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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacttcgtggcaatttattgtggtcatagtgttttgggtgtatttcttcttatttattttgataattataaggtttctgtatggcctgtaatgaaggatgtatggatcatgttatatgttaagaaaataattcatttataaaaaaagtcgatgataaattgcatgtgtggtttcattttcagTGGATTCCGGAGTTGAAGCATTATGCTCCTGGTGTCCCCATTATTCTGGTTGGCACAAAGCTTG

Basic information

species Glycine max
transcript GLYMA01G36880.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G36880.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os02g02840.1 (Oryza sativa), 3'ss of exon 3
gtacttcgtggcaatttattgtggtcatagtgttttgggtgtatttcttcttatttattttgataattataaggtttctgtatggcctgtaatgaaggatgtatggatcatgttatatgttaagaaaataattcatttataaaaaaagtcgatgataaattgcatgtgtggtttcattttcagTGGATTCCGGAGTTGAAGCATTATGCTCCTGGTGTCCCCATTATTCTGGTTGGCACAAAGCTTG
                                                                     | | |||  |   ||   ||  || |    | | ||| ||   | |  | || ||       | || ||||   |    | | ||||    |  |    | |||  |||| |||||||| || ||| ||||||||||||| |||||||| || || || || || || ||||||||||
---------------------------------------------------------------------ttatgttgatacttgatttg--atcatt--tttgtggctcgattcacttttttagtc-----tccacttatggtacttcttgttgat----tctaaactttgttatattt-cagTGGATACCTGAGCTGAAGCATTATGCACCTGGTGTGCCTATCATCCTTGTGGGAACAAAGCTTG

upper sequence: GLYMA01G36880.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM5G846811_T01 (Zea mays), 3'ss of exon 3
gtacttcgtggcaatttattgtggtcatagtgttttgggtgtatttcttcttatttattttgataattataaggtttctgtatggcctgtaatgaaggatgtatggatcatgttatatgttaagaaaataattcatttataaaaaaagtcgatgataaattgcatgtgtggtttcattttcagTGGATTCCGGAGTTGAAGCATTATGCTCCTGGTGTCCCCATTATTCTGGTTGGCACAAAGCTTG
                                                             |   | |  ||   ||||  |    |  |  |  |  |     |||| |   || |||      |||   ||  |||         |  ||   | ||   |        ||  ||||||||||||| || ||  ||||||||||||| |||||||| || |||||||| || || ||||||||||
-------------------------------------------------------------gtgtactgaaacagttctccaaaatccatttttgaata-----ggattaatatagatggctcccaaactttttgttt---------gctgactctgaacccc--------ttctattttcagTGGATACCTGAACTGAAGCATTATGCACCTGGTGTGCCAATTATTCTCGTAGGGACAAAGCTTG

upper sequence: GLYMA01G36880.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM5G803949_T02 (Zea mays), 3'ss of exon 3
gtacttcgtggcaatttattgtggtcatagtgttttgggtgtatttcttcttatttattttgataattataaggtttctgtatggcctgtaatgaaggatgtatggatcatgttatatgttaagaaaataattcatttataaaaaaagtcgatgataaattgcatgtgtggtttcattttcagTGGATTCCGGAGTTGAAGCATTATGCTCCTGGTGTCCCCATTATTCTGGTTGGCACAAAGCTTG
                                                                               ||     |||   |  |  ||      ||  |   ||| | | |    |||  |   ||  |||     |   || | | |   |       ||| ||||||||||||| || ||  ||||||||||||| |||||||| || || ||||| || || ||||||||||
------------------------------------------------------------------------------agtggaaactgatgtccaaaat---caaatttttgaataggattaatccatagatggcttccaaacttcttgtttgctgactctgaacccc--ttttattttcagTGGATACCTGAACTGAAGCATTATGCACCTGGTGTGCCAATAATTCTCGTAGGGACAAAGCTTG

upper sequence: GLYMA01G36880.1 (Glycine max), 3'ss of exon 4
lower sequence: AT4G35950.1 (Arabidopsis thaliana), 3'ss of exon 3
gtacttcgtggcaatttattgtggtcatagtgttttgggtgtatttcttcttatttattttgataattataaggtttctgtatggcctgtaatgaaggatgtatggatcatgttatatgttaagaaaataattcatttataaaaaaagtcgatgataaattgcatgtgtggtttcattttcagTGGATTCCGGAGTTGAAGCATTATGCTCCTGGTGTCCCCATTATTCTGGTTGGCACAAAGCTTG
                                                                                                           ||| |||   |   ||       | |  || | ||   |    | |   || ||  |||  |  |||| ||| ||||||||||| ||||||||||| ||||||||||||||||| ||| | || ||||| || || || |
----------------------------------------------------------------------------------------------------------gtca-gtttcgtccgaactggtcgactatttaacaattgaga--gttccaaattttgatgcttcttttcttttacagTGGATTCCTGAGTTGAAGCACTATGCTCCTGGTGTCCCAATTGTCCTTGTTGGAACCAAACTAG

upper sequence: GLYMA01G36880.1 (Glycine max), 3'ss of exon 4
lower sequence: AT2G17800.2 (Arabidopsis thaliana), 3'ss of exon 4
gtacttcgtggcaatttattgtggtcatagtgttttgggtgtatttcttcttatttattttgataattataaggtttctgtatggcctgtaatgaaggatgtatggatcatgttatatgttaagaaaataattcatttataaaaaaagtc-gatgataaatt--gcatgtgtggtttcatttt-cagTGGATTCCGGAGTTGAAGCATTATGCTCCTGGTGTCCCCATTATTCTGGTTGGCACAAAGCTTG
                                                                               ||| |   |    ||||  ||| |||     || || | |||  || |  ||| |  | |  |||    |  | |  | | ||  ||   | |   ||| |||| |||||||| || ||| ||||||||||||| ||||||||||| ||  |||| ||||| || || || |
-------------------------------------------------------------------------------gtacgtttt----tgaa--atgaatg---tttgctacaagttttgatatgaatactctgaagaaagtcttttggttgtgatttttgctgctttatcttcgttttgcagTGGATCCCAGAGCTGAAGCATTATGCCCCTGGTGTCCCTATAGTTCTTGTTGGAACCAAACTAG

upper sequence: GLYMA01G36880.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv04s0023g03860.t01 (Vitis vinifera), 3'ss of exon 4
gtacttcgtggcaatttattgtggtcatagtgttttgggtgtatttcttcttatttattttgataattataaggtttctgtatggcctgtaatgaaggatgtatggatcatgttatatgttaagaaaataattcatttataaaaaaagtcgatgataaattgcatgtgtggtttcattttcagTGGATTCCGGAGTTGAAGCATTATGCTCCTGGTGTCCCCATTATTCTGGTTGGCACAAAGCTTG
                                               |    | ||  |  ||| |  || | ||    | |     | || |||   | | |      || ||| |||    | || | ||| || |      | | |   | ||   |         || ||||||||||||||||||| || |||||||||||||| |||||||| || ||  |||| |||||||| |||||||
----------------------------------------------gtgaggacttgatg-gatcaaaatgaagtgatagcac--tttttagtgagtaaaggaataccaattttagatg----gcaatttatt-atgtcctgggagattttttaatgtttc--------ggcttcattttcagTGGATTCCAGAATTGAAGCATTATGCACCTGGTGTTCCGATAGTTCTTGTTGGCACTAAGCTTG

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|26268044|gb|CA819107.1|CA819107
EST:     TGGCTTTCTCTCTCATAAGCAAGGCCAGTTATGAAAATGTCTCTAAAAAG                         TGGATTCCGGAGTTGAAGCATTATGCTCCTGGTGTCCCCATTATTCTGGTT
genomic: TGGCTTTCTCTCTCATAAGCAAGGCCAGTTATGAAAATGTCTCTAAAAAGgtacttcgtg ... tcattttcagTGGATTCCGGAGTTGAAGCATTATGCTCCTGGTGTCCCCATTATTCTGGTT
EST: gi|26057126|gb|CA800040.1|CA800040
EST:     TGGCTTTCTCTCTCATAAGCAAGGCCAGTTATGAAAATGTCTCTAAAAAG                         TGGATTCCGGAGTTGAAGCATTATGCTCCTGGTGTCCCCATTATTCTGGTT
genomic: TGGCTTTCTCTCTCATAAGCAAGGCCAGTTATGAAAATGTCTCTAAAAAGgtacttcgtg ... tcattttcagTGGATTCCGGAGTTGAAGCATTATGCTCCTGGTGTCCCCATTATTCTGGTT
EST: gi|298166464|gb|HO009903.1|HO009903
EST:     TGGCTTTCTCTCTCATAAGCAAGGCCAGTTATGAAAATGTCTCTAAAAAG                         TGGATTCCGGAGTTGAAGCGTTATGCTCCTGGTGTCCCCATTATTCTGGTT
genomic: TGGCTTTCTCTCTCATAAGCAAGGCCAGTTATGAAAATGTCTCTAAAAAGgtacttcgtg ... tcattttcagTGGATTCCGGAGTTGAAGCATTATGCTCCTGGTGTCCCCATTATTCTGGTT
EST: gi|31455813|gb|CD397841.1|CD397841
EST:     ATAAGCAAGGCCAGTTATGAAAATGTCTCTAAAAAG                         TGGATTCCGGAGTTGAAGCATGATGCTCCTGGTGTCCCCATTATTCTGGTT
genomic: ATAAGCAAGGCCAGTTATGAAAATGTCTCTAAAAAGgtacttcgtg ... tcattttcagTGGATTCCGGAGTTGAAGCATTATGCTCCTGGTGTCCCCATTATTCTGGTT
EST: gi|19452394|gb|BM953804.1|BM953804
EST:     TGGCTTTCTCTCTCATAAGCAAGGCCAGTTATGAAAATGTCTCTAAAAAG                         TGGATTCCGGAGTTGAAGCATTATGCTCCTGGTGTCCCCATTATTCTGGTT
genomic: TGGCTTTCTCTCTCATAAGCAAGGCCAGTTATGAAAATGTCTCTAAAAAGgtacttcgtg ... tcattttcagTGGATTCCGGAGTTGAAGCATTATGCTCCTGGTGTCCCCATTATTCTGGTT
EST: gi|5175630|gb|AI759963.1|AI759963
EST:     TGGCTTTCTCTCTCATAAGCAAGGCCAGTTATGAAAATGTCTCTAAAAAG                         TGGATTCCGGAGTTGAAGCATTATGCTCCTGGTGTCCGCATTATTCTGGTT
genomic: TGGCTTTCTCTCTCATAAGCAAGGCCAGTTATGAAAATGTCTCTAAAAAGgtacttcgtg ... tcattttcagTGGATTCCGGAGTTGAAGCATTATGCTCCTGGTGTCCCCATTATTCTGGTT
EST: gi|10843808|gb|BF067063.1|BF067063
EST:     TGGCTTTCTCTCTCATAAGCAAGGCCAGTTATGACAATGTCTCTAAAAAG                         TGGATTCCGGAGTTGAAGCATTATGCTCGCTG-TGTCCCCATTATTCTGGT
genomic: TGGCTTTCTCTCTCATAAGCAAGGCCAGTTATGAAAATGTCTCTAAAAAGgtacttcgtg ... tcattttcagTGGATTCCGGAGTTGAAGCATTATGCTC-CTGGTGTCCCCATTATTCTGGT
EST: gi|31306633|gb|CD391836.1|CD391836
EST:     ATGAAAATGTCTCTAAAAAG                         TGGATTCCGGAGTTGAAGCATTATGCTCCTGGTGTCCCCATTATTCTGGTT
genomic: ATGAAAATGTCTCTAAAAAGgtacttcgtg ... tcattttcagTGGATTCCGGAGTTGAAGCATTATGCTCCTGGTGTCCCCATTATTCTGGTT
EST: gi|17964056|gb|BM270797.1|BM270797
EST:     TGGCTTTCTCTCTCATAAGCAAGGCCAGTTATGAAAATGTCTCTAAAAAG                         TGGATTCCGGAGTTGAAGCATTATGCTCCTGGTGTCCCCATTATTCTGGTT
genomic: TGGCTTTCTCTCTCATAAGCAAGGCCAGTTATGAAAATGTCTCTAAAAAGgtacttcgtg ... tcattttcagTGGATTCCGGAGTTGAAGCATTATGCTCCTGGTGTCCCCATTATTCTGGTT
EST: gi|7925509|gb|AW831535.1|AW831535
EST:     TGGCTTTCTCTCTCATAAGCAAGGCCAGTTATGAAAATGTCTCTAAAAAG                         TGGATTCCGGAGTTGAAGCATTATGCTCCTGGTGTCCCCATTATTCTGGTT
genomic: TGGCTTTCTCTCTCATAAGCAAGGCCAGTTATGAAAATGTCTCTAAAAAGgtacttcgtg ... tcattttcagTGGATTCCGGAGTTGAAGCATTATGCTCCTGGTGTCCCCATTATTCTGGTT
EST: gi|5688224|gb|AI941239.1|AI941239
EST:     TGGCTTTCTCTCTCATAAGCAAGGCCAGTTATGAAAATGTCTCTAAAAAG                         TGGATTCCGGAGTTGAAGCATTATGCTCCTGGTGTCCNCATTATTCTGGTT
genomic: TGGCTTTCTCTCTCATAAGCAAGGCCAGTTATGAAAATGTCTCTAAAAAGgtacttcgtg ... tcattttcagTGGATTCCGGAGTTGAAGCATTATGCTCCTGGTGTCCCCATTATTCTGGTT
EST: gi|31469737|gb|CD411765.1|CD411765
EST:     TGGCTTTCTCTCTCATAAGCAAGGCCAGTTATGAAAATGTCTCTCAAAAG                         TGGATTCCGGAGTTGAAGCATTATGCTCCTGGTGTCCCCATTATTCTGGTT
genomic: TGGCTTTCTCTCTCATAAGCAAGGCCAGTTATGAAAATGTCTCTAAAAAGgtacttcgtg ... tcattttcagTGGATTCCGGAGTTGAAGCATTATGCTCCTGGTGTCCCCATTATTCTGGTT
EST: gi|37995833|gb|CF807422.1|CF807422
EST:     TGGCTTTCTCTCTCATAAGCAAGGCCAGTTATGAAAATGTCTCTAAAAAG                         TGGATTCCGGAGTTGAAGCATTATGCTCCTGGTGTCCCCATTATTCTGGTT
genomic: TGGCTTTCTCTCTCATAAGCAAGGCCAGTTATGAAAATGTCTCTAAAAAGgtacttcgtg ... tcattttcagTGGATTCCGGAGTTGAAGCATTATGCTCCTGGTGTCCCCATTATTCTGGTT
EST: gi|17519189|gb|BM188231.1|BM188231
EST:     TTCTCTCTCATAAGCAAGGCCAGTTATGAAAATGTCTCTAAAAAG                         TGGATTCCGGAGTTGAAGCATTATGCTCCTGGTGTCCCCATTATTCTGGTT
genomic: TTCTCTCTCATAAGCAAGGCCAGTTATGAAAATGTCTCTAAAAAGgtacttcgtg ... tcattttcagTGGATTCCGGAGTTGAAGCATTATGCTCCTGGTGTCCCCATTATTCTGGTT
EST: gi|14991554|gb|BI317227.1|BI317227
EST:     GAAAATGTCTCTAAAAAG                         TGGATTCCGGAGTTGAAGCATTATGCTCCTGGTGTCCCCATTATTCTGGTT
genomic: GAAAATGTCTCTAAAAAGgtacttcgtg ... tcattttcagTGGATTCCGGAGTTGAAGCATTATGCTCCTGGTGTCCCCATTATTCTGGTT
EST: gi|31309981|gb|CD395184.1|CD395184
EST:     TCTCTAAAAAG                         TGGATTCCGGAGTTGAAGCATTATGCTCCTGGTGTCCCCATTATTCTGGTT
genomic: TCTCTAAAAAGgtacttcgtg ... tcattttcagTGGATTCCGGAGTTGAAGCATTATGCTCCTGGTGTCCCCATTATTCTGGTT
EST: gi|7684704|gb|AW755352.1|AW755352
EST:     TGGCTTACTCTCTCATAAGCAAGGCCAGTTATGAAAATGTCTCTAAAT-G                         TGGTATTCCAGAGTTGAAGCATTATGCT
genomic: TGGCTTTCTCTCTCATAAGCAAGGCCAGTTATGAAAATGTCTCTAAAAAGgtacttcgtg ... tcattttcagTGG-ATTCCGGAGTTGAAGCATTATGCT
EST: gi|31458682|gb|CD400710.1|CD400710
EST:     CAGTTATGAAAATGTCTCTAAAAAG                         TGGATTCCGGAGTTGAAGCATTATGCTCCTGGTGTCCCCATTATTCTGGTT
genomic: CAGTTATGAAAATGTCTCTAAAAAGgtacttcgtg ... tcattttcagTGGATTCCGGAGTTGAAGCATTATGCTCCTGGTGTCCCCATTATTCTGGTT
EST: gi|17964054|gb|BM270795.1|BM270795
EST:     TGGCTTTCTCTCTCATAAGCAAGGCCAGTTATGAAAATGTCTCTAAAAAG                         TGGATTCCGGAGTTGAAGCATTATGCTCCTGGTGTCCCCATTATTCTGGTT
genomic: TGGCTTTCTCTCTCATAAGCAAGGCCAGTTATGAAAATGTCTCTAAAAAGgtacttcgtg ... tcattttcagTGGATTCCGGAGTTGAAGCATTATGCTCCTGGTGTCCCCATTATTCTGGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taattcatttataaaaaaagtcgatgataaattgcatgtgtggtttcattttcagTGGATTCCGGAGTTGAAGCATTATGCTCCTGGTGTCCCCATTATTCTGGTTGGCACAAAGCTTG
                                           tttcattttc  CT-rich tract
      atttataaaaaaagtc  TA-rich tract