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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaatgggaatttttttagtggtattttacttgtcaaataattagtccatttttgtttcgtcatgagttatctagctattgatgcagTGACATACTTGGAGAACAATAGAGCAGGAATCACAGTGTTTGGGTTCATGCTTGACAGAACTTGGCTTCACTCCATTTTTGGCATTCAATTGGCTCTTTG

Basic information

species Glycine max
transcript GLYMA15G11960.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G11960.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G104347_T01 (Zea mays), 3'ss of exon 2
-------gtaaatgggaatttttttagtggt--attttacttgtcaaataattagtccatttttgtttcgtcatgagttat-ctagctattgatgcagTGACATACTTGGAGAACAATAGAGCAGGAATCACAGTGTTTGGGTTCATGCTTGACAGAACTTGGCTTCACTCCATTTTTGGCATTCAATTGGCTCTTTG
       |         |  | |     |||  ||| |  || |    ||    ||    || ||  |  |  |  | | |  | |       |||||||||||||||||| ||||| ||||| || ||||| ||||| || |||| ||| ||| |  | |  || ||| | || |||    |  | | | |||| | 
gtaatcagcctgcaattacctctcctacggtttattcttttttttctttaccctgttatcttgtgactaattctcggctgtgtttggatcccttgcagTGACATACTTGGAAAACAACAGAGCCGGGATCACCGTGTTCGGTTTCACGCTGGACCGTTCGTACCTGCACACGATATTTATGCTCGAGTGGACTCTGTT

upper sequence: GLYMA15G11960.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv00s0399g00030.t01 (Vitis vinifera), 3'ss of exon 3
gtaaatgggaatttttttagtggtattttacttgtcaaataattagtccatttttgtttcgtcat-gagttatctagctattgatgcagTGACATACTTGGAGAACAATAGAGCAGGAATCACAGTGTTTGGGTTCATGCTTGACAGAACTTGGCTTCACTCCATTTTTGGCATTCAATTGGCTCTTTG
|| | ||| |    |   | |  || |||  |   ||  |   || |    | |    |  ||||  | |    | |    |  |||||| |||||  | |||||||| |||||||| || ||||| || ||||||||||| ||||| || ||||| ||| ||||||||||  || |  || |||||  
gtgagtggaa----tcaaactactaatttgttaagcagtttggtactatgatatatagtaatcatcaaatggggttgaatgtcctgcagTCACATATCTAGAGAACAACAGAGCAGGGATTACAGTTTTCGGGTTCATGCTGGACAGGACATGGCTGCACACCATTTTTGGGGTTGAGATGTCTCTTGT

upper sequence: GLYMA15G11960.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv10s0523g00050.t01 (Vitis vinifera), 3'ss of exon 3
gtaaatgggaatttttttagtggtattttacttgtcaaataattagtccatttttgtttcgtcat-gagttatctagctattgatgcagTGACATACTTGGAGAACAATAGAGCAGGAATCACAGTGTTTGGGTTCATGCTTGACAGAACTTGGCTTCACTCCATTTTTGGCATTCAATTGGCTCTTTG
|| | ||| |    |   | |  || |||  |   ||  |   || |    | |    |  ||||  | |    | |    |  |||||| |||||  | |||||||| |||||||| || ||||| || ||||||||||| ||||| || ||||| ||| ||||||||||  |  |  || |||||  
gtgagtggaa----tcaaactactaatttgttaagcagtttggtactatgatatatagtaatcatcaaatggggttgaatgtcctgcagTCACATATCTAGAGAACAACAGAGCAGGGATTACAGTTTTCGGGTTCATGCTGGACAGGACATGGCTGCACACCATTTTTGGGGTCGAGATGTCTCTTGT

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|26057753|gb|CA800667.1|CA800667
EST:     ACTGCCAATTTACACCCAAACTATCTCATTCCATAAGAGGCAGGCTCTAG                         TGACATACTTGGAGAACAATAGAGCAGGAATCACAGTGTTTGGGTTCATGC
genomic: ACTGCCAATTTACACCCAAACTATCTCATTCCATAAGAGGCAGGCTCTAGgtaaatggga ... attgatgcagTGACATACTTGGAGAACAATAGAGCAGGAATCACAGTGTTTGGGTTCATGC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtcaaataattagtccatttttgtttcgtcatgagttatctagctattgatgcagTGACATACTTGGAGAACAATAGAGCAGGAATCACAGTGTTTGGGTTCATGCTTGACAGAACTTGGCTTCACTCCATTTTTGGCATTCAATTGGCTCTTTG
                                            tattgat  putative branch site (score: 3)
                atttttgttt  TA-rich tract