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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagaatatacttgtaaaattggagataatgattggtttcatcacacttgtcatcttgtctttgctttgtctctggataatgatttttggaaatagcagaagctgcagactaatatcttccatcttttcctctccgtctttcttttttatagGGTGCTGACCTTCTTCACACCACTTGTGGGACCCCAAACTATGTTGCCCCTGAG

Basic information

species Glycine max
transcript GLYMA17G12250.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G12250.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os06g40370.1 (Oryza sativa), 3'ss of exon 5
gtaagaatatacttgtaaaattggagataatgattggtttcatcacacttgtcatcttgtctttgctttgtctctggataatgatttttggaaatagcagaagctgcagactaatatcttccatcttttcctctccgtctttcttttttatagGGTGCTGACCTTCTTCACACCACTTGTGGGACCCCAAACTATGTTGCCCCTGAG
                                                                   |   ||| |  ||||   ||||    || || | |  |  |  |||  |   | |   ||    | ||  | ||      ||  |||| |  | |||||||||||| |||||||| || ||||| |||||||| ||||||
------------------------------------------------------------------gtaagctcag--taattgcttttaatgat-gctgtatttctatcctagaagtgttctgattgggatttcttttttgagggatttcagGGAGTAGGCCTTCTTCACACAACTTGTGGAACACCAAATTATGTTGCTCCTGAG
















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|207706500|gb|GD688000.1|GD688000
EST:     ACGGAAATTTGAAGGTTTCTGACTTTGGATTGAGTGCATTGACTAAACAG                         GGTGCTGACCTTCTTCACACCACTTGTGGGACCCCAAACTATGTTGCCCCT
genomic: ACGGAAATTTGAAGGTTTCTGACTTTGGATTGAGTGCATTGACTAAACAGgtaagaatat ... ttttttatagGGTGCTGACCTTCTTCACACCACTTGTGGGACCCCAAACTATGTTGCCCCT
EST: gi|254322068|gb|GR837482.1|GR837482
EST:     ACGGAAATTTGAAGGTTTCTGACTTTGGATTGAGTGCATTGACTAAACAG                         GGTGCTGACCTTCTTCACACCACTTGTGGGACCCCAA-CTATGTTGCCCCT
genomic: ACGGAAATTTGAAGGTTTCTGACTTTGGATTGAGTGCATTGACTAAACAGgtaagaatat ... ttttttatagGGTGCTGACCTTCTTCACACCACTTGTGGGACCCCAAACTATGTTGCCCCT
EST: gi|151394038|gb|EV263909.1|EV263909
EST:     ACGGAAATTTGAAGGTTTCTGACTTTGGATTGAGTGCATTGACTAAACAG                         GGTGCTGACCTTCTTCACACCACTTGTGGGACCCCAAACTATGTTGCCCCT
genomic: ACGGAAATTTGAAGGTTTCTGACTTTGGATTGAGTGCATTGACTAAACAGgtaagaatat ... ttttttatagGGTGCTGACCTTCTTCACACCACTTGTGGGACCCCAAACTATGTTGCCCCT
EST: gi|208045634|gb|GD838936.1|GD838936
EST:     AAATTTGAAGGTTTTCTTGTACTTTTGGATTGAGTGCATTGACTAAACAG                         GGTGCTGACCTTCTTCACACCACTTGTGGGACCCCAAACTATGTTGCCCCT
genomic: AAATTTGAAGG-TTTC-TG-AC-TTTGGATTGAGTGCATTGACTAAACAGgtaagaatat ... ttttttatagGGTGCTGACCTTCTTCACACCACTTGTGGGACCCCAAACTATGTTGCCCCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agaagctgcagactaatatcttccatcttttcctctccgtctttcttttttatagGGTGCTGACCTTCTTCACACCACTTGTGGGACCCCAAACTATGTTGCCCCTGAG
          gactaat  putative branch site (score: 2)
            ctaatatcttccatct  CT-rich tract
                                       tctttcttttttata  TA-rich tract