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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaaggaaagtcgcggaatcgattctcctactaacgaaaactaaccattaacatttttccgataaaaaaaattctaaattgactaaatgtgcttgttttagGTGACAAATGATATATTCACTAAAGAGGATGGTGAGTTCTTGGTGAAGCACAAAGCACTTCCTGAGGAAAGGATACGCGCTGTAGAAACTGGGGGTTGCC

Basic information

species Glycine max
transcript GLYMA08G08970.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G08970.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os05g49050.1 (Oryza sativa), 3'ss of exon 3
aaaggaaagtcgcggaatcgattctcctactaacgaaaactaaccat-taacatttttccgataaaaaaaattctaaattgactaaatgtgcttgttttagGTGACAAATGATATATTCACTAAAGAGGATGGTGAGTTCTTGGTGAAGCACAAAGCACTTCCTGAGGAAAGGATACGCGCTGTAGAAACTGGGGGTTGCC
   |  |     |    |  |     | ||  |  |     |||||| |    ||   |  ||      | || |   |        | ||||  ||  |||| ||||||||||||||||| ||||||||||| || |||||| | || ||   |||||| ||||| ||  | || || || || |||||||| || ||||
tgtgatactgttcttttttaacatatcaacctagtagtctcaaccatgttttcttgaactcatgcttggacttttgtctctttgctctttgctc-ttgcagGTTACAAATGATATATTCACAAAAGAGGATGGAGAATTCTTGATCAAACATGGAGCACTGCCTGAAGAGCGCATCCGTGCAGTCGAAACTGGAGGCTGCC

upper sequence: GLYMA08G08970.1 (Glycine max), 3'ss of exon 2
lower sequence: AT2G34470.2 (Arabidopsis thaliana), 3'ss of exon 3
aaaggaaagtcgcggaatcgattctc--ctactaacgaaaactaaccattaacatttttccgataaaaaaaattctaaattgactaaatgtgcttgttttagGTGACAAATGATATATTCACTAAAGAGGATGGTGAGTTCTTGGTGAAGCACAAAGCACTTCCTGAGGAAAGGATACGCGCTGTAGAAACTGGGGGTTGCC
           | |      ||| ||     | |||  ||  |     |    || |  |  ||   |  || |   | ||   ||  |||    ||| ||||||||||||||||||||||| |||||||||||||||||  |||||||| |    || |||||||||||||||||  | ||||| ||||| || || || |
-----------gtgagtattattatcagtggcaaacacaagattgttttctcgatctcactcatgtgactaaataagattttgatat-tgtaaacgttgtagGTGACAAATGATATATTCACGAAAGAGGATGGTGAGTTTCTGGTGAAGAATGGGGCTCTTCCTGAGGAAAGGATTAGAGCTGTTGAAACAGGTGGATGTC

upper sequence: GLYMA08G08970.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv10s0003g03120.t01 (Vitis vinifera), 3'ss of exon 7
-aaaggaaagtcgcggaatcgattctcctactaacgaaaactaaccattaacatttttccgataaaaaaaatt-ctaaattgactaaatgtgcttgttttagGTGACAAATGATATATTCACTAAAGAGGATGGTGAGTTCTTGGTGAAGCACAAAGCACTTCCTGAGGAAAGGATACGCGCTGTAGAAACTGGGGGTTGCC
  ||   | ||     | |     || ||  || |  | | |   |  |||  | ||    ||   ||   |  | ||| ||     |||   |  ||||||||||||||||||||||||||||||||||||||||||||||||||||||||   |||||||||||||||||||||||| ||||||||||| || ||||| |
ttaatctaggtatataagtatccacttctcatatctcatattgttc--taatttcttggaaatttcaattgtaacaaaaatgtaagtatgaaatcattttagGTGACAAATGATATATTCACTAAAGAGGATGGTGAGTTCTTGGTGAAGCATGGAGCACTTCCTGAGGAAAGGATACGAGCTGTAGAAACAGGAGGTTGTC

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|298196807|gb|HO041550.1|HO041550
EST:     TCATGTTGGCCCTTTGTGAACTCTTGCGCGAAAACTACAGTCTCGCAGCT                         GTGACAAATGATATATTCACTAAAGAGGATGGTGAGTTCTTGGTGAAGCAC
genomic: TCATGTTGGCCCTTTGTGAACTCTTGCGCGAAAACTACAGTCTCGCAGCTgtgagttctt ... cttgttttagGTGACAAATGATATATTCACTAAAGAGGATGGTGAGTTCTTGGTGAAGCAC
EST: gi|193489278|gb|FK454105.1|FK454105
EST:     TCATGTTGGCCCTTTGTGAACTCTTGCGCGAAAACTACAGTCTCGCAGCT                         GTGAACAAATGATATA
genomic: TCATGTTGGCCCTTTGTGAACTCTTGCGCGAAAACTACAGTCTCGCAGCTgtgagttctt ... cttgttttagGTGA-CAAATGATATA
EST: gi|208181220|gb|GD976759.1|GD976759
EST:     TCATGTTGGCCCTTTGTGAACTCTTGCGCGAAAACTACAGTCTCGCAGCT                         GTGACAAATGATATATTCACTAAAGAGGATGGTGAGTTCTTGGTGAAGCAC
genomic: TCATGTTGGCCCTTTGTGAACTCTTGCGCGAAAACTACAGTCTCGCAGCTgtgagttctt ... cttgttttagGTGACAAATGATATATTCACTAAAGAGGATGGTGAGTTCTTGGTGAAGCAC
EST: gi|193314076|gb|FK282509.1|FK282509
EST:     TCATGTTGGCCCTTTGTGAACTCTTGCGCGAAAACTACAGTCTCGCAGCT                         GTGACAAATGATATATTCACTAAAGAGGATGGTGAGTTCTT
genomic: TCATGTTGGCCCTTTGTGAACTCTTGCGCGAAAACTACAGTCTCGCAGCTgtgagttctt ... cttgttttagGTGACAAATGATATATTCACTAAAGAGGATGGTGAGTTCTT
EST: gi|193360337|gb|FK325121.1|FK325121
EST:     CGCGAAAACTACAGTCTCGCAGCT                         GTGACAAATGATATATTCACTAAAGAGGATGGTGAGTTCTTGGTGAAGCAC
genomic: CGCGAAAACTACAGTCTCGCAGCTgtgagttctt ... cttgttttagGTGACAAATGATATATTCACTAAAGAGGATGGTGAGTTCTTGGTGAAGCAC
EST: gi|193357112|gb|FK319664.1|FK319664
EST:     TCATGTTGGCCCTTTGTGAACTCTTGCGCGAAAACTACAGTCTCGCAGCT                         GTGACAAATGATATATTCACTAAAGAGGATTGGTGAGTTCTT
genomic: TCATGTTGGCCCTTTGTGAACTCTTGCGCGAAAACTACAGTCTCGCAGCTgtgagttctt ... cttgttttagGTGACAAATGATATATTCACTAAAGAGGAT-GGTGAGTTCTT
EST: gi|208313216|gb|GE117270.1|GE117270
EST:     TCATGTTGGCCCTTTGTGAACTCTTGCGCGAAAACTACAGTCTCGCAGCT                         GTGACAAATGATATATTCACTAAAGAGGATGGTGAGTTCTTGGTGAAGCAC
genomic: TCATGTTGGCCCTTTGTGAACTCTTGCGCGAAAACTACAGTCTCGCAGCTgtgagttctt ... cttgttttagGTGACAAATGATATATTCACTAAAGAGGATGGTGAGTTCTTGGTGAAGCAC
EST: gi|193588500|gb|FK539661.1|FK539661
EST:     TCATGTTGGCCCTTTGTGAACTCTTGCGCGAAAACTACAGTCTCGCAGCT                         GTGACAAATGATATATTCACTAAAGAGGATGGTGAGTTCTTGGTGAAGCAC
genomic: TCATGTTGGCCCTTTGTGAACTCTTGCGCGAAAACTACAGTCTCGCAGCTgtgagttctt ... cttgttttagGTGACAAATGATATATTCACTAAAGAGGATGGTGAGTTCTTGGTGAAGCAC
EST: gi|31311386|gb|CD396589.1|CD396589
EST:     ACTACAGTCTCGCAGCT                         GTGACAAATGATATATTCACTAAAGAGGATGGTGAGTTCTTGGTGAAGCAC
genomic: ACTACAGTCTCGCAGCTgtgagttctt ... cttgttttagGTGACAAATGATATATTCACTAAAGAGGATGGTGAGTTCTTGGTGAAGCAC
EST: gi|207776200|gb|GD747785.1|GD747785
EST:     TCATGTTGGCCCTTTGTGAACTCTTGCGCGAAAACTACAGTCTCGCAGCT                         GTGACAAATGATATATTCACTAAAGAGGATGGTGAGTTCTTGGTGAAGTAC
genomic: TCATGTTGGCCCTTTGTGAACTCTTGCGCGAAAACTACAGTCTCGCAGCTgtgagttctt ... cttgttttagGTGACAAATGATATATTCACTAAAGAGGATGGTGAGTTCTTGGTGAAGCAC
EST: gi|193413864|gb|FK379625.1|FK379625
EST:     TCATGTTGGCCCTTTGTGAACTCTTGCGCGAAAACTACAGTCTCGCAGCT                         GTGACAAATGATATATTCACTAAAGAGGATGGTGAGTTCTTGGTGAAGCAC
genomic: TCATGTTGGCCCTTTGTGAACTCTTGCGCGAAAACTACAGTCTCGCAGCTgtgagttctt ... cttgttttagGTGACAAATGATATATTCACTAAAGAGGATGGTGAGTTCTTGGTGAAGCAC
EST: gi|9259040|gb|BE347187.1|BE347187
EST:     TCATGTTGGCCCTTTGTGAACTCTTGCGCGAAAACTACAGTCTCGCAGCT                         GTGACAAATGATATATTCACTAAAGAGGATGGTGAGTTCTTGGTGAAGCAC
genomic: TCATGTTGGCCCTTTGTGAACTCTTGCGCGAAAACTACAGTCTCGCAGCTgtgagttctt ... cttgttttagGTGACAAATGATATATTCACTAAAGAGGATGGTGAGTTCTTGGTGAAGCAC
EST: gi|193547457|gb|FK501954.1|FK501954
EST:     TCATGTTGGCCCTTTGTGAACTCTTGCGCGAAAACTACAGTCTCGCAGCC                         GTGACAAATGATATATTCACTAAAGAGGATGGTGAGTTCTTGGTGAAGCAC
genomic: TCATGTTGGCCCTTTGTGAACTCTTGCGCGAAAACTACAGTCTCGCAGCTgtgagttctt ... cttgttttagGTGACAAATGATATATTCACTAAAGAGGATGGTGAGTTCTTGGTGAAGCAC
EST: gi|207787552|gb|GD759348.1|GD759348
EST:     TCATGTTGGCCCTTTGTGAACTCTTGCGCGAAAACTACAGTCTCGCAGCT                         GTGACAAATGATATATTCACTAAAGAGGATGGTGAGTTCTTGGTGAAGCAC
genomic: TCATGTTGGCCCTTTGTGAACTCTTGCGCGAAAACTACAGTCTCGCAGCTgtgagttctt ... cttgttttagGTGACAAATGATATATTCACTAAAGAGGATGGTGAGTTCTTGGTGAAGCAC
EST: gi|208208241|gb|GE004228.1|GE004228
EST:     TCATGTTGGCCCTTTGTGAACTCTTGCGCGAAAACTACAGTCTCGCAGCT                         GTGACAAATGATATATTCACTAAAGAGGATGGTGAGTTCTTGGTGAAG
genomic: TCATGTTGGCCCTTTGTGAACTCTTGCGCGAAAACTACAGTCTCGCAGCTgtgagttctt ... cttgttttagGTGACAAATGATATATTCACTAAAGAGGATGGTGAGTTCTTGGTGAAG
EST: gi|207780749|gb|GD754266.1|GD754266
EST:     TCATGTTGGCCCTTTGTGAACTCTTGCGCGAAAACTACAGTCTCGCAGCT                         GTGACAAATGATATATTCACTAAAGAGGATGGTGAAGTTCTTGGTGAAG
genomic: TCATGTTGGCCCTTTGTGAACTCTTGCGCGAAAACTACAGTCTCGCAGCTgtgagttctt ... cttgttttagGTGACAAATGATATATTCACTAAAGAGGATGGTGA-GTTCTTGGTGAAG
EST: gi|208302626|gb|GE097871.1|GE097871
EST:     TCATGTTGGCCCTTTGTGAACTCTTGCGCGAAAACTACAGTCTCGCAGCT                         GTGACAAATGA
genomic: TCATGTTGGCCCTTTGTGAACTCTTGCGCGAAAACTACAGTCTCGCAGCTgtgagttctt ... cttgttttagGTGACAAATGA
EST: gi|208213331|gb|GE012754.1|GE012754
EST:     TCATGTTGGCCCTTTGTGAACTCTTGCGCGAAAACTACAGTCTCGCAGCT                         GTGACAAATGATATATTCACTAAAGAGGATGGTGAGTTCTTGGTGAAGCAC
genomic: TCATGTTGGCCCTTTGTGAACTCTTGCGCGAAAACTACAGTCTCGCAGCTgtgagttctt ... cttgttttagGTGACAAATGATATATTCACTAAAGAGGATGGTGAGTTCTTGGTGAAGCAC
EST: gi|193406312|gb|FK370623.1|FK370623
EST:     TACAGTCTCGCAGCT                         GTGACAAATGATATATTCACTAAAGAGGATGGTGAGTTCTTGGTGAAGCAC
genomic: TACAGTCTCGCAGCTgtgagttctt ... cttgttttagGTGACAAATGATATATTCACTAAAGAGGATGGTGAGTTCTTGGTGAAGCAC
EST: gi|193334416|gb|FK300908.1|FK300908
EST:     TCATGTTGGCCCTTTGTGAACTCTTGCGCGAAAACTACAGTCTCGCAGCT                         GTGACAAATGATATATTCACTAAAGAGGATGGTGAGTTCTTGGTGAAGCAC
genomic: TCATGTTGGCCCTTTGTGAACTCTTGCGCGAAAACTACAGTCTCGCAGCTgtgagttctt ... cttgttttagGTGACAAATGATATATTCACTAAAGAGGATGGTGAGTTCTTGGTGAAGCAC
EST: gi|193666625|gb|FK607658.1|FK607658
EST:     TCATGTTGGCCCTTTGTGAACTCTTGCGCGAAAACTACAGTCTCGCAGCC                         GTGACAAATGATATATTCACTAAAGAGGATGGTGAGTTCTTGGTGAAGCAC
genomic: TCATGTTGGCCCTTTGTGAACTCTTGCGCGAAAACTACAGTCTCGCAGCTgtgagttctt ... cttgttttagGTGACAAATGATATATTCACTAAAGAGGATGGTGAGTTCTTGGTGAAGCAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attaacatttttccgataaaaaaaattctaaattgactaaatgtgcttgttttagGTGACAAATGATATATTCACTAAAGAGGATGGTGAGTTCTTGGTGAAGCACAAAGCACTTCCTGAGGAAAGGATACGCGCTGTAGAAACTGGGGGTTGCC
                                  gactaaa  putative branch site (score: 2)
                                             cttgtttt  putative PPT
               ataaaaaaaattctaa  TA-rich tract