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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtgcccctacttaatggaagcttgatagatagatcacaattgtgaattatctctgctcagatactcatatgtgaggcttcgcagTTTCTTTTGGATTCAAGTCTGTGGACGAATACTATTCTAATTCAAGCAGTTCAGATTCCATAAAACATGTTAGAACCCCTTTGCTTTGCATCCAG

Basic information

species Glycine max
transcript GLYMA12G01650.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G01650.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os02g43340.2 (Oryza sativa), 3'ss of exon 5
gtatgtgcccctacttaatggaagcttgatagatagatcacaattgtgaattatctctgctcagatactcatat---gtgaggcttc--------gcagTTTCTTTTGGATTCAAGTCTGTGGACGAATACTATTCTAATTCAAGCAGTTCAGATTCCATAAAACATGTTAGAACCCCTTTGCTTTGCATCCAG
|| ||       |   |    ||   | |  |   |||   | |  |   || |||||| |  ||  | ||| |    | |  ||||        |||||||| ||||| |||||||||||||| || || || || || |||||||| ||||||||||||||| |||||   |  || ||  | ||||| |||
gtttgaaatgacatcaagcataactcttaccg---gatgctattcattttttttctctgttgggacccgcatttaaaattacacttcaattgtatgcagTTTCATTTGGCTTCAAGTCTGTGGATGATTATTACTCCAACTCAAGCAGCTCAGATTCCATAAAAAATGTTTCCATACCCTTATTGTGCATACAG

upper sequence: GLYMA12G01650.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv02s0025g02550.t01 (Vitis vinifera), 3'ss of exon 5
gtatgtgcccctacttaatggaagcttgatagatagatcacaattgtgaattatctctgctcagatactcatatgtgaggcttcgcagTTTCTTTTGGATTCAAGTCTGTGGACGAATACTATTCTAATTCAAGCAGTTCAGATTCCATAAAACATGTTAGAACCCCTTTGCTTTGCATCCAG
|||| |  | ||  |  |   |   |||| |  |   |  |  |     || ||  |        ||||  |   | |  | | |||||||| |||||||||||||| ||||| || ||||| |||||||||||||||||||||||||||||||||||  | || ||||||||||||||||||
gtatatatcgcttttctacttagaattgagactt---tttctgtataacatcatggcccactgcttactgcttcttaacaccttgcagTTTCATTTGGATTCAAGTCAGTGGATGACTACTACTCTAATTCAAGCAGTTCAGATTCCATAAAACATGTGTGCACACCTTTGCTTTGCATCCAG
















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|209717157|gb|BW657620.1|BW657620
EST:     GGCAGCCAATGCCAAGTCTGTTAGGGAGTTTGATGATGCACTGACCCGTG                         TTTCTTTTGGATTNCA-GTCTGTGGACGAATACTATTCTAAATTCA-GCAG
genomic: GGCAGCCAATGCCAAGTCTGTTAGGGAGTTTGATGATGCACTGACCCGTGgtatgtgccc ... ggcttcgcagTTTCTTTTGGATT-CAAGTCTGTGGACGAATACTATTCTAA-TTCAAGCAG
EST: gi|51341796|gb|CO983113.1|CO983113
EST:     GGCAGCCAATGCCAAGTCTGTTAGGGAGTTTGATGATGCACTGACCCGTG                         TTTCTTTTGGATTCAAGTCTGTGGACGAATACTATTCTAATTCAAGCAGTT
genomic: GGCAGCCAATGCCAAGTCTGTTAGGGAGTTTGATGATGCACTGACCCGTGgtatgtgccc ... ggcttcgcagTTTCTTTTGGATTCAAGTCTGTGGACGAATACTATTCTAATTCAAGCAGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagatcacaattgtgaattatctctgctcagatactcatatgtgaggcttcgcagTTTCTTTTGGATTCAAGTCTGTGGACGAATACTATTCTAATTCAAGCAGTTCAGATTCCATAAAACATGTTAGAACCCCTTTGCTTTGCATCCAG
             tgaattat  TA-rich tract