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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gcaagcgctttgcttgattgaccattcatctccatcagtttaggttggtcatagatcatccattgatagcattcataggtacgtactagaattagggcaattaattactgactttggatgtacttccatggtggcagGTCTGGTTTCGTGTTAATGAGCAACTACCTATTAATTTACAGAAGTCGTTACCTGACAGACCACCTGAATCGCCCTCATCTAACAATCATGAAG

Basic information

species Glycine max
transcript GLYMA15G42460.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G42460.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G051079_T01 (Zea mays), 3'ss of exon 5
gcaagcgctttgcttgattgaccattcatctccat--cagtttaggttggtcatagatcatccattgatagcattcataggtacgtactagaattagggcaattaattactgactttggatgtacttccatggtggcagGTCTGGTTTCGTGTTAATGAGCAACTACCTATTAATTTACAGAAGTCGTTACCTGACAGAC---CACCTGA-ATCGCCCTCATCTAACAATCATGAAG
||||| |||||| |||||||| ||||||||| ||    | | |||||| |||||| |    |  |||   | |  | |||| |   | || ||||       ||   |  ||   |  | ||||  |      || ||||||||||||||||||||||||| |||  |  || | ||||||||   |||||||||  |||   |||| |   |  || | | ||  |||  ||||||
gcaagagctttgattgattgatcattcatcttcacgatactctaggttagtcatata----ctgttgcatgtagccctaggaatcaaata-aattgttttctttggcttatgctatatgctgtatatt-----tgacagGTCTGGTTTCGTGTTAATGAGCTACTGTCGCTTGAGTTACAGAAAAGGTTACCTGATGGACCTTCACCAGCCGTTTCCTTGAGCTCGCAAG-ATGAAG

upper sequence: GLYMA15G42460.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G026043_T01 (Zea mays), 3'ss of exon 5
gcaagcgctttgcttgattgaccattcatctccatcagtttaggttggtcatagatcatccattgatagcattcataggtacgtactagaattagggcaattaattac--tgactttggatgtact-tccatggt-ggcagGTCTGGTTTCGTGTTAATGAGCAACTACCTATTAATTTACAGAAGTCGTTACCTGACAGACCACC-TGAATCG---CCCTCATCTAACAATCATGAAG
||||| | |||| ||||||| ||||||||||||||     |||||| || |||||    |  |||   | |  | ||||          ||| ||   ||||  || |  || |||  | | || | |  ||  | | ||||||||||||||||||||||||| ||| ||  || | ||||| ||    ||||||||| ||||  |   |  ||   || | |  |  |||  ||||||
gcaagag-tttgattgattggccattcatctccatggtactaggttagtaataga----ctgttgcatgtagccctagg----------aatcagataaattgttttctttggcttatgctatattctgtatatttgacagGTCTGGTTTCGTGTTAATGAGCTACTGCCGCTTGAGTTACAAAAAAGTTTACCTGACGGACCTTCGCCAGCCGTTTCCTTGAGTTTGCAAG-ATGAAG

upper sequence: GLYMA15G42460.1 (Glycine max), 3'ss of exon 6
lower sequence: AT2G32850.2 (Arabidopsis thaliana), 3'ss of exon 5
gcaagcgctttgcttgattgaccattcatctccatcagtttaggttggtcatagatcatccattgatagcattcataggtacgtactagaattagggcaattaattactgactttggatgtacttccatggtggcagGTCTGGTTTCGTGTTAATGAGCAACTACCTATTAATTTACAGAAGTCGTTACCTGACAGACCACCTGAATCGCCCTCATCTAACAATCATGAAG
                                               || | |  |||    ||      | |||| | | | |   ||  ||  || |||  |  | || || |      |  |||||     ||| | ||||||||||| |||||||| || |||  |||||||||||| || ||||| ||  |||||||||||  ||  ||  ||      ||||| |
-----------------------------------------------gttaaaagtcaattttt------actcattgtttcttctcag--ttgaggaaatgtaaaa-tgtctctaacaacatgtccat--ctacagATTTGGTTTCGTGTCAATGAGCAGCTTCCTGCTAATTTACAGAAATCATTACCGGATCGACCACCTGAAATGCAATCTACTGGAGTCCATGATG

upper sequence: GLYMA15G42460.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv13s0156g00640.t01 (Vitis vinifera), 3'ss of exon 6
gcaagcgctttgcttgattgaccattcatctccatcagtttaggttggtcatagatcatccattgatagcat-tcataggtacgtactagaattagggcaattaattactgactttggatgtacttccatggtggcagGTCTGGTTTCGTGTTAATGAGCAACTACCTATTAATTTACAGAAGTCGTTACCTGACAGACCACCTG-----AATCGCCCT-CATCTAACAATCATGAAG
|||||||||||||||||||| |||||||||||||| | |||||||| ||  |||||  |   ||||   ||| |||    || |  | || | |        |   | || |   ||  | |  ||  ||  |||||||| ||||||||||||||||||||| | |||  |   ||||||||||| ||||||||||| |||||||     ||||   || |  || |    |||||||
gcaagcgctttgcttgattggccattcatctccatgactttaggttagttttagatggt---ttgagtccatgtcaacattaggggccaggaattttctgtctgcatgctaatgctgattct--tttaatcatggcagGTGTGGTTTCGTGTTAATGAGCAATTGCCTGCTGCATTACAGAAGTCATTACCTGACAGGCCACCTGGGATGAATCAATCTGCGGCTGATGGGCATGAAG

upper sequence: GLYMA15G42460.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv13s0156g00640.t01 (Vitis vinifera), 3'ss of exon 6
gcaagcgctttgcttgattgaccattcatctccatcagtttaggttggtcatagatcatccattgatagcat-tcataggtacgtactagaattagggcaattaattactgactttggatgtacttccatggtggcagGTCTGGTTTCGTGTTAATGAGCAACTACCTATTAATTTACAGAAGTCGTTACCTGACAGACCACCTG-----AATCGCCCT-CATCTAACAATCATGAAG
|||||||||||||||||||| |||||||||||||| | |||||||| ||  |||||  |   ||||   ||| |||    || |  | || | |        |   | || |   ||  | |  ||  ||  |||||||| ||||||||||||||||||||| | |||  |   ||||||||||| ||||||||||| |||||||     ||||   || |  || |    |||||||
gcaagcgctttgcttgattggccattcatctccatgactttaggttagttttagatggt---ttgagtccatgtcaacattaggggccaggaattttctgtctgcatgctaatgctgattct--tttaatcatggcagGTGTGGTTTCGTGTTAATGAGCAATTGCCTGCTGCATTACAGAAGTCATTACCTGACAGGCCACCTGGGATGAATCAATCTGCGGCTGATGGGCATGAAG

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|7692003|gb|AW760119.1|AW760119
EST:     TAAGAGAAATGCTCCAAGCTAGACCAGATGACAGACCAGATATCACGCAG                         GTCTGGTTTCGTGTTAATGAGCAACTACCTATTAATTTACAGAAGTCGTTA
genomic: TAAGAGAAATGCTCCAAGCTAGACCAGATGACAGACCAGATATCACGCAGgcaagcgctt ... atggtggcagGTCTGGTTTCGTGTTAATGAGCAACTACCTATTAATTTACAGAAGTCGTTA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtactagaattagggcaattaattactgactttggatgtacttccatggtggcagGTCTGGTTTCGTGTTAATGAGCAACTACCTATTAATTTACAGAAGTCGTTACCTGACAGACCACCTGAATCGCCCTCATCTAACAATCATGAAG
                       tactgac  putative branch site (score: 1)
                                        cttccat  putative PPT
                aattaattact  TA-rich tract