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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtgtggtcattttgcactggaatatggggcattttcatgctttgccatgttgcaagagttaatagtataatatcagaattctaatgctaacctctacagGCCACAATCTTGAAACCTGCTGTAATGATTGGTACAGAGGATCGGATTTTGAATCCATGGGCTCATTTTGCTAAAAAGTATGGCTTTCTTCCGTTGTTTG

Basic information

species Glycine max
transcript GLYMA13G18950.2
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G18950.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os02g57180.2 (Oryza sativa), 3'ss of exon 5
-----------tgtgtggtcattttgcactggaatatggggcattttcatgctttg-------ccatgttgca--agagttaatagt--ataatatcagaattctaat-gctaacctctacagGCCACAATCTTGAAACCTGCTGTAATGATTGGTACAGAGGATCGGATTTTGAATCCATGGGCTCATTTTGCTAAAAAGTATGGCTTTCTTCCGTTGTTTG
             |  ||  ||  || |||    | |    ||||  |     ||         |||||  ||     |||   |||   |   | || |||| |  | ||     || |||||| |||||  |||  |||||    |||||||| ||||| |||||||||||||||  |||||| || ||||| ||||| |  || || || ||  |  |||
gtgatcatctacattaggcaatactgaactcctgtttcta-cattaccgaaagttagaagcaaacatgtcccatttatgttggcagttactttaaccaaaattttgtttgcatggatcaacagGCTACAATTATGAGGCCTGCAACTATGATTGGCACAGAAGATCGGATTTTGAATAGATGGGCACAGTTTGCCAAAAATTGGGGTTTCCTCCCTCTTGTTG

upper sequence: GLYMA13G18950.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv07s0005g04440.t01 (Vitis vinifera), 3'ss of exon 7
tgtgtggtcattttgcactg-gaatatggggcattttcatgctttgccatgttgcaagagttaatagtat-aatatcagaattc-taatgctaacctctac----agGCCACAATCTTGAAACCTGCTGTAATGATTGGTACAGAGGATCGGATTTTGAATCCATGGGCTCATTTTGCTAAAAAGTATGGCTTTCTTCCGTTGTTTG
       |    ||| |  | | | |  |   || || |   ||||  || |    |   | ||||   | || ||| |||||| |||||    | || ||    ||||||||||  ||| ||| |||||||||||||||||||||||||||||| |||| |  ||||| || ||||| ||||| ||||||||| | ||  | | ||
-----attttgcttggatggtgcacaaagaatatctttacaatttg--atttcctgatgctgaatatcttgaaaatcggaattcctaatgtatgcttccactttcagGCCACAATTATGAGACCGGCTGTAATGATTGGTACAGAGGATCGGATTCTGAACCGGTGGGCACAATTTGCAAAAAAATATGGCTTTTTGCCTCTCTATG
















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|58018297|gb|CX705039.1|CX705039
EST:     TGAGGAAATGATTTTAAGGGAACTACCTGAG                         GCCACAATCTTGAAACCTGCTGTAATGATNGGTACAGAGGATCGGATTTTG
genomic: TGAGGAAATGATTTTAAGGGAACTACCTGAGgtacatttaa ... acctctacagGCCACAATCTTGAAACCTGCTGTAATGATTGGTACAGAGGATCGGATTTTG
EST: gi|151398563|gb|EV268434.1|EV268434
EST:     TCAGAACTAAATCAGCTGCTGAGGAAATGATTTTAAGGGA-CTACCTGAG                         GCCACAGTCTTGAAA
genomic: TCAGAACTAAATCAGCTGCTGAGGAAATGATTTTAAGGGAACTACCTGAGgtacatttaa ... acctctacagGCCACAATCTTGAAA
EST: gi|151403355|gb|EV273165.1|EV273165
EST:     CAGAACTAAATCAGCTGCTGAGGAAATGATTTTAAAGGGAACTACCTGAG                         GCCACAATCTTGAAACCTGCTGTAATGATTGGTACAGAGGATCGGATTTTG
genomic: CAGAACTAAATCAGCTGCTGAGGAAATGATTTTAA-GGGAACTACCTGAGgtacatttaa ... acctctacagGCCACAATCTTGAAACCTGCTGTAATGATTGGTACAGAGGATCGGATTTTG
EST: gi|254347887|gb|GR854136.1|GR854136
EST:     TCAGAACTAAATCAGCTGCTGAGGAAATGATTTTAAGG-AACTACCTGAG                         GCCACAATCTTGAAACCTGCTGTAATGATTGGTACAGAGGATCGGATTTTG
genomic: TCAGAACTAAATCAGCTGCTGAGGAAATGATTTTAAGGGAACTACCTGAGgtacatttaa ... acctctacagGCCACAATCTTGAAACCTGCTGTAATGATTGGTACAGAGGATCGGATTTTG
EST: gi|58016827|gb|CX703569.1|CX703569
EST:     TCAGAACTAAATCAGCTGGTGAGGAAATGATTTTAAGGGAACTACCTGAG                         GCCACAATCTTGAAACCTGCTGTAATGATTGGTACAGAGGATCGGATTTTG
genomic: TCAGAACTAAATCAGCTGCTGAGGAAATGATTTTAAGGGAACTACCTGAGgtacatttaa ... acctctacagGCCACAATCTTGAAACCTGCTGTAATGATTGGTACAGAGGATCGGATTTTG
EST: gi|58015071|gb|CX701813.1|CX701813
EST:     TCAGAACTAAATCAGCTGCTGAGGAAATGATTTTAAGGGAACTACCTGAG                         GCCACAATCTTGAAACCTGCTGTAATGATTGGTACAGAGGATCGGATTTTG
genomic: TCAGAACTAAATCAGCTGCTGAGGAAATGATTTTAAGGGAACTACCTGAGgtacatttaa ... acctctacagGCCACAATCTTGAAACCTGCTGTAATGATTGGTACAGAGGATCGGATTTTG
EST: gi|151397287|gb|EV267160.1|EV267160
EST:     TCAGAACTAAATCAGCTGCTGAGGAAATGATTTTAAGGGAACTACCTGAG                         GCCACAATCTTGAAACCTGCTGTAATGATTGGTACAGAGGATCGGATTTTG
genomic: TCAGAACTAAATCAGCTGCTGAGGAAATGATTTTAAGGGAACTACCTGAGgtacatttaa ... acctctacagGCCACAATCTTGAAACCTGCTGTAATGATTGGTACAGAGGATCGGATTTTG
EST: gi|48575725|gb|CO036542.1|CO036542
EST:     TCAGAACTAAATCAGCTGCTGAGGAAATGATTTTAAGGGAACTACCTGAG                         GCCACAATCTTGAAACCTGCTGTAATGATTGGTAC
genomic: TCAGAACTAAATCAGCTGCTGAGGAAATGATTTTAAGGGAACTACCTGAGgtacatttaa ... acctctacagGCCACAATCTTGAAACCTGCTGTAATGATTGGTAC
EST: gi|192327146|gb|FK015538.1|FK015538
EST:     TCAGAACTAAATCAGCTGCTGAGGAAATGATTTTAAGGGAACTACCTGAG                         GCCACAATCTTGAAACCTGCTGTAATGATTGGTACAGAGGATCGGATTTTG
genomic: TCAGAACTAAATCAGCTGCTGAGGAAATGATTTTAAGGGAACTACCTGAGgtacatttaa ... acctctacagGCCACAATCTTGAAACCTGCTGTAATGATTGGTACAGAGGATCGGATTTTG
EST: gi|192312568|gb|FK005026.1|FK005026
EST:     CCAGAACTAAATCAGCTGCTGAGGAAATGATTTTAAGGGAACTACCTGAG                         -CCACAATCTTGAA-CCTGCTGTAATGAT-GGTACAGAG-ATCGGATTT-G
genomic: TCAGAACTAAATCAGCTGCTGAGGAAATGATTTTAAGGGAACTACCTGAGgtacatttaa ... acctctacagGCCACAATCTTGAAACCTGCTGTAATGATTGGTACAGAGGATCGGATTTTG
EST: gi|192300056|gb|FG991860.1|FG991860
EST:     TCAGAACTAAATCAGCTGCTGAGGAAATGATTTTAAGGGAACTACCTGAG                         GCCACAATCTTGAAACCTGCTGTAATGATTGGTACAGAGGATCGGATTTTG
genomic: TCAGAACTAAATCAGCTGCTGAGGAAATGATTTTAAGGGAACTACCTGAGgtacatttaa ... acctctacagGCCACAATCTTGAAACCTGCTGTAATGATTGGTACAGAGGATCGGATTTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccatgttgcaagagttaatagtataatatcagaattctaatgctaacctctacagGCCACAATCTTGAAACCTGCTGTAATGATTGGTACAGAGGATCGGATTTTGAATCCATGGGCTCATTTTGCTAAAAAGTATGGCTTTCTTCCGTTGTTTG
                                        tgctaac  putative branch site (score: 1)
                                              cctctac  CT-rich tract
              ttaatagtataatatc  TA-rich tract