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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...caaaagattattagccaatttaatgtggtgccatccgaagcttttgcccccaatttttggattgtaattgattcctatgttttgcattattttgctacagGTAGATGGAGATACTAGTACTAATGATACTGTTATTGCCTTGGCTAGTGGGTTGTCTGGGCTTGGTTGCATATCTTCTCTAGACAGTGATGAGGCTATTC

Basic information

species Glycine max
transcript GLYMA13G19450.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G19450.2 (Glycine max), 3'ss of exon 11
lower sequence: GRMZM2G044237_T01 (Zea mays), 3'ss of exon 9
-caaaagattattagccaatttaatgtggtgccatc-cgaagcttttgcccccaatttttggattgtaattgattcctatgttttgcattattttgctacagGTAGATGGAGATACTAGTACTAATGATACTGTTATTGCCTTGGCTAGTGGGTTGTCTGGGCTTGGTTGCATATCTTCTCTAGACAGTGATGAGGCTATTC
      ||       ||| | |  ||| || |  |   | |  || ||  |  |   |  |  | | ||   ||    |  || |||  ||  |  ||  |||| ||||| ||||||||||| |||||   |||||||||  |||| ||||||||||||||  |   | | ||      ||| || ||   |||||||   |
gatcttgacccaggtccattattttgtagtactgttatggattttatgttcatatagtaggcgtagaaaccaataatcaatttatgctataaat--ctgaagGTGGATGGTGATACTAGTACCAATGACTGTGTTATTGCTATGGCAAGTGGGTTGTCTGGTTTATCTGGAATTCAAAGTCTTGATAGCATTGAGGCTCAAC

upper sequence: GLYMA13G19450.2 (Glycine max), 3'ss of exon 11
lower sequence: Vv08s0040g03320.t01 (Vitis vinifera), 3'ss of exon 11
caaaagattattagccaatttaatgtggtgccatccgaagcttttgcccc---caatttttggattgtaattgattcctat---gttttgcattattttgctacagGTAGATGGAGATACTAGTACTAATGATACTGTTATTGCCTTGGCTAGTGGGTTGTCTGGGCTTGGTTGCATATCTTCTCTAGACAGTGATGAGGCTATTC
         ||| || | | || | || ||   |   |    |   |  |        ||   |||  | |||   |  |    |||  |  |   |||| | ||||||||||||||||||||||| ||||||||||| ||||| || || |||||| | ||||||       | ||||| ||| |   |||| | ||||| || |
------gccattggcaagtctattttgatgtagtttaagtaatccacatcatttggacttgaaattcgagttgggcctaagctggttcagtgtggatttgttgcagGTAGATGGAGATACTAGTACCAATGATACTGTCATTGCTTTAGCGAGTGGGCTATCTGGGTCAACCAGGATATCATCTTTGATCAGTCACGAGGCAATAC
















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|16277400|gb|BI942360.1|BI942360
EST:     GGAGAAAGATGGTGCAGGTTGCTGTAAACCGAAGTTTCAACCAGATAACT                         GTAGATGGAGATACTAGTACTAATGATACTGTTATTGCCTTGGCTAGTGGG
genomic: GGAGAAAGATGGTGCAGGTTGCTGTAAACCGAAGTTTCAACCAGATAACTgtatgtgttt ... tttgctacagGTAGATGGAGATACTAGTACTAATGATACTGTTATTGCCTTGGCTAGTGGG
EST: gi|16281999|gb|BI944782.1|BI944782
EST:     GGAGAAAGATGGTGCAGGTTGCTGTAAACCGAAGTTTCAACCAGATAACT                         GTAGATGGAGATACTAGTACTAATGATACTGTTATTGCCTTGGCTAGTGGG
genomic: GGAGAAAGATGGTGCAGGTTGCTGTAAACCGAAGTTTCAACCAGATAACTgtatgtgttt ... tttgctacagGTAGATGGAGATACTAGTACTAATGATACTGTTATTGCCTTGGCTAGTGGG
EST: gi|16277260|gb|BI942288.1|BI942288
EST:     GGAGAAAGATGGTGCAGGTTGCTGTAAACCGAAGTTTCAACCAGATAACT                         GTAGATGGAGATACTAGTACTAATGATACTGTTATTGCCTTGGCTAGTGGG
genomic: GGAGAAAGATGGTGCAGGTTGCTGTAAACCGAAGTTTCAACCAGATAACTgtatgtgttt ... tttgctacagGTAGATGGAGATACTAGTACTAATGATACTGTTATTGCCTTGGCTAGTGGG
EST: gi|192294186|gb|FG986275.1|FG986275
EST:     GGAGAAAGATGGTGCAGGTTGCTGTAAACCGAAGTTTCAACCAGATAACT                         GTAGATGGAGATACTAGTACTAATGATACTGTTATTGCCTTGGCTAGTGGG
genomic: GGAGAAAGATGGTGCAGGTTGCTGTAAACCGAAGTTTCAACCAGATAACTgtatgtgttt ... tttgctacagGTAGATGGAGATACTAGTACTAATGATACTGTTATTGCCTTGGCTAGTGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcccccaatttttggattgtaattgattcctatgttttgcattattttgctacagGTAGATGGAGATACTAGTACTAATGATACTGTTATTGCCTTGGCTAGTGGGTTGTCTGGGCTTGGTTGCATATCTTCTCTAGACAGTGATGAGGCTATTC
                    aattgat  putative branch site (score: 4)
                                         ttatttt  putative PPT
                                  ttttgcattatttt  TA-rich tract