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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaactagattcccttctgttcagatttgattcttgtagggggagcatctattataaacttcctaacacaagtattgttattcagGTCTGGAATAATGATGTTAGGTTCTTCTGTGTTAAGGATTCTTCTGGTAGTCCAATTGCGTATTTTTATTTTGATCCTTATAGTCGTCCTGCTGAAAAAA

Basic information

species Glycine max
transcript GLYMA09G33490.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G33490.1 (Glycine max), 3'ss of exon 9
lower sequence: AT5G10540.1 (Arabidopsis thaliana), 3'ss of exon 9
gtaaa--ctagattcccttctgttcagatttgattcttgtagggggagcatctattataaacttcctaacaca-agtattgttattcagGTCTGGAATAATGATGTTAGGTTCTTCTGTGTTAAGGATTCTTCTGGTAGTCCAATTGCGTATTTTTATTTTGATCCTTATAGTCGTCCTGCTGAAAAAA
|||||  || ||      | |||   | ||   |   |||       ||   |||  |      | |   | | | |||||   |  |||||||||| |  ||||||||||||| |||||| || ||||||||||| | ||||| ||| ||||| || |||||||| ||   ||| ||| | ||||| |
gtaaaatctggaacttaatatgtcgtgtttcagtatatgtccatcatgctattatgttttttaacatgttatatattattgccgtgaagGTCTGGAACAGCGATGTTAGGTTCTACTGTGTCAAAGATTCTTCTGGAAATCCAACTGCTTATTTCTACTTTGATCCCTACTCTCGCCCTTCAGAAAAGA

upper sequence: GLYMA09G33490.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv00s0211g00060.t01 (Vitis vinifera), 3'ss of exon 12
---gtaaact-agattcccttctgttcagatttgat---tcttgtagggggagcatctattataaacttcctaacacaagtattgttattcagGTCTGGAATAATGATGTTAGGTTCTTCTGTGTTAAGGATTCTTCTGGTAGTCCAATTGCGTATTTTTATTTTGATCCTTATAGTCGTCCTGCTGAAAAAA
    || | | | ||| |||| | ||     |   |   || |  || |   |  || | |   ||       | |    | ||| |  | |||| ||||| |||||||| || |||| |||||| || ||  || | |||||||||||||| |||||||| |||||||| |||  ||||||  |||| ||| 
gtaatatatttaaattgccttttatttgatatccttctatcctaaagtgatggtttccacttctaatcat---atatggtttttgctccttagGTTTGGAACAATGATGTGAGATTCTACTGTGTGAAAGACACTGCAGGTAGTCCAATTGCATATTTTTACTTTGATCCATATTCTCGTCCATCTGAGAAAC
















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|192298500|gb|FG988486.1|FG988486
EST:     GGCATTGAAATTGAGCCAGCTGATGGTCTAGCTCCG                         GTCTGGAATAATGATGTTAGGTTCTTCTGTGTTAAGGATTCTTCTGGTAGT
genomic: GGCATTGAAATTGAGCCAGCTGATGGTCTAGCTCCGgtaaactaga ... tgttattcagGTCTGGAATAATGATGTTAGGTTCTTCTGTGTTAAGGATTCTTCTGGTAGT
EST: gi|151410408|gb|EV280223.1|EV280223
EST:     CAAAATCACTTTTTGGCATTGAAATTGAGCCAGCTGATGGTCTAGCTCCG                         GTCTGGAATAATGATGTTAGGTTCTTCTGTGTTAAGGATTCTTCTGGTAGT
genomic: CAAAATCACTTTTTGGCATTGAAATTGAGCCAGCTGATGGTCTAGCTCCGgtaaactaga ... tgttattcagGTCTGGAATAATGATGTTAGGTTCTTCTGTGTTAAGGATTCTTCTGGTAGT
EST: gi|192308087|gb|FK000415.1|FK000415
EST:     CAAAATCACTTTTTGGCATTGAAATTGAGCCAGCTGATGGTCTAGCTCCG                         GTCTGGAATAATGATGTTAGGTTCTTCTGTGTTAAGGATTCTTCTGGTAGT
genomic: CAAAATCACTTTTTGGCATTGAAATTGAGCCAGCTGATGGTCTAGCTCCGgtaaactaga ... tgttattcagGTCTGGAATAATGATGTTAGGTTCTTCTGTGTTAAGGATTCTTCTGGTAGT
EST: gi|298198857|gb|HO042220.1|HO042220
EST:     CAAAATCACTTTTTGGCATTGAAATTGAGCCAGCTGATGGTCTAGCTCCG                         GTCTGGAATAATGATGTTAGGTTCTTCTGTGTTAAGGATTCTTCTGGTAGT
genomic: CAAAATCACTTTTTGGCATTGAAATTGAGCCAGCTGATGGTCTAGCTCCGgtaaactaga ... tgttattcagGTCTGGAATAATGATGTTAGGTTCTTCTGTGTTAAGGATTCTTCTGGTAGT
EST: gi|6502048|gb|AW203421.1|AW203421
EST:     CAAAATCACTTTTTGGCATTGAAATTGAGCCAGCTGATGGTCTAGCTCCG                         GTCTGGAATAATGATGTTAGGTTCTTCTGTGTTAAGGATTCTTCTGGTAGT
genomic: CAAAATCACTTTTTGGCATTGAAATTGAGCCAGCTGATGGTCTAGCTCCGgtaaactaga ... tgttattcagGTCTGGAATAATGATGTTAGGTTCTTCTGTGTTAAGGATTCTTCTGGTAGT
EST: gi|19347050|gb|BM891938.1|BM891938
EST:     CAAAATCACTTTTTGGCATTGAAATTGAGCCAGCTGATGGTCTAGCTCCG                         GTCTGGAATAATGATGTCAGGTTCTTCTGTGTTAAGGATTCTTCTGGTAGT
genomic: CAAAATCACTTTTTGGCATTGAAATTGAGCCAGCTGATGGTCTAGCTCCGgtaaactaga ... tgttattcagGTCTGGAATAATGATGTTAGGTTCTTCTGTGTTAAGGATTCTTCTGGTAGT
EST: gi|254336791|gb|GR842970.1|GR842970
EST:     CAAAATCACTTTTTGGCATTGAAATTGAGCCAGCTGATGGTCTAGCTCCG                         GTCTGGAATAATGATGTCAGGTTCTTCTGTGTTAAGGATTCTTCTGGTAGT
genomic: CAAAATCACTTTTTGGCATTGAAATTGAGCCAGCTGATGGTCTAGCTCCGgtaaactaga ... tgttattcagGTCTGGAATAATGATGTTAGGTTCTTCTGTGTTAAGGATTCTTCTGGTAGT
EST: gi|308098840|gb|HO760681.1|HO760681
EST:     CAAAATCACTTTTTGGCATTGAAATTGAGCCAGCTGATGGTCTAGCTCCG                         GTCTGGAATAATGATG
genomic: CAAAATCACTTTTTGGCATTGAAATTGAGCCAGCTGATGGTCTAGCTCCGgtaaactaga ... tgttattcagGTCTGGAATAATGATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcttgtagggggagcatctattataaacttcctaacacaagtattgttattcagGTCTGGAATAATGATGTTAGGTTCTTCTGTGTTAAGGATTCTTCTGGTAGTCCAATTGCGTATTTTTATTTTGATCCTTATAGTCGTCCTGCTGAAAAAA
                              tcctaac  putative branch site (score: 1)
                atctattataaactt  TA-rich tract