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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtgatttcgaggaagatctcccttagactattcttcacaaagcttgttttttatctcataaaacatgatgcttttcttattaaactaatgcaacattttcacttctttgcagGTAGCTCGAGGTGATAGGAGTGGAGAAGATGGTATCCCTATGCTACTCAAGATACCACGTATGTTTGATCCCTGGGGTGGTTACAGCATCATTGGTTTTG

Basic information

species Glycine max
transcript GLYMA18G46760.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G46760.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os06g51430.1 (Oryza sativa), 3'ss of exon 10
gtgagtgatttcgaggaagatctcccttagactattcttcacaaagcttgttttttatctcataaaacatgatgcttttcttattaaactaatgcaacattttcacttctttgcagGTAGCTCGAGGTGATAGGAGTGGAGAAGATGGTATCCCTATGCTACTCAAGATACCACGTATGTTTGATCCCTGGGGTGGTTACAGCATCATTGGTTTTG
    || | ||    | | || |    ||||||  |         | |  ||  | |||||||     | | |   ||  ||||    ||  ||             |  |   |||||||||| ||||| | || ||  ||||| ||  |||| ||| |||| || || ||||| ||||||||||| ||||| || |||||||||||||| || |
----gtaagttttgtggaaatttattctagacttct---------ggtaattggtgatctcattgtttaagctaagttggttat---gctggtgtg----------cttctcaaagGTAGCTCGTGGTGACAAGACTGATGAAGACGGCGTCCCCATGTTACTAAAAATTCCACGAATGTTTGATCCATGGGGAGGATACAGCATCATTGGATTCG

upper sequence: GLYMA18G46760.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G165351_T03 (Zea mays), 3'ss of exon 8
gtgagtgatttcgaggaagatctcccttagactattcttcacaaagcttgttttttatctcataaaacatgatgcttttcttattaaactaatgcaacattttcacttctttgcagGTAGCTCGAGGTGATAGGAGTGGAGAAGATGGTATCCCTATGCTACTCAAGATACCACGTATGTTTGATCCCTGGGGTGGTTACAGCATCATTGGTTTTG
                                 |   |    || |    | |  ||| |  |   |        ||| ||  |||   ||         ||||   |      |||| || || || || | ||  |  || |||||| | || ||||| || || || || || ||||||||||| |||||||| |||||||||||||| ||||
------------------------------gtaagcgtgtgaaaggggattctgctatttggtggtatcctgaattttgctggtta---tagcatgttggtttcttctgcaaatagGTTGCGCGTGGCGACAAGACCGACGAGGATGGTGTGCCCATGCTGCTAAAAATCCCGCGAATGTTTGATCCATGGGGTGGATACAGCATCATTGGCTTTG

upper sequence: GLYMA18G46760.1 (Glycine max), 3'ss of exon 10
lower sequence: AT1G01650.1 (Arabidopsis thaliana), 3'ss of exon 10
--------------------gtgagtgatttcgaggaagatctcccttagactattcttcacaaagcttgttttttatctcataaaacatgatgcttttcttattaaactaatgcaacattttcacttctt-----tgcagGTAGCTCGAGGTGATAGGAGTGGAGAAGATGGTATCCCTATGCTACTCAAGATACCACGTATGTTTGATCCCTGGGGTGGTTACAGCATCATTGGTTTTG
                           ||   |    |   ||   ||||| |||||     | |  |  || | | |||  |    ||   || | || |     || |  | |  | ||| |  || |      |  ||||||| || ||||| || || ||||| || || || || |||||||| ||||| ||||| ||||||||||| |||||||| |||||||| ||||| ||||
gtaagtttttcttttttgctccagaccatcatgcaagaagactttgttaga-tattccaactacacatacttatctgtctgctc---cacactgatattatcggagaattg-tacgtcttttcccattttcccacatatagGTAGCCCGTGGTGACAGAAGCGGAGAGGACGGAATTCCAATGCTACTAAAGATCCCACGAATGTTTGATCCTTGGGGTGGCTACAGCATAATTGGATTTG

upper sequence: GLYMA18G46760.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv15s0046g02460.t01 (Vitis vinifera), 3'ss of exon 10
gtgagtgatttcgaggaagatctcccttagactattc--ttcacaaagcttgttttttatctcataaaacatgatgcttttcttattaaactaatgcaacattttcacttctttgcagGTAGCTCGAGGTGATAGGAGTGGAGAAGATGGTATCCCTATGCTACTCAAGATACCACGTATGTTTGATCCCTGGGGTGGTTACAGCATCATTGGTTTTG
|| |||  ||||    ||  |         || | |   ||   || |  || | |||    | | | |  |  ||||   |  |||| |  | |     ||| |   |||| |  |||||||||| |||||||||||||| || |||||||| || |||||||| ||||| || || ||||||||||| |||||||| |||||||||||||| ||||
gtaagtagtttctccaaaacttgttagcccaccaatacatttgaaacggctgatgtttggtacttgagatctc-tgctgccca-attacagaattatgtaattgtgttttctgtatagGTAGCTCGTGGTGATAGGAGTGGGGAGGATGGTATTCCGATGCTACTGAAGATCCCGCGAATGTTTGATCCTTGGGGTGGCTACAGCATCATTGGATTTG

upper sequence: GLYMA18G46760.1 (Glycine max), 3'ss of exon 10
lower sequence: PP1S124_16V6.1 (Physcomitrella patens), 3'ss of exon 10
-------------------------------------------------gtgagt-gatttcgaggaagatctcccttagactattcttcacaaagcttgttttttatctcataaaac--atgat-----gcttt----tcttattaaactaatgc--------aacattttcacttctttg---cagGTAGCTCGAGGTGATAGGAGTGGAGAAGATGGTATCCCTATGCTACTCAAGATACCACGTATGTTTGATCCCTGGGGTGGTTACAGCATCATTGGTTTTG
                                                  ||  | || ||| |||  |    |  ||      ||   || |   | | ||||| ||| | | || |  | |||     ||||     ||  | || || | |||         ||  ||  |||| | ||   ||||| ||||| || |||| ||     | ||| ||||| |||||||| || ||  | |||||| | |||||||| |||||||| ||||| |||||||||||||
gtatgttcatcaatctggcttttcctatttaagacgcgcgtttttgaaattgtttcgacttctaggttgtgaactattgagtgctttgacaaatgtcgtctttttcatcacttcaagctgacgatcggtagcttgggtatcacaatacacaagtgctgagatatgacgattgaacttttctgggacagGTTGCTCGGGGAGATAAGACCAATGGAGAGGGTATTCCTATGCTTCTTAAAGTTCCACGTCTTTTTGATCCATGGGGTGGCTACAGTATCATTGGTTTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ataaaacatgatgcttttcttattaaactaatgcaacattttcacttctttgcagGTAGCTCGAGGTGATAGGAGTGGAGAAGATGGTATCCCTATGCTACTCAAGATACCACGTATGTTTGATCCCTGGGGTGGTTACAGCATCATTGGTTTTG
                         aactaat  putative branch site (score: 2)
                                    cattttcacttcttt  putative PPT
              ttttcttattaaacta  TA-rich tract