataacttgtacactaaatttcgtaattcaacgg----aatcttgattgattttctgtaatttctggtatattg-gcttgctttaatatagATACATCTTTTTGATATTGACATCCCTGGGAAGATTACTTTTATTGAATCAAAAACTCTTACTGTTGGGGAGACTCTGACAATTGTGGACACAG
     | |  |   || |  |   |||||||  ||   |    ||        ||  |  || | |  |  || |||||| ||| ||  |  || || | || ||||||| |||||||||||  |||| ||||||||||| || ||||| ||||||||||||||||| |  || |  | ||  |||||||| |||||||
---tgaatgttttgaaca--tcaaacactaaccttttgaggataatctctttgatgctagtttagtgaccatagtttctgatatgttctgtgtggttgactacagATACACCTTTTTGATATCAACATTCCTGGGAAGATAACCTTTATGGAATCAAAAACTCTTACAGCAGGAGGAAGTCCCACAATTGTAGACACAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cggaatcttgattgattttctgtaatttctggtatattggcttgctttaatatagATACATCTTTTTGATATTGACATCCCTGGGAAGATTACTTTTATTGAATCAAAAACTCTTACTGTTGGGGAGACTCTGACAATTGTGGACACAG
                                            ctttaat  putative branch site (score: 4)
                                        cttgcttt  CT-rich tract
              attttctgtaattt  TA-rich tract