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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatcctttatattttttatttggttgtcttgaacatatataatagactctgatagtataaagttggtttattcagtagtttcccttaatgtatgatagTTTGAAATCCACTGTAGTGCCATTATTTGAGAAGGTGTTGAGTGCCAGTGATGCAGGTCGAATTGGCCGTCTTGTTCTCCCAAAAGCCTGTGCTGAG

Basic information

species Glycine max
transcript GLYMA18G05840.1
intron # 6
splice site 3'
intron type U12 (go to U12 genes for details)

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G05840.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os07g48200.1 (Oryza sativa), 3'ss of exon 4
---------------------------------------------------------------gtatcctttatattttttatttggttgtcttgaacatat------ataatagactctgatagtataaagttggtttattcagtagtttcccttaa-tgtatgat------agTTTGAAATCCACTGTAGTGCCATTATTTGAGAAGGTGTTGAGTGCCAGTGATGCAGGTCGAATTGGCCGTCTTGTTCTCCCAAAAGCCTGTGCTGAG
                                                               ||||  |  |   | | ||  || |      |  |  ||      ||| |   |     || |    |  ||| |  |    | |||| |||||| | |||         ||||  || |||||  | || ||  | |||||||||||  | || |||||||||||||| || || || || |||||||| |||||||||||||| |||
gtatccttattatatttatcaacttcttggtgatattatgcataagtagctaacatactttgcgtataatacaatctctgtaactgatcaatcagggcgaattatttcatattgtgcatacctatttctgatctggatgctattttggttttccttaactatatttctcttcaagTTCAAATTCCACCATTGTCCCCCTGTTTGAGAAGGTTCTAAGCGCCAGTGATGCAGGCCGCATAGGGCGCCTTGTTCTACCAAAAGCCTGTGCGGAG

upper sequence: GLYMA18G05840.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G172621_T01 (Zea mays), 3'ss of exon 4
--------------------------------------------------------------------------------------gtatcctttatatttttt---atttggttgtcttgaacatatataatagactctgatagtataaagt-tggtttattcagtagtttcccttaatgtat---gatagTTTGAAATCCACTGTAGTGCCATTATTTGAGAAGGTGTTGAGTGCCAGTGATGCAGGTCGAATTGGCCGTCTTGTTCTCCCAAAAGCCTGTGCTGAG
                                                                                      |  |||   | |  |  |     ||     | |  || ||     ||| | |||  | |||  |  |   | || |    ||  |||| | | | |||   |  ||||  || |||||  | || ||||| |||||||||||  ||||||| ||||||||||| || || || || |||||||| |||||||| |||||||||
gtatccttgataaggctttcatgcatttgaaattgtcaacttcctggtgacattgatctttgacatttagtaccttataaatacaaggctccagaagagctcattaggcttaagcctgtataatatgctgcataaattctttttgtaacagatgcaggttttgttttatcttccttgactatattttggaagTTCAAATTCCACGATTGTTCCATTGTTTGAGAAGGTCCTGAGTGCGAGTGATGCAGGCCGCATAGGGCGCCTTGTTCTTCCAAAAGCTTGTGCTGAG

upper sequence: GLYMA18G05840.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G158162_T03 (Zea mays), 3'ss of exon 4
-----------------------------------------------------------------------------------gtatcctttatattttttatttggttg----tcttg-aacat-atataatagactctgatagtataaagttggtttattcagtagtttcccttaatgtatgat---agTTTGAAATCCACTGTAGTGCCATTATTTGAGAAGGTGTTGAGTGCCAGTGATGCAGGTCGAATTGGCCGTCTTGTTCTCCCAAAAGCCTGTGCTGAG
                                                                                       |  |   ||   | ||| || |      |||  || || ||  |  |   |||  |   | | |  | |||| |    ||  |||| | | | |||  |   ||||  || |||||  | || ||||| || ||||||||  ||||||| ||||||||||| || || || || |||||||| |||||||| ||||| |||
gtatccttgataaggtctccatacatttgaaactgtgaacttcctggtgacattgatctcagacatttagtaacttatacatcaaggctctagaatagctcattaggcttaaacccttataatatgatgcataaatttcttgtgtaacagatatagtttttcttttatcttccttgactatattttgcaagTTCAAATTCCACAATCGTTCCATTGTTCGAGAAGGTCCTGAGTGCGAGTGATGCAGGCCGCATAGGGCGCCTTGTTCTTCCAAAAGCTTGTGCCGAG

upper sequence: GLYMA18G05840.1 (Glycine max), 3'ss of exon 6
lower sequence: AT2G30470.1 (Arabidopsis thaliana), 3'ss of exon 4
gtatcctttatattttttatttggttgtcttgaacatatataatagactctgatagtataaagttggtttattcagtagtttcccttaatgtatgatagTTTGAAATCCACTGTAGTGCCATTATTTGAGAAGGTGTTGAGTGCCAGTGATGCAGGTCGAATTGGCCGTCTTGTTCTCCCAAAAGCCTGTGCTGAG
||||||||||| |  ||    | ||  | |||  || ||||  ||  ||  || ||  |   | ||  | |||     ||||  |||||   ||  ||||||||| |  |   | || ||  | ||||||||     | |||||||||||||| ||||| ||||| ||||| ||||| |||||||||||||| |||
gtatcctttatttgcttc---tagtacttttgc-caaatattttattctg-gacagacttctggtgactcatt-----gtttatcttaacaaattctagTTTGAATTTGAACATTGTACCTCTCTTTGAGAAAACTCTTAGTGCCAGTGATGCTGGTCGCATTGGTCGTCTAGTTCTTCCAAAAGCCTGTGCAGAG

upper sequence: GLYMA18G05840.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv06s0004g08100.t01 (Vitis vinifera), 3'ss of exon 4
---------------gtatcctttatattttttatttggttgtcttgaacatatataatagactctgatagtataaa----gttggtttattcagta------------gtttccctta-atgtatgat-----agTTTGAAATCCACTGTAGTGCCATTATTTGAGAAGGTGTTGAGTGCCAGTGATGCAGGTCGAATTGGCCGTCTTGTTCTCCCAAAAGCCTGTGCTGAG
                 || ||||| |||||| | ||| || || | |  ||| |   |    |    ||  ||  |    |||||||| |||| |             |||| ||||| || | | ||     |||||||| |||||  | ||||||||||| ||||||||  ||||||| |||||||| ||||||||||| ||| | || ||||||||||| |||||||| 
gtatccataaatatttcatacttta-atttttaagttgattatcatcataatagaatgtgattttatgtaacattcaatgtgttggtttgttcattgattcaattaagtgtttaccttacatatgttatcttcaagTTTGAATTCCACCATTGTGCCATTATTCGAGAAGGTTCTGAGTGCTAGTGATGCTGGTCGAATTGGTCGTTTGGTCCTCCCAAAAGCATGTGCTGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agactctgatagtataaagttggtttattcagtagtttcccttaatgtatgatagTTTGAAATCCACTGTAGTGCCATTATTTGAGAAGGTGTTGAGTGCCAGTGATGCAGGTCGAATTGGCCGTCTTGTTCTCCCAAAAGCCTGTGCTGAG
 tcccttaat  putative branch site 
        atagtataaa  TA-rich tract