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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacactattgaattaaatcaaattcctaacaaggggggcttctgtttcatgacctgaccaacaactattttagtttaccaggactttataaaatgataaactttatgtgattttgatttatgtttccagGGATGAGTTGAAAGTCTTTTCTGATGAGGTAATTCGTTTTGGAAATCGTTCAAAGGATCCTCAGTGGCACAACTTGGACCGATACTTTGAGAA

Basic information

species Glycine max
transcript GLYMA05G33040.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G33040.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os05g35530.1 (Oryza sativa), 3'ss of exon 3
----gtaacactattgaattaaatcaaattcctaacaaggggggcttc---tgtttcatgacctgaccaacaactattttagtttaccaggacttt----ataaaatgataaactttatgtgattttgatt-tatgtttc---cagGGATGAGTTGAAAGTCTTTTCTGATGAGGTAATTCGTTTTGGAAATCGTTCAAAGGATCCTCAGTGGCACAACTTGGACCGATACTTTGAGAA
     |||   | |||   |        ||    |  | |     |     | ||     ||| ||     | | |  ||| | ||| |  || ||     |||  |  |||  | |||    |  | ||| | || |||   |||||| |||||  || |||||||  | || ||  |||| |||||||||||||  ||| ||||||| ||||||| ||||||||| |||||||| ||
gtaaataatggttttgtgctccccagtcttttctatcatgcccattataaatattatcctaccagatatgtatccaggttactgtactataacctttcttttaatgttgtaagttgtatcaagtgctaattgtttggttctaacagGGAAGAGTTAGAAATCTTTTCAAAAGAAGTTGTTCGATTTGGAAATCGTTGCAAGAATCCTCAATGGCACAGCTTGGACCGCTACTTTGAAAA

upper sequence: GLYMA05G33040.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os01g65330.2 (Oryza sativa), 3'ss of exon 2
-------------------------------gtaacactattgaattaaatcaaattc-ctaacaaggggggcttctgtttcatgacctgaccaacaactattttagtttaccaggactttataaaatgataaactttatgtgattttgatttatgtttccagGGATGAGTTGAAAGTCTTTTCTGATGAGGTAATTCGTTTTGGAAATCGTTCAAAGGATCCTCAGTGGCACAACTTGGACCGATACTTTGAGAA
                                |||   | |      | ||   ||||  |  | ||       | |   | |||   | | |||||| |||  || | | |    |  |  ||  ||  |   || | ||   ||||| ||  |  |  |||||| ||||||||||| ||||||   || ||  |||| |||||||| || |  ||||||||||||||||| |||||||| || |||||||| ||
gttagcattgatctcactgcttctgcaaattataaacatgtgactgcacattctattcatttgctagaaatatgtatacatgatggtat-atcaacaa-tatcgtattgtgcttaaagat-gtactattttcttctat-tgaagttttggttatttctgacagGGAAGAGTTGAAAGTGTTTTCTACAGAAGTTGTTCGCTTTGGAAACCGCTGCAAGGATCCTCAGTGGCATAACTTGGATCGCTACTTTGACAA

upper sequence: GLYMA05G33040.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G046846_T01 (Zea mays), 3'ss of exon 3
------------------gtaacactattgaattaaatcaaattcctaa--caaggggggcttctgttt------cat-gacctgacca---acaactattttagtttaccaggactttataaaatgataaactttatgtgattttgatttatgtttccagGGATGAGTTGAAAGTCTTTTCTGATGAGGTAATTCGTTTTGGAAATCGTTCAAAGGATCCTCAGTGGCACAACTTGGACCGATACTTTGAGAA
                   |     |  | || || | ||| |  || |  ||   |    || | |||      |||  |||||   |   | ||  | | || || | |  |  ||||||   |  ||   |   ||   |||| ||||       |||||| ||||||||||| || |||   || ||  |||| |||||||||||||  ||||||||||||||||||||||||||||| |||||||| ||
gttagtgaataatctctgattctttttataaactataacaattgtctgaaccatttgtttattttatttatctagcatcaacctggttatatagaagaaatgtacttcaacttgtttttatatgcttgtag-ttacctgaagtttttatttggtccaacagGGAAGAGTTGAAAGTGTTCTCTACAGAAGTTGTTCGCTTTGGAAATCGTTGCAAGGATCCTCAGTGGCACAACTTGGACCGCTACTTTGATAA

upper sequence: GLYMA05G33040.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G320615_T01 (Zea mays), 3'ss of exon 2
----------------------------gtaac-actattgaattaaatcaa--attcctaacaaggggggcttctgtttcatgacctgaccaacaactattttagtttaccaggactttataaaatgataaactttatgtgattttgatttatgtttccagGGATGAGTTGAAAGTCTTTTCTGATGAGGTAATTCGTTTTGGAAATCGTTCAAAGGATCCTCAGTGGCACAACTTGGACCGATACTTTGAGAA
                            ||||  |      |||| ||| |   |||| |  |  | | |    |   ||||  |  | |   | |||| |   ||| | ||     ||| || | ||| ||||  ||  | | || | || ||     ||||||  ||||  |||| ||| |  | ||||| ||||| |||||||||||||  ||||||||||||||||| ||||||||| | |||||||| ||
gtttgtgcttgtgttcacttcttatcatgtaattatggcctaatttaattatccattcttgtcgtgcgtgttaccctattcaatatgt-atggaaaactgt---agtgtgccttttatttttatattga-aaacaataccttaattag-ttaattccatcagGGAAAAGTTAGAAGTATTTACAAAAGAGGTCATTCGCTTTGGAAATCGTTGCAAGGATCCTCAGTGGCATAACTTGGACTGCTACTTTGAAAA

upper sequence: GLYMA05G33040.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G077621_T01 (Zea mays), 3'ss of exon 2
------------------gtaacactattgaattaaatcaaattcctaacaaggggggcttctgtttcatgacctgaccaacaactat-------tttagtttaccaggactttataaaatgataaactttatgtgattttgatttatgtttccagGGATGAGTTGAAAGTCTTTTCTGATGAGGTAATTCGTTTTGGAAATCGTTCAAAGGATCCTCAGTGGCACAACTTGGACCGATACTTTGAGAA
                   |   |  ||  |||||   |  | |     || |   | | |  || | |   |||   ||| |  |||       | || | | ||     ||| || | ||| ||||  ||  | | || | || ||     |||||| |||||  |||| ||  |  | ||||| ||||| |||||||| ||||  ||||||||||||||||| ||||||||||| |||||||| ||
gtttgtgcttgtgttcacttcttatcatgtaattatggcctaatttatccatgcttgtcgtgcgtgttac--cctattcaatatgtatggaaaactgtattgtgccttttatttttatattga-aaacaataccttaattag-ttaattccatcagGGAAGAGTTAGAAGTATTCACAAAAGAGGTCATTCGCTTTGGAAACCGTTGCAAGGATCCTCAGTGGCATAACTTGGACCGCTACTTTGAAAA

upper sequence: GLYMA05G33040.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G148773_T02 (Zea mays), 3'ss of exon 2
gtaacactattgaattaaatcaaattcctaacaaggggggcttctgtttcatgacctgaccaacaactattttagtttaccaggactttataaaatgataaactttatgtgattttgatttatgtttccagGGATGAGTTGAAAGTCTTTTCTGATGAGGTAATTCGTTTTGGAAATCGTTCAAAGGATCCTCAGTGGCACAACTTGGACCGATACTTTGAGAA
                          | |  |  |      | || |  ||   || |  ||      ||  |      |  || |||  |    || | |      ||   ||||  |||       |||||| ||||||||||| ||||||   || ||  |||| ||||||||| |||  |||||||||||||||||||| ||| |||| |||||||| ||
--------------------------cttgcctcgatttattcctttcccaaacccggctcatgtggaatcctccaacgctgggtcttccttttttggttac-----tgaagtttttgtttggtccaacagGGAAGAGTTGAAAGTGTTTTCTACAGAAGTTGTTCGCTTTGGAAATTGTTGCAAGGATCCTCAGTGGCACAATTTGAACCGCTACTTTGATAA

upper sequence: GLYMA05G33040.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G097502_T02 (Zea mays), 3'ss of exon 2
------------------gtaacactattgaatt---aaatcaaattcctaacaaggggggcttct---gtttcatgacctgaccaacaactattttagtttacca-ggactttataaaatgat---aaactttatgtgatt-ttgatttatgtttccagGGATGAGTTGAAAGTCTTTTCTGATGAGGTAATTCGTTTTGGAAATCGTTCAAAGGATCCTCAGTGGCACAACTTGGACCGATACTTTGAGAA
                  || | |  ||  || |   || |   |  |  | | |     |||| |   || |  |  ||||    | |   |||  |   | |   |  | || ||   | ||    || || ||    |  ||  || ||     |||||| |||||  |||| ||  |    |||||  |||| |||||||| ||||  ||||||||||| ||||| ||||||||||| |||||||| ||
gtttgtgcttgtgttcacgtgatatcatgtaacttgtaagttgtaacctaatctatccatgcttgttgtgtgtgttaccctgttagatatgcattgaaaactgcagtgtgccttttatttttatctcgaaattaataccttaattagttaattccaacagGGAAGAGTTAGAAGTATTCACAAGAGAGGTTGTTCGCTTTGGAAACCGTTGCAAGGATCCTCAATGGCATAACTTGGACCGCTACTTTGAAAA

upper sequence: GLYMA05G33040.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv07s0031g02970.t01 (Vitis vinifera), 3'ss of exon 2
gtaacactattgaat-taaatcaaattcctaacaaggggggcttctgttt-catgacctgaccaacaactattttagtttaccaggactttataaaatgataaactttatgtgattttgatttatgtttccagGGATGAGTTGAAAGTCTTTTCTGATGAGGTAATTCGTTTTGGAAATCGTTCAAAGGATCCTCAGTGGCACAACTTGGACCGATACTTTGAGAA
||   |||| || ||       ||||   ||| |     | | ||  | | | ||| | ||      |||||| | || ||       ||| |  | || ||| |||  ||   |   |  |||||||| |||||| ||||||||| | |||   |  || ||  ||||||||||||||| ||  |  |||||||||||||||||||||||||  || ||||||||
gtgg-actaatggatactggctaaatagttaatatt---gccatcaatgtgcttgatcagaatggttactattgt-gtctatttca--tttctgcagtggtaaccttgctgatttacggtattatgttttcagGGAAGAGTTGAAAATTTTTGTGGGAGAAGTGGTTCGTTTTGGAAATCATTGTAGAGATCCTCAGTGGCACAACTTGGACCTTTATTTTGAGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaccaggactttataaaatgataaactttatgtgattttgatttatgtttccagGGATGAGTTGAAAGTCTTTTCTGATGAGGTAATTCGTTTTGGAAATCGTTCAAAGGATCCTCAGTGGCACAACTTGGACCGATACTTTGAGAA
                                    ttttgat  putative branch site (score: 4)
                                              tgtttcc  putative PPT
          tttataaaatgataaa  TA-rich tract