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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtgtttttcatcgtttatttatttttgggttgtttctatttaattttttcgtgcttgctattgtttggaatttaatttaatctgttgttgtggtgtgggtgtagATATGGTGATGGTGAGCCAACTGATAATGCCGCGAGATTTTATAAATGGTTTACAGAG

Basic information

species Glycine max
transcript GLYMA17G07050.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G07050.2 (Glycine max), 3'ss of exon 3
lower sequence: AT4G30210.1 (Arabidopsis thaliana), 3'ss of exon 3
gtgagtgtttttcatcgtttatttatttttgggttgtttctatttaattttttcgtgcttgctattgtttggaatttaatttaatctgttgttgtggtgtgggtgtagATATGGTGATGGTGAGCCAACTGATAATGCCGCGAGATTTTATAAATGGTTTACAGAG
|| ||| || ||    | |  ||| |||  ||| |   | ||  || |   || |   ||| | ||||     | ||  ||| | || |   ||   | ||| ||||||||||| ||||||||||| || || ||||| |||||||| || |||||||| || |||
gttagttttcttagctgatcttttgttt--gggatcggtataagtattaaatttg-atttgttcttgtggctgacttggtttta-ctatc--tggaatctggatgtagATATGGAGATGGTGAGCCTACCGACAATGCAGCGAGATTCTACAAATGGTTCACCGAG

upper sequence: GLYMA17G07050.2 (Glycine max), 3'ss of exon 3
lower sequence: Vv11s0052g00880.t01 (Vitis vinifera), 3'ss of exon 3
gtgagtgtttttcatcgtttatttatttttgggttgtttctatt-taattttttcgtgcttgctattgtttggaatttaatttaatctgttgttgtggtgtgggtg------tagATATGGTGATGGTGAGCCAACTGATAATGCCGCGAGATTTTATAAATGGTTTACAGAG
             |      |   |||||||  | |    |||  |      |  |  |||  |||| |      |    |||    |||| || ||   ||| |       ||| ||||| |||||||||||||| ||||| || || || |||||||| |||||| |||||
------------aaaaaaaaaaggatttttgaatgggaaatatgatcgcaaatgggcccttaatattatacaatttcgggttt---ttgttcttatgacttggttaattggttagGTATGGAGATGGTGAGCCAACCGATAACGCGGCCAGGTTTTATAAGTGGTTTGCAGAG
















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|192316747|gb|FK006450.1|FK006450
EST:     TACGAGGAAAGGTTCAAAAAAGAGACTCACGTTCTTTTCTTTTTAGCTAC                         ATATGGTGATGGTGAGCCAACTGATAATGCCGCGAGATTTTATAAATGGTT
genomic: TACGAGGAAAGGTTCAAAAAAGAGACTCACGTTCTTTTCTTTTTAGCTACgtgagtgttt ... gtgggtgtagATATGGTGATGGTGAGCCAACTGATAATGCCGCGAGATTTTATAAATGGTT
EST: gi|254346950|gb|GR856672.1|GR856672
EST:     TACGAGGAAAGGTTCAAAAAAGAGACTCACGTTCTTTTCTTTTTAGCTAC                         ATATGGTGATGGTGAGCCAACTGATAATGCCGCGAGATTTTATAAATGGTT
genomic: TACGAGGAAAGGTTCAAAAAAGAGACTCACGTTCTTTTCTTTTTAGCTACgtgagtgttt ... gtgggtgtagATATGGTGATGGTGAGCCAACTGATAATGCCGCGAGATTTTATAAATGGTT
EST: gi|192316746|gb|FK006449.1|FK006449
EST:     TACGAGGAAAGGTTCAAAAAAGAGACTCACGTTCTTTTCTTTTTAGCTAC                         ATATGGTGATGGTGAGCCAACTGATAATGCCGCGAGATTTTATAAATGGTT
genomic: TACGAGGAAAGGTTCAAAAAAGAGACTCACGTTCTTTTCTTTTTAGCTACgtgagtgttt ... gtgggtgtagATATGGTGATGGTGAGCCAACTGATAATGCCGCGAGATTTTATAAATGGTT
EST: gi|213615154|gb|DB963366.1|DB963366
EST:     TACGAGGAAAGGTTCAAAAAAGAGACTCACGTTCTTTTCTTTTTAGCTAC                         ATATGGTGATGGTGAGCCAACTGATAATGCCGCGAGATTTTATAAATGGTT
genomic: TACGAGGAAAGGTTCAAAAAAGAGACTCACGTTCTTTTCTTTTTAGCTACgtgagtgttt ... gtgggtgtagATATGGTGATGGTGAGCCAACTGATAATGCCGCGAGATTTTATAAATGGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgtgcttgctattgtttggaatttaatttaatctgttgttgtggtgtgggtgtagATATGGTGATGGTGAGCCAACTGATAATGCCGCGAGATTTTATAAATGGTTTACAGAG
                         atttaat  putative branch site (score: 4)
         tattgtttggaattta  TA-rich tract