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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtggtgaaagttgttttgtgatatgtgagtttgttgcagtctcatgttgatcttgtgcaattctgcctgcagTTTCCCTTCTTTTGCAGTGACAGAGAGTATATAATTGGGAGGCGAATTTGGGACGCAGGACGAATTTACTACTGTGTCACTAAG

Basic information

species Glycine max
transcript GLYMA20G36050.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G36050.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G133958_T04 (Zea mays), 3'ss of exon 3
----gttagtggtgaaagttgttttgtgatatgtg-agtttgttgcagtctcatgt-tgatcttgtgcaat--tctgcctgcagTTTCCCTTCTTTTGCAGTGACAGAGAGTATATAATTGGGAGGCGAATTTGGGACGCAGGACGAATTTACTACTGTGTCACTAAG----------------
    |   ||   |  | ||| | || | | | |   |||   ||   || | | | | | ||| |||  |  ||||  ||||||| |||||||| ||||||||||||||||| |||||||   | || || ||| |    ||  |    || || |||||||| |||                
gtaagcgggtctggggatttgctctgaggtctctctggttgactgtgatcacgtttatcagcttatgctttgatctgt-tgcagTTCCCCTTCTTCTGCAGTGACAGAGAGTACATAATTGCTCGCCGGATATGGAAACTGGGGGGCGCCTATTATTGTGTCACAAAGGTAAAATGGAGTAATA

upper sequence: GLYMA20G36050.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G133958_T03 (Zea mays), 3'ss of exon 3
----gttagtggtgaaagttgttttgtgatatgtgagtttg-ttgcagtctcatgt-tgatcttgtgcaat--tctgcctgcagTTTCCCTTCTTTTGCAGTGACAGAGAGTATATAATTGGGAGGCGAATTTGGGACGCAGGACGAATTTACTACTGTGTCACTAAG
    |   ||   |  | ||| | || | | | |  | |||  ||   || | | | | | ||| |||  |  ||||  ||||||| |||||||| ||||||||||||||||| |||||||   | || || ||| |    ||  |    || || |||||||| |||
gtaagcgggtctggggatttgctctgaggtctctctggttgactgtgatcacgtttatcagcttatgctttgatctgt-tgcagTTCCCCTTCTTCTGCAGTGACAGAGAGTACATAATTGCTCGCCGGATATGGAAACTGGGGGGCGCCTATTATTGTGTCACAAAG
















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|209727482|gb|BW669884.1|BW669884
EST:     TACAAGAGTGTGTCCTCACTGGAACAATGATGGTGCACTGGGTGCGCAAG                         TTTCCCTTCTTTTGCAGTGACAGAGAGTATATAATTGGGAGGCGAATTTGG
genomic: TACAAGAGTGTGTCCTCACTGGAACAATGATGGTGCACTGGGTGCGCAAGgttagtggtg ... ctgcctgcagTTTCCCTTCTTTTGCAGTGACAGAGAGTATATAATTGGGAGGCGAATTTGG
EST: gi|192294836|gb|FG987525.1|FG987525
EST:     TACAAGAGTGTGT-CTCACTGGAACAATGATGGTGCACTGGGTGCGCAAG                         TTTCCCTTCTTTTGCAGTGACAGAGAGTATATAATTGGGAGGCGAATTTGG
genomic: TACAAGAGTGTGTCCTCACTGGAACAATGATGGTGCACTGGGTGCGCAAGgttagtggtg ... ctgcctgcagTTTCCCTTCTTTTGCAGTGACAGAGAGTATATAATTGGGAGGCGAATTTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgatatgtgagtttgttgcagtctcatgttgatcttgtgcaattctgcctgcagTTTCCCTTCTTTTGCAGTGACAGAGAGTATATAATTGGGAGGCGAATTTGGGACGCAGGACGAATTTACTACTGTGTCACTAAG
                           tgttgat  putative branch site (score: 4)
                                           ttctgcct  putative PPT