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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttttttgtttataattttgaatttcaatttgagtgcataatcgttggttccgtgatttcgtttaatatagtctgaacttttcgtttgtggtttctgatttacgagatctggtttcagatctgtgatacccgtggtagtgtgtttgatttttgaatttgtatggcttttttttttttttaatttcagATGTGTTTCGATTGCAATGCGAAGAACCCTACCTGGGCGTCCGTCACGTATGGGATCTTCCTCTGCATCGATTGCTCCGCCGTTCACCGCAGTCTCGGCG

Basic information

species Glycine max
transcript GLYMA01G12340.2
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G12340.2 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os03g63710.2 (Oryza sativa), 3'ss of exon 1
gttttttgtttataattttgaatttcaatttgagtgcataatcgttggttccgtgatttcgtttaatatagtctgaacttttcgtttgtggtttctgatttacgagatctggtttcagatctgtgatacccgtggtagtgtgtttgatttt-tgaatttgtatggcttttttttttttttaatttcagATGTGTTTCGATTGCAATGCGAAGAACCCTACCTGGGCGTCCGTCACGTATGGGATCTTCCTCTGCATCGATTGCTCCGCCGTTCACCGCAGTCTCGGCG
                                                                                       ||   |||    |  | ||||||  ||     |||      ||     |   | ||  ||| |  || | | |||| |   | |  || ||    |  |||||||| ||||| ||||  || |||||||| |||||||| |||||||| || || |||||||||||| |||| ||||||||||| |||||||| |||||||
---------------------------------------------------------------------------------------gtaacttcctcctctc-agatcttcttcttcttcttcttcgcc-----tcaagagtcagatctcatgtactagtattgtcgtgtgcttgttaatttcccagATGTGCTTCGACTGCAGCGCCAAGAACCCCACCTGGGCCTCCGTCACCTACGGCATCTTCCTCTGCCTCGACTGCTCCGCCGTCCACCGCAGCCTCGGCG

upper sequence: GLYMA01G12340.2 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os10g42420.1 (Oryza sativa), 3'ss of exon 1
gttttttgtttataattttgaatttcaatttgagtgcataatcgttggttccgtgatttcgtttaatatagtctgaacttttcgtttgtggtttctgatttacgagatctggtttcagatctgtgatacccgtggtagtgtgtttgattt---ttgaatttgtatggcttttttttttttttaatttcagATGTGTTTCGATTGCAATGCGAAGAACCCTACCTGGGCGTCCGTCACGTATGGGATCTTCCTCTGCATCGATTGCTCCGCCGTTCACCGCAGTCTCGGCG
                                                                                         ||||     | |  ||||    || |    ||||| || |  ||| |  | | | |  |     | || | | | |   | |   | |   | | || |||||||| ||||| ||||| || |||||||| |||||||| |||||||| || ||  |||||||||||||||| ||||| ||||| ||||| || |||||||
-----------------------------------------------------------------------------------------ggttgtgtgtgtgagagagactgtgttct-tctgtaattcgtgtgattttttttctcttacgagtcgactatatttatatgtgcgtatgcctaatttgcagATGTGCTTCGACTGCAACGCCAAGAACCCGACCTGGGCCTCCGTCACCTACGGCGTCTTCCTCTGCATCGACTGCTCTGCCGTCCACCGTAGCCTCGGCG

upper sequence: GLYMA01G12340.2 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G176612_T01 (Zea mays), 3'ss of exon 1
gttttttgtttataattttgaatttcaatttgagtgcataatcgttggttccgtgatttcgtttaatatagtctgaacttttcgtttgtggtttctgatttacgagatctggtttcagatctgtgatacccgtggtagtgtgtttgatttttgaatttgtatggctttttt--ttttttttaatttcagATGTGTTTCGATTGCAATGCGAAGAACCCTACCTGGGCGTCCGTCACGTATGGGATCTTCCTCTGCATCGATTGCTCCGCCGTTCACCGCAGTCTCGGCG
                                                                                                             ||  |   |  ||| | | ||   | |   | |  |  |  |        ||  |  | |    |    | |   | |||||||| ||||| ||||| || |||||||| |||||||| |||||||| || || |||||||||||| |||| ||||||||||  |||||||| ||||| |
--------------------------------------------------------------------------------------------------------gtgcgtgcgtattgccctgcgctgccatggatctagggcctcctgctccgccggctactgtctctcacatcacgtctccctgcagATGTGCTTCGACTGCAACGCCAAGAACCCCACCTGGGCCTCCGTCACCTACGGCATCTTCCTCTGCCTCGACTGCTCCGCCGCCCACCGCAGCCTCGGGG

upper sequence: GLYMA01G12340.2 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G134045_T02 (Zea mays), 3'ss of exon 1
gttttttgtttataattttgaatttcaatttgagtgcataatcgttggttccgtgatttcgtttaatatagtctgaacttttcgt-ttgtggtttctgatttacgagatctggtttcagatctgtgatacccgtggtagtgtgtttgatttttgaatttgtatggcttt--tttttttttttaatttcagATGTGTTTCGATTGCAATGCGAAGAACCCTACCTGGGCGTCCGTCACGTATGGGATCTTCCTCTGCATCGATTGCTCCGCCGTTCACCGCAGTCTCGGCG
                                                                                   ||  ||| | |||   |   || | | |   |     | |||||   ||||    |||  |||  ||| ||     | || | | |  |  |  |       | |||||||| |||||||| || || |||||||| || |||||||||||||| || ||  |||||||||||||||| ||||| || || |||||||| |||||||
-----------------------------------------------------------------------------------gtactgttgattcaattgatcgcgctttctatcgctctgtgtgagtgccgtccacgtgacttttttttctgtgcgcgaatcgttctgatggtggtgcacgcgtgcagATGTGCTTCGATTGTAACGCCAAGAACCCGACGTGGGCGTCCGTCACCTACGGTGTCTTCCTCTGCATCGACTGCTCGGCGGTGCACCGCAGCCTCGGCG

upper sequence: GLYMA01G12340.2 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G083546_T01 (Zea mays), 3'ss of exon 1
gttttttgtttataattttgaatttcaatttgagtgcataatcgttggttccgtgatttcgtttaatatagtctgaacttttcgtttgtggtttctgatttacgagatctggtttcagatctgtgatacccgtggtagtgtgtttgatttttgaatttgtatggcttttttttttttttaatttcagATGTGTTTCGATTGCAATGCGAAGAACCCTACCTGGGCGTCCGTCACGTATGGGATCTTCCTCTGCATCGATTGCTCCGCCGTTCACCGCAGTCTCGGCG
                                                                                   ||  ||| ||  ||   | |  |  |  |     |||||  |   || |      |  |   |||  |   ||    |   || |  ||            |||||||| ||||| ||||| || |||||||| |||||||| |||||||| || || |||||||||||| |||| ||||| ||||| |||||||| || || |
-----------------------------------------------------------------------------------gtacgtgcttattggcctgcctg--cctgccctggatctaggcctcctgc-----ttcgccggatcctcagatc---acatctctccttg-----------cagATGTGCTTCGACTGCAACGCCAAGAACCCCACCTGGGCCTCCGTCACCTACGGCATCTTCCTCTGCCTCGACTGCTCGGCCGTCCACCGCAGCCTTGGGG

upper sequence: GLYMA01G12340.2 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G094390_T01 (Zea mays), 3'ss of exon 1
gttttttgtttataattttgaatttcaatttgagtgcataatcgttggttccgtgatttcgtttaatatagtctgaacttttcgtttgtggtttctgatttacgagatctggtttcagatctgtgatacccgtggtagtgtgtttgatttttgaatttgtatggcttttttttttttttaatttcagATGTGTTTCGATTGCAATGCGAAGAACCCTACCTGGGCGTCCGTCACGTATGGGATCTTCCTCTGCATCGATTGCTCCGCCGTTCACCGCAGTCTCGGCG
                    | | |  ||| || || ||  |   ||| |    |||||  ||   |  |||| | | |  |||    |  ||| || | |  | ||    ||  |   | ||  |||    | || ||||||  || ||  |  | || |||||  |       |        |||||||| ||||||||||| || |||||||| || |||||||||||||| || ||  |||||||||||||||| ||||| || |  |||||||| |||||||
------------------gtactgtggattagattggat--tttatgggtgatcgatttgatt--gtggagtcgggattgatcgcactttcttt-tgctctgtgtga----gtgccgcctgtgcaatattttttgt-gtgtgtgcgaattccgtttctg-atggcggtgcaagcgtg-------cagATGTGCTTCGATTGCAACGCCAAGAACCCGACGTGGGCGTCCGTCACCTACGGCGTCTTCCTCTGCATCGACTGCTCGGCGGCGCACCGCAGCCTCGGCG

upper sequence: GLYMA01G12340.2 (Glycine max), 3'ss of exon 1
lower sequence: AT2G35210.2 (Arabidopsis thaliana), 3'ss of exon 1
gttttttgtttataattttgaatttcaatttgagtgcataatcgttggttccgtgatttcgtttaatatagtctgaacttttcgtttgtggtttctgatttacgagatctggtttcagatctgtgatacccgtggtagtgtgtttgatttttgaatttgtatggcttttttttttttttaatttcagATGTGTTTCGATTGCAATGCGAAGAACCCTACCTGGGCGTCCGTCACGTATGGGATCTTCCTCTGCATCGATTGCTCCGCCGTTCACCGCAGTCTCGGCG
                                                                    || | | |||  |   | |   |      || ||  ||||  | ||  ||||||  ||    ||| | |     | |||     || || | ||   | |||   | ||||  || ||||| ||||| |||||||||||||||||||| || ||||| ||||| || || |||||||| ||||||||||||||||| || ||||| || ||||| ||||
-------------------------------------------------------------------gtaatgttaacgatgt-tctacag-----aatctat-agattcgatta-agatct-cgaagttcgtcg-atcagatctgaca---gatttaggatttatctttgaatatttt--ttgcagATTTGTTTTGATTGCAATGCGAAGAACCCAACATGGGCTTCCGTTACTTACGGGATCTTTCTCTGCATCGATTGCTCAGCTGTTCATCGGAGTCTTGGCG

upper sequence: GLYMA01G12340.2 (Glycine max), 3'ss of exon 1
lower sequence: AT4G17890.2 (Arabidopsis thaliana), 3'ss of exon 1
gttttttgtttataattttgaatttcaatttgagtgcataatcgttggttccgtgatttcgtttaatatagtctgaacttttcgtttgtggtttctgatttacgagatctggtttcagatctgtgatacccgtggtagtgtgtttgatttttgaatttgtatggcttttttttttttttaatttcagATGTGTTTCGATTGCAATGCGAAGAACCCTACCTGGGCGTCCGTCACGTATGGGATCTTCCTCTGCATCGATTGCTCCGCCGTTCACCGCAGTCTCGGCG
                                               ||      ||||  |||  |  | |||   ||||   |  ||    ||   || |     | |   || ||||||| ||      ||      | |||||||  |  ||    ||     ||||  |||   ||||| || | || |||||||| | ||||||||| || || ||||| || || || |||||||| ||||||||||||||||| || ||   |||||| | ||| || |
-----------------------------------------------gtaatcaaattt--ttttctgaattcttctctttctttgagtatcgtcaatttgatattgtgtatgtttagatctgagagttgtttgactagatctttgattcatttatgctaattttggttttgatttgccaattt-agGTCTGCTTCGATTGTAGTGCGAAGAATCCAACTTGGGCATCGGTTACATATGGGATTTTCCTCTGCATCGATTGTTCAGCTACTCACCGGAATCTTGGTG

upper sequence: GLYMA01G12340.2 (Glycine max), 3'ss of exon 1
lower sequence: Vv02s0012g01330.t01 (Vitis vinifera), 3'ss of exon 1
gttttttgtttataattttgaatttcaatttgagtgcataatcgttggttccgtgatttcgtttaatatagtctgaacttttcgtttgtggtttctgatttacgagatctggtttcagatctgtgatacccgtggtagtgtgtttgatttttgaatttgtatggcttttttttttttttaatttcagATGTGTTTCGATTGCAATGCGAAGAACCCTACCTGGGCGTCCGTCACGTATGGGATCTTCCTCTGCATCGATTGCTCCGCCGTTCACCGCAGTCTCGGCG
                | ||   || |   ||| |   |  |||  |  |   | | |  ||||  | | || |  | |||| |||| ||||||    ||   ||||||||||| ||||||||        | |||   | | |||  | | |  ||| |||   ||| ||| |||||   ||| |||||||||| ||||| |||||||||||||| || |||||||||||||||||||||||||||||||||||||| ||||||||||| ||  | ||||| || |
---------------gtctgttcttta--ctgaatttct--tcgcggtatttttaaat--gttttcttttgttttta-ttttggtttttggttttctgttcttgagatctggtt-cagatctg--------gaggtttcgcgattggatctcggttttttat---tttgtttctttttggtttttagATGTGTTTTGATTGTAATGCGAAGAACCCGACTTGGGCGTCCGTCACGTATGGGATCTTCCTCTGCATCGACTGCTCCGCCGTGCATAGGAGTCTTGGGG

upper sequence: GLYMA01G12340.2 (Glycine max), 3'ss of exon 1
lower sequence: PP1S795_4V6.1 (Physcomitrella patens), 3'ss of exon 1
gttttttgtttataattttgaatttcaatttgagtgcataatcgttggttccgtgatttcgtttaatatagtctgaacttttcgtttgtggtttctgatttacgagatctggtttcagatctgtgatacccgtggtagtgtgtttgatttttgaatttgtatggcttttttttttttttaatttcagATGTGTTTCGATTGCAATGCGAAGAACCCTACCTGGGCGTCCGTCACGTATGGGATCTTCCTCTGCATCGATTGCTCCGCCGTTCACCGCAGTCTCGGCG
                                                                                   |  |   | ||    |   |   |  || |  ||    | ||||    |||| |||||||| | ||||| | |   |    |     |  |   ||   | |||||||||||||| |||||| ||||||| || || |||||||| || ||||||||  | ||| | ||| | || || || ||  | || || |||||||| |
-----------------------------------------------------------------------------------gagtactgctttgcttgcgcacaaaatgctagcatgagtttgat---tgtgg-agtgtgttcggttttttactaaattcttcacgagtcgtcgattggatgcagATGTGTTTCGACTGCAATTCGAAGAATCCCACTTGGGCGTCAGTGACGTATGGAGTGTTCATATGCCTGGACTGTTCAGCTCTACATCGTAGTCTCGGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggtagtgtgtttgatttttgaatttgtatggcttttttttttttttaatttcagATGTGTTTCGATTGCAATGCGAAGAACCCTACCTGGGCGTCCGTCACGTATGGGATCTTCCTCTGCATCGATTGCTCCGCCGTTCACCGCAGTCTCGGCG
                                           ttttaat  putative branch site (score: 3)
                                ctttttttttttttta  CT-rich tract
              atttttgaatttgtat  TA-rich tract