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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggtgattttgtcatgagatagaggcatatcaccaatttaccatgctatgcacccaaaatatattctttccaaccctatgctgatgctaaaatcttttcagGTCTTAGTTCTTCTTTTGTTAACGTCTGGCCGAGATCCAGGCATAATTCCACGCAATGCACATCCTCCAGAGCCAGAAGGCTTGGATAGTAATCTAGATG

Basic information

species Glycine max
transcript GLYMA16G05670.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G05670.2 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G433942_T01 (Zea mays), 3'ss of exon 2
--------ggtgattttgtcatgagatagaggcatatcaccaatttaccatgctatgcacccaaaatatattctttccaaccctatgctgatgctaaaat-cttttcagGTCTTAGTTCTTCTTTTGTTAACGTCTGGCCGAGATCCAGGCATAATTCCACGCAATGCACATCCTCCAGAGCCAGAAGGCTTGGATAGTAATCTAGATG
            ||||| ||   ||  |    |||      ||      |    ||  |  ||||| |||  || |   | | | |        ||     | |||||||   |   ||||||  |  |||| |||||  |||||||||| || || || |||||||||||||||||||| || ||||| || ||| | |||  ||| |
atacataaaaaaattttatctgaagtcatgatcatgctggtaa------agagaatatatacaaaacataccctct---aacttgtttaagcattatgccacctttcagGATCTGAGTCTTCTGCTTCTAACTTCTGGGAGAGATCCAGGGATCATACCTCGCAATGCACATCCTCCAGAACCCGAAGGGTTTGATGGCAATGCAGAGG

upper sequence: GLYMA16G05670.2 (Glycine max), 3'ss of exon 2
lower sequence: Vv14s0068g01530.t01 (Vitis vinifera), 3'ss of exon 2
ggtgattttgtcatgagatagaggcatatcaccaatttaccatgctatgcacccaaaatatattctttccaaccctatgctgatgctaaaatc----ttttcagGTCTTAGTTCTTCTTTTGTTAACGTCTGGCCGAGATCCAGGCATAATTCCACGCAATGCACATCCTCCAGAGCCAGAAGGCTTGGATAGTAATCTAGATG
    ||       |  ||     | || |   |   |||      |||  |   || |||   |  |  |||  ||  ||||||    |  |     || |||||| |||||||||||  || |||| |||||  ||||||| || |||||||| |||||||| || ||||||||||| ||||| |  ||| | | |  ||| |
----atccatgtttatgagttttgtatgtggacctcttagagaaatattaataaaatataatatgatatcaagtctcagctgatagagatgttcaatttctcagGTTTTAGTTCTTCTACTGCTAACCTCTGGAAGAGATCCTGGTATAATTCCTCGCAATGCCCACCCTCCAGAGCCTGAAGGTTATGATGGAAGTGCAGAAG
















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|192294174|gb|FG986263.1|FG986263
EST:     ACCACTGGGGGATATCCATAATGGCTGTTGCTGTTGTGTTCACAGTTTAT                         GTCTTAGTTCTTCTTTTGTTAACGTCTGGCCGAGATCCAGGCATAATTCCA
genomic: ACCACTGGGGGATATCCATAATGGCTGTTGCTGTTGTGTTCACAGTTTATgtgtgtcttt ... atcttttcagGTCTTAGTTCTTCTTTTGTTAACGTCTGGCCGAGATCCAGGCATAATTCCA
EST: gi|208267151|gb|GE065570.1|GE065570
EST:     GCCACTGGGGGATATCCATAATGGCTGTTGCTGTTGTGTTCACAGTTTAT                         GTCTTAGTTCTTCTTTTGTTAACGTCTGGCCGAGATCCAGGCATAATTCCA
genomic: ACCACTGGGGGATATCCATAATGGCTGTTGCTGTTGTGTTCACAGTTTATgtgtgtcttt ... atcttttcagGTCTTAGTTCTTCTTTTGTTAACGTCTGGCCGAGATCCAGGCATAATTCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatgcacccaaaatatattctttccaaccctatgctgatgctaaaatcttttcagGTCTTAGTTCTTCTTTTGTTAACGTCTGGCCGAGATCCAGGCATAATTCCACGCAATGCACATCCTCCAGAGCCAGAAGGCTTGGATAGTAATCTAGATG
                                      tgctaaa  putative branch site (score: 2)
                                              tcttttc  CT-rich tract
         aaaatatattcttt  TA-rich tract