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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attctatcatatatgctatgaatgtttgtgtaatactgtgaatcatttttgattactagacagtatttaacaccgatgactacatatttatcacttacagGGAATTGAAATGCTTTCTCTTGGGTCTTTCAAGACTGGTGCTATTCTCTTG

Basic information

species Glycine max
transcript GLYMA06G08620.2
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G08620.2 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os02g02530.3 (Oryza sativa), 3'ss of exon 5
----------------------------attctatcatatatgctatgaatgtttgtgt------aatactgtgaatcatttttgattactagacagtatttaac---accgatgactacatatttatca----cttacagGGAATTGAAATGCTTTCTCTTGGGTCTTTCAAGACTGGTGCTATTCTCTTG
                            |   ||  ||  ||  |   |||   | ||       |        |||   || || || |    ||   ||||     |  ||   |||| |  || ||     ||||||||||||||| ||||| || ||||| || ||||| ||||||||||||||||||
gtatgcttttgtgttattttgagatataaggttaatatgcattattgaaataactatggttcaagagcttcacaaatatgttctgttttcctcccaaactttacttggagagaaacctacttgattctctttatcttacagGGAATTGAGATGCTATCACTTGGATCATTCAAAACTGGTGCTATTCTCTTG

upper sequence: GLYMA06G08620.2 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os05g36070.2 (Oryza sativa), 3'ss of exon 6
------------------------------attctatcatatatgct---atgaatgtttgtgtaata---ctgtgaat---catttttgattactagacagtatttaacaccga-tgactacatatttatcacttacagGGAATTGAAATGCTTTCTCTTGGGTCTTTCAAGACTGGTGCTATTCTCTTG
                              ||  ||  ||  |||     || |||    || | | |     ||  ||     |||||    || |    |||   ||  | || |  ||   | | | |  | | |||||||| || ||||| || ||||| || ||||| ||||||||||||||||||
gtttgatcttattgctatttttgagatataatgttaatatgcatgagtaaattaattacggtatgaaagtttcgtagatatgttttttttcccaccaacttgtagagaaacctgaatccctgattctctttgccatccagGGAATCGAGATGCTATCACTTGGATCATTCAAAACTGGTGCTATTCTCTTG

upper sequence: GLYMA06G08620.2 (Glycine max), 3'ss of exon 6
lower sequence: AT2G03120.1 (Arabidopsis thaliana), 3'ss of exon 5
--------------------------------------------attctatcata-tatgctatgaatgtttgtgtaatactgtgaatcatttttgattactagacagtatttaacaccgatgactacatatttatcacttacagGGAATTGAAATGCTTTCTCTTGGGTCTTTCAAGACTGGTGCTATTCTCTTG
                                               || | |||  ||  |||  | ||||       |||| || ||| | ||| | | |      | |||   ||  || | | |    ||  || | |||||||||||| ||||| ||||| || || |||||||||||||| || || |||
gttacttcccttgcactttatgggaatacataaactctgaagcttcactgttataacataatatttaagtttaaagtgaactg-gagtcactgttgttgagtgtctctttttt--tactaattaatgcc--gttgccaat-acagGGAATTGAGATGCTCTCTCTCGGATCATTCAAGACTGGTGCCATCCTTTTG

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|6072670|gb|AW102057.1|AW102057
EST:     GGAAGCATTGGCTAGCANATAATATATTGG-TCTTGCCTTCTGTATTCAN                         GGAATTGAAATGCTTTCTTCTTGG-TCTTTCAAGACTGGTGCTATTCTCTT
genomic: GGAAGCATTGGCTAGCAAATAATATATTGGGTCTTGCCTTCTGTATTCAGgtttgttgca ... tcacttacagGGAATTGAAATGCTTTCT-CTTGGGTCTTTCAAGACTGGTGCTATTCTCTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttgattactagacagtatttaacaccgatgactacatatttatcacttacagGGAATTGAAATGCTTTCTCTTGGGTCTTTCAAGACTGGTGCTATTCTCTTG
                   atttaac  putative branch site (score: 3)
                                      atatttatcactta  TA-rich tract