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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacagtcttctgcatctctcttgtttccctcccacccctacccaaaagaagtcatatttttctgttttgcatagtgtgtttaatgttgatgaatgacattggaaatatcctactaagattttgacattttttcctgtcatatattcgttgtgaatttttcagAAAGCCAGTGAAAAAGGTCGGAGCATATTGTTGGCTCTCTCTTGCCATTTGCATTGTGGAACTTCTGATTTGCATTAAGTTTGGACACGGTAGTTCTCTT

Basic information

species Glycine max
transcript GLYMA20G25830.2
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G25830.2 (Glycine max), 3'ss of exon 12
lower sequence: Vv01s0011g04370.t01 (Vitis vinifera), 3'ss of exon 11
gtacagtcttctgcatctctcttgtttccctcccacccctacccaaaagaagtcatatttttctgttttgcatagtgtgtttaatgttgatgaatgaca-ttggaaatatcctactaagattttgacattttttcctgtcata-tattcgttgtga-atttttcagAAAGCCAGTGAAAAAGGTCGGAGCATATTGTTGGCTCTCTCTTGCCATTTGCATTGTGGAACTTCTGATTTGCATTAAGTTTGGACACGGTAGTTCTCTT
                                              |  |  ||   ||  |   ||    ||| | |  || ||  | | ||||| ||    | | ||   | |  | | ||  |  |||| |    |  |  ||   ||||||   || |||||||| |||||||||||||| ||||| | ||||||||| || ||||| ||||||||| | ||||| || |||||||| ||||||||||| |           
--------------------------------------------gtactatctctccttgcttatttgcaaatattatacttgatactaa-gaatgccaaccagcattagtgtgcatatagttcaaatttttcttacattttggtaaatgttgtgtcgttcttcagAAAACCAGTGAAAAAGGTGGGAGCGTTTTGTTGGCTTTCCCTTGCTATTTGCATTATTGAACTACTCATTTGCATCAAGTTTGGACATG-----------
















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|15664936|gb|BI702307.1|BI702307
EST:     CTACTTGCGATTCCAACAATTCGTGAGTACAACTCATACCTTCAAGACAG                         AAAGCCAGTGAAAAAGGTCGGAGCATATTGTTGGCTCTCTCTTGCCATTTG
genomic: CTACTTGCGATTCCAACAATTCGTGAGTACAACTCATACCTTCAAGACAGgtacagtctt ... aatttttcagAAAGCCAGTGAAAAAGGTCGGAGCATATTGTTGGCTCTCTCTTGCCATTTG
EST: gi|27427251|gb|CA938771.1|CA938771
EST:     CTACTTGCGATTCCAACAATTCGTGAGTACAACTCATACCTTCAAGACAG                         AAAGCCAGTGAAAAAGGTCGGAGCATATTGTTGGCTCTCTCTTGC
genomic: CTACTTGCGATTCCAACAATTCGTGAGTACAACTCATACCTTCAAGACAGgtacagtctt ... aatttttcagAAAGCCAGTGAAAAAGGTCGGAGCATATTGTTGGCTCTCTCTTGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcctactaagattttgacattttttcctgtcatatattcgttgtgaatttttcagAAAGCCAGTGAAAAAGGTCGGAGCATATTGTTGGCTCTCTCTTGCCATTTGCATTGTGGAACTTCTGATTTGCATTAAGTTTGGACACGGTAGTTCTCTT
           ttttgac  putative branch site (score: 3)
                                               tttttc  putative PPT
          attttgacatttttt  TA-rich tract