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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGAAGAGTTGAAAATATTTTCTGGTGAAGTTGTGCGTTTTGGAAATCGTTGTAAAGATCCTCAATGGCACAACCTGGATCGCTATTTTGAGAAgtaattgtagttgaacttattaatctttgtatttttttagatctaatctagttaaattgatttaatcttaccttatattttcttgtaacatctaacgtgttagttatttattttttttctttgttgatgtttag

Basic information

species Glycine max
transcript GLYMA20G31400.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G31400.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os05g35530.1 (Oryza sativa), 5'ss of exon 4
AGAAGAGTTGAAAATATTTTCTGGTGAAGTTGTGCGTTTTGGAAATCGTTGTAAAGATCCTCAATGGCACAACCTGGATCGCTATTTTGAGAAgtaattgtagttgaacttattaatctttgtatttttttagatctaatctagttaaattgatttaatcttaccttatattttcttgtaacatctaacgtgttagttatttattttttttctttgttgatgtttag
 ||||||||  |||| |||||    |||||||| || |||||||||||||| ||  ||||||||||||||| | |||| ||||| ||||| ||||    | ||||  | || |    | ||||||||  | |    | || |      | | ||||| | ||    |  ||| |  |                                                  
GGAAGAGTTAGAAATCTTTTCAAAAGAAGTTGTTCGATTTGGAAATCGTTGCAAGAATCCTCAATGGCACAGCTTGGACCGCTACTTTGAAAAgt----gcagtttgatttctg---ccttgtatttaatgaaggtttattttaaggcactaatttattttttgtattgattatactag------------------------------------------------

upper sequence: GLYMA20G31400.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os01g65330.2 (Oryza sativa), 5'ss of exon 3
AGAAGAGTTGAAAATATTTTCTGGTGAAGTTGTGCGTTTTGGAAATCGTTGTAAAGATCCTCAATGGCACAACCTGGATCGCTATTTTGAGAAgtaattgtagttgaacttattaatctttgtatttttttagatc-taatctagttaa-attgatttaatcttaccttatattttcttgtaacatctaacgtgttagttatttattttttttctttgttgatgtttag
 |||||||||||| | ||||||   |||||||| || |||||||| || || || |||||||| ||||| ||| |||||||||| ||||| ||||  ||| | | |   || || | |  | | |||| | |     | || |||  |  ||| | ||| |  |    |  ||     | |  ||                                            
GGAAGAGTTGAAAGTGTTTTCTACAGAAGTTGTTCGCTTTGGAAACCGCTGCAAGGATCCTCAGTGGCATAACTTGGATCGCTACTTTGACAAgt--ttg-attcg---tttttcacccctatgttttataaagcaatgatatagggagtattaagttagtgctttgctgcatcaaaatatttcag-------------------------------------------

upper sequence: GLYMA20G31400.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G046846_T01 (Zea mays), 5'ss of exon 4
AGAAGAGTTGAAAATATTTTCTGGTGAAGTTGTGCGTTTTGGAAATCGTTGTAAAGATCCTCAATGGCACAACCTGGATCGCTATTTTGAGAAgtaattgtagttgaacttattaatctttgtatttttttagatctaatctagttaaattgatttaatcttaccttatattttcttgtaacatctaacgtgttagttatttattttttttctttgttgatgtttag
 |||||||||||| | || |||   |||||||| || |||||||||||||| || |||||||| ||||||||| |||| ||||| ||||| ||||||    | || |  ||   |  | ||| |   | |     | ||  |  |    |  ||| ||  ||| || |     | || |  |||| |||   ||                                 
GGAAGAGTTGAAAGTGTTCTCTACAGAAGTTGTTCGCTTTGGAAATCGTTGCAAGGATCCTCAGTGGCACAACTTGGACCGCTACTTTGATAAgtaa----aattcactttg--agcccttgcaacctatagagacaaagattttagggt--attaaaaattaactca-gcgcttttatgccatcaaactctttcag------------------------------

upper sequence: GLYMA20G31400.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G148773_T03 (Zea mays), 5'ss of exon 3
AGAAGAGTTGAAAATATTTTCTGGTGAAGTTGTGCGTTTTGGAAATCGTTGTAAAGATCCTCAATGGCACAACCTGGATCGCTATTTTGAGAAgtaattgtagttgaacttattaatctttgtatttttttagatctaatctagttaaattgatttaatcttaccttatattttcttgtaacatctaacgtgttagttatttattttttttctttgttgatgtttag
 |||||||||||| | ||||||   |||||||| || ||||||||| |||| || |||||||| ||||||||  || | ||||| ||||| ||||||    |||| |  ||    | |  || |   | |     | ||  |  |    |  ||| ||  ||| || |     | || |  |||| |||   ||                                 
GGAAGAGTTGAAAGTGTTTTCTACAGAAGTTGTTCGCTTTGGAAATTGTTGCAAGGATCCTCAGTGGCACAATTTGAACCGCTACTTTGATAAgtaa----agttcactttg--gacccctgcagcctatagaggcaaaggttttagggt--attgaaaattaactcaggcgcttttatgccatcaaactctttcag------------------------------

upper sequence: GLYMA20G31400.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G097502_T02 (Zea mays), 5'ss of exon 3
AGAAGAGTTGAAAATATTTTCTGGTGAAGTTGTGCGTTTTGGAAATCGTTGTAAAGATCCTCAATGGCACAACCTGGATCGCTATTTTGAGAAgtaattgtagttgaacttattaatctttgtatttttt--tagatctaatctagttaaattgatttaatcttaccttatattttcttgtaacatctaacgtgttagttatttattttttttctttgttgatgtttag
 ||||||||  || ||||  |  | || ||||| || |||||||| ||||| || |||||||||||||| ||| |||| ||||| ||||| |||||     ||||   ||| | | |  ||| ||||     |   | || | ||| | | |   ||| || ||    |  |||   ||                                                  
GGAAGAGTTAGAAGTATTCACAAGAGAGGTTGTTCGCTTTGGAAACCGTTGCAAGGATCCTCAATGGCATAACTTGGACCGCTACTTTGAAAAgta----cagtttttcttctcagtacttgaatttgagaatgtgtttactttaggttactaactttcatttttgtctggattccattag------------------------------------------------

upper sequence: GLYMA20G31400.1 (Glycine max), 5'ss of exon 6
lower sequence: AT1G34320.1 (Arabidopsis thaliana), 5'ss of exon 4
AGAAGAGTTGAAAATATTTTCTGGTGAAGTTGTGCGTTTTGGAAATCGTTGTAAAGATCCTCAATGGCACAACCTGGATCGCTATTTTGAGAAgtaattgtagttgaacttattaatct--ttgtatttttttagatctaatctagttaaattg-atttaatcttaccttatattttcttgtaacatctaacgtgttagttatttattttttttctttgttgatgtttag
 ||||||||||  || |||||||| || || ||||||||||| |||||||| || ||||||||||  |||||||||||||| |  ||||| | ||  |   |  ||| | | | | | |  | ||         | | || ||   ||  |  | || | |  || | |||  || | |  ||  || ||                                        
GGAAGAGTTGAGGATTTTTTCTGGAGAGGTGGTGCGTTTTGGGAATCGTTGCAAGGATCCTCAATACCACAACCTGGATCGTTTCTTTGACAGgt--tccaacatgatcctgtcactttggtggtcacacaacgggtgtattccttttggaaagtatctgacttttcatta-gttctgtgttatgatttag---------------------------------------

upper sequence: GLYMA20G31400.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv18s0076g00260.t01 (Vitis vinifera), 5'ss of exon 3
AGAAGAGTTGAAAATATTTTCTGGTGAAGTTGTGCGTTTTGGAAATCGTTGTAAAGATCCTCAATGGCACAACCTGGATCGCTATTTTGAGAAgtaattgtagt-tgaacttat-taatctttgtatttttttagatctaatctagttaaattgatttaatcttaccttatattttcttgtaacatctaacgtgttagttatttattttttttctttgttgatgtttag
 |||||  ||||||| |||||||| ||||| || |||||||| ||||| |||||||||||||| ||||||||| |||| || || |||||||||||||  |  | | | ||| | |||  |  |  || | |  ||| |||   |   ||  |||  |  ||| |  || | || |  |||  | ||||   | ||||                               
GGAAGAACTGAAAATTTTTTCTGGAGAAGTGGTCCGTTTTGGGAATCGATGTAAAGATCCTCAGTGGCACAACTTGGACCGTTACTTTGAGAAgtaatcctgatgttatcttgtctaacttacgctttatgtgtgatttaagacatcaaagatgaggt--tctcatgttcttttgtgctgt--cttctatgattttag-------------------------------

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|193732818|gb|FK668147.1|FK668147
EST:     AATCGTTGTAAAGATCCTCAATGGCACAACCTGGATCGCTATTTTGAGAA                         GTTAAGGTAACAGAAGCTTACACCACAAAA
genomic: AATCGTTGTAAAGATCCTCAATGGCACAACCTGGATCGCTATTTTGAGAAgtaattgtag ... tgatgtttagGTTA-GGTA-CAGA-GCTTACACCACAAAA
EST: gi|193348381|gb|FK314783.1|FK314783
EST:     AATCGTTGTAAAGATCCTCAATGGCACAACCTGGATCGCTATTTTGAGAA                         GTTAGGTACAGAG
genomic: AATCGTTGTAAAGATCCTCAATGGCACAACCTGGATCGCTATTTTGAGAAgtaattgtag ... tgatgtttagGTTAGGTACAGAG