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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtattatgtctttgttttattttgtacattctcacttgtattctaatacttttttatcgtccacctctagGTATGCAAATGTAAAGTCGCCTGAACGCCATGTGCGAACACGCCTATACTTCACATCA

Basic information

species Glycine max
transcript GLYMA18G49000.1
intron # 26
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G49000.1 (Glycine max), 3'ss of exon 26
lower sequence: AT5G15070.2 (Arabidopsis thaliana), 3'ss of exon 27
gtaagtattatgtctttgttttatt----------ttgtacattctcact-tgtattctaatact---tttttatcgtccacc--tctagGTATGCAAATGTAAAGTCGCCTGAACGCCATGTGCGAACACGCCTATACTTCACATCA
||||     |  ||| | ||  |||          |  || ||  |||   | | |  |||||     ||||||| ||   ||  | ||||||||||||||| | | |||||||||| |||||| | ||||| || ||||||||||| 
gtaaccgaaaactctcttttagattataagtggcatcatatatcttcatcatctttcttaatatcatctttttattgtgttccattttagGTATGCAAATGTCATGACGCCTGAACGTCATGTGAGGACACGTCTTTACTTCACATCT

upper sequence: GLYMA18G49000.1 (Glycine max), 3'ss of exon 26
lower sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 26
--------gtaagtattatgtctttgtttta-ttttgtacattctcact-tgtattctaatacttttttatcgtccacctctagGTATGCAAATGTAAAGTCGCCTGAACGCCATGTGCGAACACGCCTATACTTCACATCA
         | |      |   ||||| ||| |  ||||||     | | | |||  ||| | ||  || |  |   |    |||||||||||||| ||| | || |||||||||||||| |||||||| || || ||||||
gtgaatacatgaaccacttaagtttgtcttagtcctgtacacctcaattatttatattaagatttccttgttattttcaatcagGTATGCAAATGTGAAGACACCAGAACGCCATGTGCGCACACGCCTCTATTTTACATCA
















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|7691808|gb|AW759929.1|AW759929
EST:     GATGATGATAAAGAGACCAAATATCGTTTGGATCCAAA                         GTATGCAAATGTAAAGTCGCCTGAACGCCATGTGCGAACACGCCTATACTT
genomic: GATGATGATAAAGAGACCAAATATCGTTTGGATCCAAAgtaagtatta ... ccacctctagGTATGCAAATGTAAAGTCGCCTGAACGCCATGTGCGAACACGCCTATACTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttattttgtacattctcacttgtattctaatacttttttatcgtccacctctagGTATGCAAATGTAAAGTCGCCTGAACGCCATGTGCGAACACGCCTATACTTCACATCA
                         ttctaat  putative branch site (score: 2)
                                 cttttttatcgtcc  CT-rich tract
                    ttgtattctaatactt  TA-rich tract