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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacactctcatttattgtctttcattttaatttaaggtggcattgtgttcagtgaatctttgacctgtacaatgttggcactttacagttgaattttactagatttgcaaaaacatggtttggcttaaaatgatcatatcgtcatataagtatataaaatcataaactaataggtaagataatcccacagGCACTTGACCTTATACGAGGCAAAAATTTTCTGTTGCTGATGGACTCATGTTTGGAAAGTCATTTTTCAAATGATGATGGGACTGAGTTAGTGAGATTAG

Basic information

species Glycine max
transcript GLYMA12G06200.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G06200.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv06s0004g05810.t01 (Vitis vinifera), 3'ss of exon 6
gtacactctcatttattgtctttcattttaatttaaggtggcattgtgttcagtgaatctttgacctgtacaatgttggcactttacagttgaattttactagatttgcaaaaacatggtttggcttaaaatgatcatatcgtcatataagtatataaaatcataaactaataggtaagataatccc-acagGCACTTGACCTTATACGAGGCAAAAATTTTCTGTTGCTGATGGACTCATGTTTGGAAAGTCATTTTTCAAATGATGATGGGACTGAGTTAGTGAGATTAG
                                                                                         | |||  || || | ||  |||||| |     |     ||||| |  || | || | || |    |        ||            |  ||||  |  |||||||||||||| ||||| ||||| ||||||||| || | |||||||||||||||||  | ||||| |||||||||||||| ||||| |||||| | ||||
-----------------------------------------------------------------------------------------tggaaggttcctcggttatcaaaaataaaaaataa---aaaataagaattttgttagattacagaaagttgatgtaggtactccccctatttaatttctgcagGCACTTGACCTGATACGTGGCAAGAATTTTCTGATGTTAATGGACTCATGTTTGGAGGGCCATTTCTCAAATGATGATGGAACTGAATTAGTGCGGTTAG
















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|6566897|gb|AW234529.1|AW234529
EST:     GCACCCTATTGCTTGGTCTTCTGAGTGGAAAGCATATCCCACCCAGTCAT                         GCACTTGACCTTATACGAGGCAAAAATTTTCTGTTGCTGATGGACTCATGT
genomic: GCACCCTATTGCTTGGTCTTCTGAGTGGAAAGCATATCCCACCCAGTCATgtacactctc ... aatcccacagGCACTTGACCTTATACGAGGCAAAAATTTTCTGTTGCTGATGGACTCATGT
EST: gi|18730560|gb|BM525946.1|BM525946
EST:     GCACCCTATTGCTTGGTCTTCTGAGTGGAAAGCATATCCCACCCAGTCAT                         GCACTTGACCTTATACGAGGCAAAAATTTTCTGTTGCTGATGGACTCATGT
genomic: GCACCCTATTGCTTGGTCTTCTGAGTGGAAAGCATATCCCACCCAGTCATgtacactctc ... aatcccacagGCACTTGACCTTATACGAGGCAAAAATTTTCTGTTGCTGATGGACTCATGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atatcgtcatataagtatataaaatcataaactaataggtaagataatcccacagGCACTTGACCTTATACGAGGCAAAAATTTTCTGTTGCTGATGGACTCATGTTTGGAAAGTCATTTTTCAAATGATGATGGGACTGAGTTAGTGAGATTAG
                             aactaat  putative branch site (score: 2)
        atataagtatataaaa  TA-rich tract