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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgacttgggctgtctttttaaccataccagtatttgtgtgcaagttcattgtttccttttatagattgcaaataagggtgccttgaccatggtcaacatatcgtgcatgtgaaagtgtatctatgatttagtaaattatattattaaaaccaggcctcataacttagtttctgtcttcaatgttgcagGATCCATCGAAGAATGTTTTTCACCTTGTTACTGATAAACTAAATTTTGGAGCCATGAGCATGTGGTTTCTTTTAAACCCTCCTGGAAAAGCTACAATCC

Basic information

species Glycine max
transcript GLYMA03G02250.1
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G02250.1 (Glycine max), 3'ss of exon 13
lower sequence: LOC_Os09g36180.1 (Oryza sativa), 3'ss of exon 8
gtgacttgggctgtctttttaaccataccagtatttgtgtgcaagttcattgtttccttttatagattgcaaataagggtgccttgaccatggtcaacatatcgtgcatgtgaaagtgtatctatgatttagtaaat-tatattattaaaaccaggcctcataacttagtttctgtcttcaatgttgcagGATCCATCGAAGAATGTTTTTCACCTTGTTACTGATAAACTAAATTTTGGAGCCATGAGCATGTGGTTTCTTTTAAACCCTCCTGGAAAAGCTACAATCC
                                                                                                             ||      || |   |  || |  || |  | | | | | ||   |  || | | ||   | | || | | |   || ||||| ||   |||| ||||||| || ||||| ||||||||  | || ||||||||||||| |||||||||| |  | ||||||||||| || || || ||||
-------------------------------------------------------------------------------------------------------------gtagtttcgtcttcctttttaatcaagtgcaaagtgtgataatt-gttctaacagct--atctatggcataatcttttcagGAGCCTGAGAAGCATGTTTTCCATCTTGTGACTGATAAGTTGAACTTTGGAGCCATGAACATGTGGTTTTTGCTGAACCCTCCTGGGAAGGCCACCATCC

upper sequence: GLYMA03G02250.1 (Glycine max), 3'ss of exon 13
lower sequence: LOC_Os09g36190.1 (Oryza sativa), 3'ss of exon 7
gtgacttgggctgtctttttaaccataccagtatttgtgtgcaagttcattgtttccttttatagattgcaaataagggtgccttgaccatggtcaacatatcgtgcatgtgaaagtgtatctatgatttagtaaattatattattaaaaccaggcctcataact-tagtttctgtcttcaatgttgcagGATCCATCGAAGAATGTTTTTCACCTTGTTACTGATAAACTAAATTTTGGAGCCATGAGCATGTGGTTTCTTTTAAACCCTCCTGGAAAAGCTACAATCC
                                                                                                     | ||   |||     |   ||| | ||  | |  |   | | || |     | |  |  | ||     | | || | | |   || ||||| ||   |||| ||||||| || ||||| ||||||||  | || ||||||||||||| |||||||||| |  | ||||| ||||| || || || ||||
----------------------------------------------------------------------------------------------------gtagtttctgtc----ttcctctttaatcaaatgcaaactgtgataagtgataagtgttctgacaactatgtatggcataaccttttcagGAGCCTGAGAAGCATGTTTTCCATCTTGTGACTGATAAGTTGAACTTTGGAGCCATGAACATGTGGTTTTTGCTGAACCCACCTGGGAAGGCCACCATCC

upper sequence: GLYMA03G02250.1 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM2G076276_T03 (Zea mays), 3'ss of exon 7
gtgacttgggctgtctttttaaccataccagtatttgtgtgcaagttcattgtttccttttatagattgcaaataagggtgccttgaccatggtcaacatatcgtgcatgtgaaagtgtatctatgatttagtaaattatattattaaa-accaggcctcataacttagtttctgtcttcaatgttgcagGATCCATCGAAGAATGTTTTTCACCTTGTTACTGATAAACTAAATTTTGGAGCCATGAGCATGTGGTTTCTTTTAAACCCTCCTGGAAAAGCTACAATCC
                                                                                    | |   |  ||  ||| | |    ||  |  ||       | |||  ||  |  ||   || |   |  |     ||    | | ||||| |||  ||  || ||||| ||    ||  |||| ||||||||||||||||| ||||| || ||||| ||||||| |||||||||| |  | || || |||||  | || ||||| |
-----------------------------------------------------------------------------------gttagtgtaatccccatcttgaaactggaagtgtaatctcttcattatgtctaccattgaatgacccattatatagcacttttgattttctttctataaattttcagGAGCCTGAAAAACATGTGTTTCACCTTGTTACTGACAAACTGAACTTTGGGGCCATGAACATGTGGTTTTTGCTGAATCCACCTGGGGATGCAACAATGC

upper sequence: GLYMA03G02250.1 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM2G147145_T02 (Zea mays), 3'ss of exon 4
gtgacttgggctgtctttttaaccataccagtatttgtgtgcaagttcattgtttccttttatagattgcaaataagggtgccttgaccatggtcaacatatcgtgcatgtgaaagtgtatctatgatttagtaaattatattattaa------aaccaggcctcataacttagtttctgtcttcaatgttgcagGATCCATCGAAGAATGTTTTTCACCTTGTTACTGATAAACTAAATTTTGGAGCCATGAGCATGTGGTTTCTTTTAAACCCTCCTGGAAAAGCTACAATCC
                                                                                         | | | ||   ||| |  |  || || | |    ||   ||  |   || ||  ||| |      ||  |     ||    |   |||||  ||  ||  |||||||| ||    ||  |||| ||||| ||||||||||| ||||| || ||||| ||||||| |||||||||| |  | || || |||||  | || |||||||
--------------------------------------------------------------------------------------gtta-gtttaatgcatcttcaagctggaaatatg---atctcttcattgtttgtaccattgactggtcaattatattacactcttatttttcttgctataaatttgcagGAGCCTGAAAAACATGTATTTCATCTTGTTACTGACAAACTGAACTTTGGGGCCATGAACATGTGGTTTTTGCTGAATCCACCTGGGGATGCAACAATCC

upper sequence: GLYMA03G02250.1 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM2G379577_T01 (Zea mays), 3'ss of exon 7
gtgacttgggctgtctttttaaccataccagtatttgtgtgcaagttcattgtttccttttatagattgcaaataagggtgccttgaccatggtcaacatatcgtgcatgtgaaagtgtatctatgatttagtaaattatattattaaaaccaggcctcataacttagtttctgtcttcaatgttgcagGATCCATCGAAGAATGTTTTTCACCTTGTTACTGATAAACTAAATTTTGGAGCCATGAGCATGTGGTTTCTTTTAAACCCTCCTGGAAAAGCTACAATCC
                                                                                                   |||  | ||||        | |   | | ||| | ||||  |||  | |||  ||  |  |  | ||  | | ||   |     || ||| | |||  |||  ||||||| || ||||| ||||| ||  |||| ||||||||||||| ||||||||||||  | ||||| ||||| || ||||| ||||
--------------------------------------------------------------------------------------------------gtattttccatgcac-----ttttagtcaattattcaattgcattcctcaaagtagttcctaaca-ttgatgtttggaatgtccttttcagAAACCAGAGAAACATGTTTTCCATCTTGTGACTGACAAGTTAAACTTTGGAGCCATGAACATGTGGTTTCTGCTGAACCCACCTGGCAAGGCTACCATCC

upper sequence: GLYMA03G02250.1 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM2G386971_T01 (Zea mays), 3'ss of exon 7
gtgacttgggctgtctttttaaccataccagtatttgtgtgcaagttcattgtttccttttatagattgcaaataagggtgccttgaccatggtcaacatatcgtgcatgtgaaagtgtatctatgatttagtaaattatattattaaaaccaggcctcataacttagtttctgtcttcaatgttgcagGATCCATCGAAGAATGTTTTTCACCTTGTTACTGATAAACTAAATTTTGGAGCCATGAGCATGTGGTTTCTTTTAAACCCTCCTGGAAAAGCTACAATCC
                                                                                                   |||  ||| |||       | |   | | ||| | ||||  | |     ||  ||     | |   |  | | || | |   | || ||||| |||  |||  ||||||| || ||||| ||||| ||  |||| ||||||||||||| ||||||||||||  | ||||| ||||| || || || ||||
--------------------------------------------------------------------------------------------------gtattttgcgtgtac-----ttttagtcaattattcaattgcactccactaagtagtttcta-atggtgatgtttggcatgtctttttcagGAACCAGAGAAACATGTTTTCCATCTTGTGACTGACAAGTTAAACTTTGGAGCCATGAACATGTGGTTTCTGCTGAACCCACCTGGCAAGGCCACCATCC

upper sequence: GLYMA03G02250.1 (Glycine max), 3'ss of exon 13
lower sequence: Vv15s0048g01300.t01 (Vitis vinifera), 3'ss of exon 8
gtgacttgggctgtctttttaaccataccagtatttgtgtgcaagttcattgtttccttttatagattgcaaataagggtgccttgaccatggtcaacatatcgtgcatgtgaaagtgtatc-tatgatttagtaaattatattattaaaaccaggcctcataacttagtttctgtcttcaatgttgcagGATCCATCGAAGAATGTTTTTCACCTTGTTACTGATAAACTAAATTTTGGAGCCATGAGCATGTGGTTTCTTTTAAACCCTCCTGGAAAAGCTACAATCC
                                                                                          |||  ||   |  | | || ||  ||   | |  |  |     | |  ||| || ||              ||| || | |  |  | || ||  ||||||| |||   ||  |||| || || || ||||||||||| || ||||||||||||||||  ||||||||||| || ||||| || |||||||| || ||||
----------------------------------------------------------------------------------------tttggataagcgaaaggggatttgttaggaaagcacaaaagggcatcacatatgttcttcctttttcattcactaagtttgctaataccctcgat--tgcagGAACCAGAAAAACATGTATTCCATCTGGTTACTGATAAGCTGAATTTTGGAGCCATGAATATGTGGTTTCTGTTGAACCCCCCAGGAAAAGCAACTATCC

upper sequence: GLYMA03G02250.1 (Glycine max), 3'ss of exon 13
lower sequence: PP1S128_25V6.1 (Physcomitrella patens), 3'ss of exon 7
gtgacttgggctgtctttttaaccataccagtatttgtgtgcaagttcattgtttcc--ttttatagattgcaaataagggtgccttgaccatggtcaacatatcgtgcatgtgaaagtgtatctatgatttagtaaattat--attattaaaaccaggcctcataacttagtttctgtcttcaatgttgcagGATCCATCGAAGAATGTTTTTCACCTTGTTACTGATAAACTAAATTTTGGAGCCATGAGCATGTGGTTTCTTTTAAACCCTCCTGGAAAAGCTACAATCC
      |  |  |||| |  |    ||    | | ||  |  | |   || |  ||   | || ||  ||     | |  | | |     |  | | |  ||   |   |  |||    |||| ||||||  |||     ||  ||   | | | ||  |  | ||  | |  || | ||||   | |||||||| |||  |||  | ||||||||| ||||||| || || ||||||||||| |||||||  ||||||||| |   ||| ||||| ||    |||   || |
-----gtatggagtctatcaagatctattcttttctg-atagaggcctatggcctcagatattctatgttttgttttaaagcgacg----ctcgttaagtatgctgctgaaatgacttggtatatatgatcgagttttccatggatctgtcatagcaaacacc-tatttcaactt-tatctt---tcttgcagGAGCCAGAGAAACACGTTTTTCACATTGTTACCGACAAGCTAAATTTTGGTGCCATGATGATGTGGTTTTTAGCAAATCCTCCCGGGGCTGCTGTCATAC

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|18692679|gb|BM521527.1|BM521527
EST:     ATGTCTTGGCTGCATCTGTTGTTGTCAACTCAACTATTATGAATGCTAAG                         GATCCATCGAAGAATGTTTTTCACCTTGTTACTGATAAACTAAATTTTGGA
genomic: ATGTCTTGGCTGCATCTGTTGTTGTCAACTCAACTATTATGAATGCTAAGgtgacttggg ... aatgttgcagGATCCATCGAAGAATGTTTTTCACCTTGTTACTGATAAACTAAATTTTGGA
EST: gi|4313528|gb|AI460647.1|AI460647
EST:     ATGTCTTGGCTGCATCTGTTGTTGTCAACTCAACTATTATGAATGCTAAG                         GATCCATCGAAGAATGTTTTTCACCTTGTTACTGATAAACTAAATTTTGGA
genomic: ATGTCTTGGCTGCATCTGTTGTTGTCAACTCAACTATTATGAATGCTAAGgtgacttggg ... aatgttgcagGATCCATCGAAGAATGTTTTTCACCTTGTTACTGATAAACTAAATTTTGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattatattattaaaaccaggcctcataacttagtttctgtcttcaatgttgcagGATCCATCGAAGAATGTTTTTCACCTTGTTACTGATAAACTAAATTTTGGAGCCATGAGCATGTGGTTTCTTTTAAACCCTCCTGGAAAAGCTACAATCC
                       tcataac  putative branch site (score: 2)
     tattattaaaacca  TA-rich tract