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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcgagtgttcgcatccatccaatccttctgctcccctctccctgcaaaaataaaagaaaaatagaagcattaagctgcttattttgtaaactgacataattgagaccatgttttcagATGCTTGGAGTCAAGAGAATTGAACGGGTACTTCCAGTTGGAACTTCCTTGACTGTTGTTGGTGAG

Basic information

species Glycine max
transcript GLYMA02G16860.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G16860.2 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os07g45350.3 (Oryza sativa), 3'ss of exon 5
gtgcgagtgttcgcatccatccaatccttctgctcccctctccctgcaaaaataaaagaaaaatagaagcattaagctgcttattttgtaaactgacataattgagaccatgttttcagATGCTTGGAGTCAAGAGAATTGAACGGGTACTTCCAGTTGGAACTTCCTTGACTGTTGTTGGTGAG
                              |  | |    |  |      | |   |  ||  || | || |  ||  |  |||| |  |   |    |||  || |  ||| ||  ||||||||||||||||||||| |||| |||| ||||||  ||||||||| ||||||||||||||||||
----------------------------gttagtacttagtaacgattgcatttttattaatgtaaatgcttgtagtag--tattattcatgtt----taa--gaaataatgcttgtagATGCTTGGAGTCAAGAGAACTGAAAGGGTTCTTCCAACTGGAACTTCATTGACTGTTGTTGGTGAG

upper sequence: GLYMA02G16860.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv07s0104g00630.t01 (Vitis vinifera), 3'ss of exon 5
gtgcgagtgttcgcatccatccaatccttctgctcccc-tctccctgcaaaaataaaagaaaaatagaa--gcattaagctgcttattttgtaaactgacataattgagaccatgttttca-gATGCTTGGAGTCAAGAGAATTGAACGGGTACTTCCAGTTGGAACTTCCTTGACTGTTGTTGGTGAG
                        |  | ||  ||    | | |     ||  ||||||| | | |     ||||  |  |||   | ||  || || |  |  | |  |  ||||||| | |||||| ||||| ||| ||||||| ||||| ||||||  ||| ||  | ||||||||||||||||||
----------------------gtttgtcctattcagtgtttgcaaattaacttaaaagacacacacctttgcatgcatgtgccgttgtttcaagcttaatttttggcaattatgtttttaagATGCTCGGAGTGAAGCGAATTGAGCGGGTTCTTCCAACTGGCACACCTTTGACTGTTGTTGGTGAG
















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|298166383|gb|HO010962.1|HO010962
EST:     CGGGTCGCTCACTTGTACGTGGAACTTTGGATTATCTGCAAGGTCTCAAG                         ATGCTTGGAGTCAAGAGAATTGAACGGGTACTTCCAGTTGGAACTTCCTTG
genomic: CGGGTCGCTCACTTGTACGTGGAACTTTGGATTATCTGCAAGGTCTCAAGgtgcgagtgt ... atgttttcagATGCTTGGAGTCAAGAGAATTGAACGGGTACTTCCAGTTGGAACTTCCTTG
EST: gi|298179338|gb|HO027809.1|HO027809
EST:     CGGGTCGCTCACTTGTACGTGGAACTTTGGATTATCTGCAAGGTCTCAAG                         ATGCTTGGAGTCAAGAGAATTGAACGGGTACTTCCAGTTGGAACTTCCTTG
genomic: CGGGTCGCTCACTTGTACGTGGAACTTTGGATTATCTGCAAGGTCTCAAGgtgcgagtgt ... atgttttcagATGCTTGGAGTCAAGAGAATTGAACGGGTACTTCCAGTTGGAACTTCCTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agaagcattaagctgcttattttgtaaactgacataattgagaccatgttttcagATGCTTGGAGTCAAGAGAATTGAACGGGTACTTCCAGTTGGAACTTCCTTGACTGTTGTTGGTGAG
                          aactgac  putative branch site (score: 2)
                                              tgttttc  putative PPT
                ttattttgtaaact  TA-rich tract