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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTTCCAGACCGTGTTTTTATGAAATTAGTAGTCTGTGCAAAAACAAACGAAGTTCTAGGTTTGCATATGTGTGGAGACGATGCTCCTGAAATTGTGCAGgtttttagagttgctacagctgctctgtattgctttgataatgatacatgagttttcaattcatttgttatacatctgcttgatacccag

Basic information

species Glycine max
transcript GLYMA10G03740.2
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G03740.3 (Glycine max), 5'ss of exon 8
lower sequence: Vv07s0141g00390.t01 (Vitis vinifera), 5'ss of exon 8
GCTTCCAGACCGTGTTTTTATGAAATTAGTAGTCTGTGCAAAAACAAACGAAGTTCTAGGTTTGCATATGTGTGGAGACGATGCTCCTGAAATTGTGCAGgtttttagagttgctacagctgctctgtattgctttgataatgatacatgagttttcaattcatttgttata--catctgcttgatacccag
 || |||||||| ||||| |||||| |  ||||||||||||| || ||| |||| || || ||||||||||||||||| ||| | || ||||||||||||||||            |  ||  ||   |||||||   | ||  |   |   | | ||||| ||| ||| ||  | | ||    |  |||||
ACTCCCAGACCGGGTTTTCATGAAACTTATAGTCTGTGCAAAGACTAACAAAGTACTGGGATTGCATATGTGTGGAGAAGATTCACCAGAAATTGTGCAGgtttgc----------cttctaatc--cattgcttgacttatttttgttagatctgcaattaattggttgtattcttatggcaaaaccccag
















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|192322570|gb|FK014691.1|FK014691
EST:     GTGGAGACGATGCTCCTGAAATTGTGCAG                         GGGTTTGCAGTTGCTCTTAAAGCTCGCTTGACCAAGGCCGACTTTGATGCC
genomic: GTGGAGACGATGCTCCTGAAATTGTGCAGgtttttagag ... tgatacccagGGGTTTGCAGTTGCTCTTAAAGCTCGCTTGACCAAGGCTGACTTTGATGCC
EST: gi|22927402|gb|BU544541.1|BU544541
EST:     GCATATGTGTGGAGACGATGCTCCTGAAATTGTGCAG                         GGGTTTGCAGTTGCTCTTAAAGCTCGCTTGACCAAGGCTGACTTTGATGCC
genomic: GCATATGTGTGGAGACGATGCTCCTGAAATTGTGCAGgtttttagag ... tgatacccagGGGTTTGCAGTTGCTCTTAAAGCTCGCTTGACCAAGGCTGACTTTGATGCC
EST: gi|192299302|gb|FG988702.1|FG988702
EST:     AAGTTCTAGGTTTGCATATGTGTGGAGACGATGCTCCTGAAATTGTGCAG                         GGGTTTGCAGTTGCTCTTAGAGCTCGCTTGACCAAGGCTGACTTTGATGCC
genomic: AAGTTCTAGGTTTGCATATGTGTGGAGACGATGCTCCTGAAATTGTGCAGgtttttagag ... tgatacccagGGGTTTGCAGTTGCTCTTAAAGCTCGCTTGACCAAGGCTGACTTTGATGCC
EST: gi|22523475|gb|BU082286.1|BU082286
EST:     AAGTTCTAGGTTTGCATATGTGTGGAGACGATGCTCCTGAAATTGTGCAG                         GGGTTTGCAGTTGCTCTTAAAGCTCGCTTGACCAAGGCTGACTTTGATGCC
genomic: AAGTTCTAGGTTTGCATATGTGTGGAGACGATGCTCCTGAAATTGTGCAGgtttttagag ... tgatacccagGGGTTTGCAGTTGCTCTTAAAGCTCGCTTGACCAAGGCTGACTTTGATGCC
EST: gi|15001224|gb|BI322038.1|BI322038
EST:     AAGTTCTAGGTTTGCATATGTGTGGAGACGATGCTCCTGAAATTGTGCAG                         GGGTTTGCAGTTGCTCTTAAAGCTCGCTTGACCAAGGCTGACTTTGATGCC
genomic: AAGTTCTAGGTTTGCATATGTGTGGAGACGATGCTCCTGAAATTGTGCAGgtttttagag ... tgatacccagGGGTTTGCAGTTGCTCTTAAAGCTCGCTTGACCAAGGCTGACTTTGATGCC
EST: gi|15286301|gb|BI470192.1|BI470192
EST:     AAGTTCTAGGTTTGCATATGTGTGGAGACGATGCTCCTGAAATTGTGCAG                         GGGTTTGCAGTTGCTCTTAAAGCTCGCTTGACCAAGGCTGACTTTGATGCC
genomic: AAGTTCTAGGTTTGCATATGTGTGGAGACGATGCTCCTGAAATTGTGCAGgtttttagag ... tgatacccagGGGTTTGCAGTTGCTCTTAAAGCTCGCTTGACCAAGGCTGACTTTGATGCC
EST: gi|209705614|gb|BW673583.1|BW673583
EST:     CTAGGTTTGCATATGTGTGGAGACGATGCTCCTGAAATTGTGCAG                         GGGTTTGCAGTTGCTCTTAAAGCTCGCTTGACCAAGGCTGACTTTGATGCC
genomic: CTAGGTTTGCATATGTGTGGAGACGATGCTCCTGAAATTGTGCAGgtttttagag ... tgatacccagGGGTTTGCAGTTGCTCTTAAAGCTCGCTTGACCAAGGCTGACTTTGATGCC
EST: gi|19347352|gb|BM892232.1|BM892232
EST:     AAGTTCTAGGTTTGCATATGTGTGGAGACGATGCTCCTGAAATTGTGCAG                         GGGTTTGCAGTTGCTCTTAAAGCTCGCTTGACCAAGGCTGACTTTGATGCC
genomic: AAGTTCTAGGTTTGCATATGTGTGGAGACGATGCTCCTGAAATTGTGCAGgtttttagag ... tgatacccagGGGTTTGCAGTTGCTCTTAAAGCTCGCTTGACCAAGGCTGACTTTGATGCC
EST: gi|12496411|gb|BG047051.1|BG047051
EST:     AAGTTCTAGGTTTGCATATGTGTGGAGACGATGCTCCTGAAATTGTGCAG                         GGGTTTGCAGTTGCTCTTAAAGCTCGCTTGACCAAAGCTGACTTTGATGCC
genomic: AAGTTCTAGGTTTGCATATGTGTGGAGACGATGCTCCTGAAATTGTGCAGgtttttagag ... tgatacccagGGGTTTGCAGTTGCTCTTAAAGCTCGCTTGACCAAGGCTGACTTTGATGCC
EST: gi|16347393|gb|BI972988.1|BI972988
EST:     AAGTTCTAGGTTTGCATATGTGTGGAGACGATGCTCCTGAAATTGTGCAG                         GGGTTTGCAGTTGCTCTTAAAGCTCGCTTGACCAAGGCTGACTTTGATGCC
genomic: AAGTTCTAGGTTTGCATATGTGTGGAGACGATGCTCCTGAAATTGTGCAGgtttttagag ... tgatacccagGGGTTTGCAGTTGCTCTTAAAGCTCGCTTGACCAAGGCTGACTTTGATGCC
EST: gi|23064089|gb|BU578862.1|BU578862
EST:     AAGTTCTAGGTTTGCATATGTGTGGAGACGATGCTCCTGAAATTGTGCAG                         GGGTTTGCAGTTGCTCTTAAAGCTCGCTTGACCAAGGCTGACTTTGATGCC
genomic: AAGTTCTAGGTTTGCATATGTGTGGAGACGATGCTCCTGAAATTGTGCAGgtttttagag ... tgatacccagGGGTTTGCAGTTGCTCTTAAAGCTCGCTTGACCAAGGCTGACTTTGATGCC

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCTTCCAGACCGTGTTTTTATGAAATTAGTAGTCTGTGCAAAAACAAACGAAGTTCTAGGTTTGCATATGTGTGGAGACGATGCTCCTGAAATTGTGCAGgtttttagagttgctacagctgctctgtattgctttgataatgatacatgagttttcaattcatttgttatacatctgcttgatacccag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA