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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtagcttttaatggaactaggattatagtgttcattgctggttgagtttaagcattatgtgaaatatttttcattattttggtgtattcatctaggttcaatactgtttgttgttggttaaatgattatgttgtaaaatattttccattattttttatttactcatctagGTTCATCGCTTGAGGCTTCTTGGGGATTACCATCATTCAACTCGAATTGCATTTGTTGAGTTCGCACTG

Basic information

species Glycine max
transcript GLYMA04G40750.2
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G40750.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv16s0098g01040.t01 (Vitis vinifera), 3'ss of exon 8
gtttgtagcttttaatggaactaggattatagtgttcattgctggttgagtttaagcattatgtgaaatatttttcattattttggtgtattcatctaggttcaatactgtttgttgttggttaaatgattatgttgtaaaatattttccattattttttatttactcatctagGTTCATCGCTTGAGGCTTCTTGGGGATTACCATCATTCAACTCGAATTGCATTTGTTGAGTTCGCACTG
                                                                             || | |  |  |||  ||| |    |||       |  ||    || |||  ||| | | ||    |      |     | || |   ||  | |||||||||||||||||||| ||||| || || ||||| || ||||||||||| ||||| ||||| | | ||
---------------------------------------------------------------------------gtttgtatctgcttataaatcaaa--ccaacctgaagtactgcgtcttgaattctta-gctatagtgaa------agagcatcttgt---ctggtatagGTTCATCGCTTGAGGCTGCTTGGAGACTATCATCACTCTACTCGAATTGCTTTTGTCGAGTTTGTAATG

upper sequence: GLYMA04G40750.1 (Glycine max), 3'ss of exon 8
lower sequence: EFJ30509 (Selaginella moellendorffii), 3'ss of exon 7
gtttgtagcttttaatggaactaggattatagtgttcattgctggttgagtttaagcattatgtgaaatatttttcattattttggtgtattcatctaggttcaatactgtttgttgttggttaaatgattatgttgtaaaatattttccattattttttatttactcatctagGTTCATCGCTTGAGGCTTCTTGGGGATTACCATCATTCAACTCGAATTGCATTTGTTGAGTTCGCACTG
                                                                                                   ||   |  |  |||   ||   |    |  ||  ||  |     ||||| |     |||   | |  || || ||||    ||||||||  | || || || ||||||||||| |||||||| || ||||||||||||||||||
---------------------------------------------------------------------------------------------------gtaagaagcattttcgagtctctc---tcctttcgtgtttgcgcattttacgactctttggttctcttcgtccagGTGTCGCGCTTGAGATTGCTGGGCGACTACCATCATTCTACTCGAATAGCGTTTGTTGAGTTCGCACTG
















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|7285563|gb|AW598050.1|AW598050
EST:     CTTACTCAAGCAGATGTCAAACACTTCTTCGAATCTATTTGCGGAGAG                         GTTCATCGCTTGAGGCTTCTTGGGGATTACCATCATTCAACTCGAATTGCA
genomic: CTTACTCAAGCAGATGTCAAACACTTCTTCGAATCTATTTGCGGAGAGgtttgtagct ... actcatctagGTTCATCGCTTGAGGCTTCTTGGGGATTACCATCATTCAACTCGAATTGCA
EST: gi|193307091|gb|FK268831.1|FK268831
EST:     CTTACTCAAGCAGATGTCAAACACTTCTTCGAATCTATTTGCGGAGAG                         GTTCATCGCTTGAGGCTTCTTGGGGATTACCATCATTCAACTCGAATTGCA
genomic: CTTACTCAAGCAGATGTCAAACACTTCTTCGAATCTATTTGCGGAGAGgtttgtagct ... actcatctagGTTCATCGCTTGAGGCTTCTTGGGGATTACCATCATTCAACTCGAATTGCA
EST: gi|9203628|gb|BE329852.1|BE329852
EST:     CTTACTCAAGCAGATGTCAAACACTTCTTCGAATCTATTTGCNGAGAG                         GTTCATCGCTTGAGGCTTCTTGGGGATTACCATCATTCAACTCGAATTGCA
genomic: CTTACTCAAGCAGATGTCAAACACTTCTTCGAATCTATTTGCGGAGAGgtttgtagct ... actcatctagGTTCATCGCTTGAGGCTTCTTGGGGATTACCATCATTCAACTCGAATTGCA
EST: gi|58018945|gb|CX705687.1|CX705687
EST:     CTTACTCAAGCAGATGTCAAACACTTCTTCGAATCTATTTGCGGAGAG                         GTTCATCGCTTGAGGCTTCTTGGGGATTACCATCATTCAACTCGAATTGCA
genomic: CTTACTCAAGCAGATGTCAAACACTTCTTCGAATCTATTTGCGGAGAGgtttgtagct ... actcatctagGTTCATCGCTTGAGGCTTCTTGGGGATTACCATCATTCAACTCGAATTGCA
EST: gi|58019174|gb|CX705916.1|CX705916
EST:     CTTACTCAAGCAGATGTCAAACACTTCTTCGAATCTATTTGCGGAGAG                         GTTCATCGCTTGAGGCTTCTTGGGGATTACCATCATTCAACTCGAATTGCA
genomic: CTTACTCAAGCAGATGTCAAACACTTCTTCGAATCTATTTGCGGAGAGgtttgtagct ... actcatctagGTTCATCGCTTGAGGCTTCTTGGGGATTACCATCATTCAACTCGAATTGCA
EST: gi|151412507|gb|EV282319.1|EV282319
EST:     CTTACTCAAGCAGATGTCAAACACTTCTTCGAATCTATTTGCGGAGAG                         GTTCATCGCTTGAGGCTTCTTGGGGATTACCATCATTCAACTCGAATTGCA
genomic: CTTACTCAAGCAGATGTCAAACACTTCTTCGAATCTATTTGCGGAGAGgtttgtagct ... actcatctagGTTCATCGCTTGAGGCTTCTTGGGGATTACCATCATTCAACTCGAATTGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggttaaatgattatgttgtaaaatattttccattattttttatttactcatctagGTTCATCGCTTGAGGCTTCTTGGGGATTACCATCATTCAACTCGAATTGCATTTGTTGAGTTCGCACTG
                                   ttttttatttactc  CT-rich tract
     aatgattatgttgtaa  TA-rich tract