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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagaatcatattcttgtatccttgtgctatttcatgaaagggtcataaatatgtagtgttttcatttctagcttcttagtttgccactttcttgcagAGGGGTAAGGTACCATGAACCAGAATACTGGAAATTTGGAGAGGCCGGAAACAAGTACTTCCGCCACGCCACAGGACAGTTGTATGCCATTTCAAAAGAT

Basic information

species Glycine max
transcript GLYMA12G31980.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G31980.1 (Glycine max), 3'ss of exon 8
lower sequence: AT2G32430.1 (Arabidopsis thaliana), 3'ss of exon 8
gtgagaatcatattcttgtatccttgtgctatttcatgaaagggtcataaatatgtagtgttttcatttctagcttcttagtttgccactttcttgcagAGGGGTAAGGTACCATGAACCAGAATACTGGAAATTTGGAGAGGCCGGAAACAAGTACTTCCGCCACGCCACAGGACAGTTGTATGCCATTTCAAAAGAT
         ||| ||   | ||  |    ||  |  |    |  ||     | | |     |||  |||  |   ||  | |||| |  | |   ||||||| || || |||||||| || || || ||||||||||| |||   ||||||||||||||||| ||||| || |||||||| || |||||||| | ||| 
-------gtataatcccatttctctcacttaccttctttttgaatc-----tctttctcagttttgttttaa--ctcacattttgtc--tatggagcagAGGAGTTAGATACCATGAGCCTGAGTATTGGAAATTTGGTGAGAATGGAAACAAGTACTTCCGTCACGCTACTGGACAGTTATACGCCATTTCTAGAGAC

upper sequence: GLYMA12G31980.1 (Glycine max), 3'ss of exon 8
lower sequence: AT1G05170.2 (Arabidopsis thaliana), 3'ss of exon 8
gtgagaatcatattcttgtatccttgtgctatttcatgaaagggtcataaatatgtagtgttttcatttctagcttcttagtttgccactttcttgcagAGGGGTAAGGTACCATGAACCAGAATACTGGAAATTTGGAGAGGCCGGAAACAAGTACTTCCGCCACGCCACAGGACAGTTGTATGCCATTTCAAAAGAT
             |   | ||| |   | |   || |       |||||   || | || || |  ||     | |||| ||||     | |   |||||||||| ||||||||||| ||||| |||||||| ||||| ||    || ||||| |||||||| || || || |||||||| || ||||||||||  || 
------------gtaaagcatcttccagtttcctcct-------tcatatcaattttgtattcttgttaa-gtcatctttgttt-----tatggagcagAGGGGTGAGGTACCATGAGCCAGAGTACTGGAAGTTTGGTGAAAATGGGAACAAATACTTCCGTCATGCTACTGGACAGTTATACGCCATTTCAAGGGAC

upper sequence: GLYMA12G31980.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv12s0059g00640.t01 (Vitis vinifera), 3'ss of exon 8
gtgagaatcatattcttgtatccttgtgcta-tttcatgaaagggtcataaatatgtagtgtt--ttcatttctagcttcttagtttgccactttcttg---cagAGGGGTAAGGTACCATGAACCAGAATACTGGAAATTTGGAGAGGCCGGAAACAAGTACTTCCGCCACGCCACAGGACAGTTGTATGCCATTTCAAAAGAT
                        |  |  | |||| | | |  ||  |   || ||     |  ||  ||  ||| |||||| ||  |||  || |||   ||| || || || ||||||||||| || || ||||||||||| ||||| |||||||| || ||||| ||||| ||||||||| | ||||||||||||||||||
-----------------------gtaagtgactttctttagattgttttggttacgtgaaactgtttagttcttagtttcttatttgtccatatttttgtaacagGGGAGTGAGATACCATGAACCCGAGTATTGGAAATTTGGTGAGGCAGGAAACAAATATTTCCGTCACGCTACAGGACAGCTATATGCCATTTCAAAAGAT

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|20498515|gb|BQ273445.1|BQ273445
EST:     CCGCGGGTGTACATAGGATGCATGAAATCTGGGCCTGTTCTTTCTCAAAA                         AGGGGTAAGGTACCATGAACCAGAATACTGGAAATTTGGAGAGGCCGGAAA
genomic: CCGCGGGTGTACATAGGATGCATGAAATCTGGGCCTGTTCTTTCTCAAAAgtgagaatca ... tttcttgcagAGGGGTAAGGTACCATGAACCAGAATACTGGAAATTTGGAGAGGCCGGAAA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcataaatatgtagtgttttcatttctagcttcttagtttgccactttcttgcagAGGGGTAAGGTACCATGAACCAGAATACTGGAAATTTGGAGAGGCCGGAAACAAGTACTTCCGCCACGCCACAGGACAGTTGTATGCCATTTCAAAAGAT
                                     tttgccactttctt  CT-rich tract
                ttttcattt  TA-rich tract