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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttattttaaatttctctttgtttgtttgcttaataatttagtgttcttggtgattaattataaatgtttcatgtttgtgctttttattggcactgcacagACCAACAATGAAAAACTGTTAGAGAATCCTTACCTTCAAATGTGTGGCATACTTCAATTGGCAAATGATCTTGGATTTGACTTGTGATGTTAAACTCTTG

Basic information

species Glycine max
transcript GLYMA10G43560.2
intron # 16
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G43560.2 (Glycine max), 3'ss of exon 16
lower sequence: LOC_Os01g74310.5 (Oryza sativa), 3'ss of exon 6
----------------------------------------------------------------------------ttattttaaatttctctttgtttgtttgcttaataattta-gtgttcttggtgattaa---ttataaatgttt-----------catgtttgtgct----ttttattggcactgca--cagACCAACAATGAAAAACTGTTAGAGAATCCTTACCTTCAAATGTGTGGCATACTTCAATTGGCAAATGATCTTGGATTTGACTTGTGATGTTAAACTCTTG
                                                                            ||  | || |||  | | || ||    ||    |  || | ||||  | || | ||     | ||  || | |            ||||  || ||    | |||||  || ||    |||   ||||||||||||||| | ||||| || |||||||||||| |||| ||||| || ||| |||| ||||| ||| || | |  | |    ||  |  | 
gtggagcctcttttttcctatctcattatgggggtgaaatttgaagtattacatgaatgccatccatatgcatcggtttatctagattagtttctggtttcacgccaggtgcttcaagtgtcgtaggaggtttcatttcatgcatatctgatatctcaattatgtcggtactgacatgttatttacattgttgccagTGTAACAATGAAAAACTGCTGGAGAACCCATACCTTCAAATGCGTGGGATACTGCAGTTGTCAAACGATCTAGGAGTTCAATAATCACTCGAATGTGCTA

upper sequence: GLYMA10G43560.2 (Glycine max), 3'ss of exon 16
lower sequence: Vv13s0019g00680.t01 (Vitis vinifera), 3'ss of exon 16
ttattttaaatttct---ctttgtt-tgtttgcttaataatttagtgttcttggtgattaattataaatgtttcatgtttgtgctttttattggcactgcacagACCAACAATGAAAAACTGTTAGAGAATCCTTACCTTCAAATGTGTGGCATACTTCAATTGGCAAATGATCTTGGATTTGACTTGTGATGTTAAACTCTTG
 | ||| ||  | ||    |||||  |  ||  |||    ||||||        | || |  | |||    |  |  ||| |   || | |||  | ||  |||| |||||||||||| |||||||||||||| |||||||| ||| |||||||| ||||  || |||||||||||||   ||  || | || | |   | || 
-tttttaaagatcctaacttttgtcataattcattagccctttagtacgtggcataatcacatgtaa---ctaaaattttctatgttgtgttgctattgtgcagAGCAACAATGAAAAGCTGTTAGAGAATCCATACCTTCAGATGCGTGGCATAATTCAGCTGTCAAATGATCTTGGGACTGGGTTATAATCTGATGTTTTTT
















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|22525503|gb|BU084314.1|BU084314
EST:     CAGAAAAATATCAACACATGCTTCAGAATCTTCTTTTTAAAGCTCAGCAG                         ACCAACAATGAAAAACTGTTAGAGAATCCTTACCTTCAAATGTGTGGCATA
genomic: CAGAAAAATATCAACACATGCTTCAGAATCTTCTTTTTAAAGCTCAGCAGgtacttcctt ... cactgcacagACCAACAATGAAAAACTGTTAGAGAATCCTTACCTTCAAATGTGTGGCATA
EST: gi|4300184|gb|AI443011.1|AI443011
EST:     CAGAAAAATATCAACACATGCTTCAGAATCTTCTTTTTAAAGCTCAGCAG                         ACCAACAATGAAAAACTGTTAGAGAATCCTTACC
genomic: CAGAAAAATATCAACACATGCTTCAGAATCTTCTTTTTAAAGCTCAGCAGgtacttcctt ... cactgcacagACCAACAATGAAAAACTGTTAGAGAATCCTTACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttggtgattaattataaatgtttcatgtttgtgctttttattggcactgcacagACCAACAATGAAAAACTGTTAGAGAATCCTTACCTTCAAATGTGTGGCATACTTCAATTGGCAAATGATCTTGGATTTGACTTGTGATGTTAAACTCTTG
      gattaat  putative branch site (score: 3)
       attaattataaatgtt  TA-rich tract