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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgccttgacaaacttaaattgtctttgatcaaatgtcacaatatcctgctattatctgattctaactactctttctttgatgtatctagTGGCAGGAGATGTAACCAACATAGCACTAGATCCTTTATTCATGTTTGTATTCCGCTTGGGTGTCAGTGGTGCAGCCATCGCCCATGTTATATCTCA

Basic information

species Glycine max
transcript GLYMA13G41460.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G41460.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os10g13940.1 (Oryza sativa), 3'ss of exon 5
---------gtatgccttgacaaacttaa-attgtctttgatcaa----atgtcacaatatcctgctattatctgattctaactactctttctttgatgtatctagTGGCAGGAGATGTAACCAACATAGCACTAGATCCTTTATTCATGTTTGTATTCCGCTTGGGTGTCAGTGGTGCAGCCATCGCCCATGTTATATCTCA
         ||||   |  |   |    |  ||    ||  | ||     || | ||  ||  | |   || || ||  |    ||||||| | |       | |||||| ||||||| |||||||||||   | |||||  |||| |||||||| ||||  |  ||||||||||||||||| || || ||||||||||| ||
ttgtagatggtatatttaaatgcatgagatgttacgattagtgaataatttgcctcaggataatacatatacctaatggtgttaactctttttata------ccagTGGCTGGAGATGCAACCAACATAGTTTTGGATCCAATATTTATGTTTGTCTTCCAGTATGGTGTCAGTGGTGCAGCAATTGCTCATGTTATATCACA

upper sequence: GLYMA13G41460.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv06s0004g02140.t01 (Vitis vinifera), 3'ss of exon 5
gtatgccttgacaaacttaaat--tgtctttgatcaaatgtcacaatatcctgc---------------tattatctgattctaa-ctactctttctttgatgta-tctagTGGCAGGAGATGTAACCAACATAGCACTAGATCCTTTATTCATGTTTGTATTCCGCTTGGGTGTCAGTGGTGCAGCCATCGCCCATGTTATATCTCA
||| |    || |   | ||||   || |  || ||||| |  |||  || ||                | |    ||| ||||| | | | |||   || | || |  |||||||||||| ||||| ||||||    |||| ||  |||| |||||||| ||||   |||||||| ||||||||||||| |||||||||||||||||
gtaagtagagagaggatgaaatgtcgtataagaacaaatatt-caacctcttgtatatggagctgagattttcgcttgactctaatccattgtttacctggtctaattcagTGGCAGGAGACGTAACAAACATAATTTTAGACCCGATATTTATGTTTGTTTTCCATATGGGTGTCGGTGGTGCAGCCATTGCCCATGTTATATCTCA
















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|19348710|gb|BM893242.1|BM893242
EST:     GGGAGTCTTCCGAGGATTTAAAGACACTAAAACTCCTTTATATGCCACTG                         TGGCAGGAGATGTAACCAACATAGCACTAGATCCTTTATTCATGTTTGTAT
genomic: GGGAGTCTTCCGAGGATTTAAAGACACTAAAACTCCTTTATATGCCACTGgtatgccttg ... atgtatctagTGGCAGGAGATGTAACCAACATAGCACTAGATCCTTTATTCATGTTTGTAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtcacaatatcctgctattatctgattctaactactctttctttgatgtatctagTGGCAGGAGATGTAACCAACATAGCACTAGATCCTTTATTCATGTTTGTATTCCGCTTGGGTGTCAGTGGTGCAGCCATCGCCCATGTTATATCTCA
               tattatct  TA-rich tract