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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACTTGAATATGTTCCTGAAACAGTTAATCGTGTGATCAAACATTACAACAAGTTAAACCAAAGGATGCCGCTGATATATGTGAAACTCTATACATACCAGgtatgactgttgcccttcctgtcttaagctttcataattgttctggctgtaacaattatttttgatatatttcag

Basic information

species Glycine max
transcript GLYMA20G22600.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G22600.3 (Glycine max), 5'ss of exon 5
lower sequence: Vv14s0060g00600.t01 (Vitis vinifera), 5'ss of exon 5
ACTTGAATATGTTCCTGAAACAGTTAATCGTGTGATCAAACATTACAACAAGTTAAACCAAAGGATGCCGCTGATATATGTGAAACTCTATACATACCAGgtatgactgttgcccttcctgtcttaagctttcataattgttctggctgtaacaattatttttgatatatttcag-------------------------------------------------------------------------
|||||| |||||||||||||| ||| |||| || || ||||| ||||| ||||| |||||||||||||| |||||||||||||| ||||||||||||||||| ||  ||||     |      |||   |||||| || ||     || |      | ||||||  | | |  |                                                                          
ACTTGAGTATGTTCCTGAAACTGTTCATCGGGTTATTAAACACTACAATAAGTTGAACCAAAGGATGCCACTGATATATGTGAAGCTCTATACATACCAGgtgtgg-tgttaattatttaaattta--ttttcattatggtctcttctatgttg--tgtttttgcaaaagtctatatggttgtaaagtttaaatctctttttatcccagcggctgctgaaattgtaatatattgtttttatttgatag
















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|6566240|gb|AW233921.1|AW233921
EST:     AGTTAAACCAAAGGATGCCGCTGATATATGTGAAACTCTATACATACCAG                         ATCTTTAGGGCGTTATCTTATATTCATCGTTGTATTGGAGTCTGCCATCGG
genomic: AGTTAAACCAAAGGATGCCGCTGATATATGTGAAACTCTATACATACCAGgtatgactgt ... tatatttcagATCTTTAGGGCGTTATCTTATATTCATCGTTGTATTGGAGTCTGCCATCGG
EST: gi|208179135|gb|GD976148.1|GD976148
EST:     AGTTAAACCAAAGGATGCCGCTGATATATGTGAAACTCTATACATACCAG                         ATCTTTAGGGCGTTATCTTATATTCATCGTTGTATTGGAGTCTGCCATCGG
genomic: AGTTAAACCAAAGGATGCCGCTGATATATGTGAAACTCTATACATACCAGgtatgactgt ... tatatttcagATCTTTAGGGCGTTATCTTATATTCATCGTTGTATTGGAGTCTGCCATCGG
EST: gi|208162047|gb|GD960160.1|GD960160
EST:     GTTAAACCAAAGGATGCCGCTGATATATGTTGAAACTCTATACATACCAG                         ATCTTTAGGGCGTTATCTTATATTCATCGTTGTATTGGAGTCTGCCATCGG
genomic: GTTAAACCAAAGGATGCCGCTGATATATG-TGAAACTCTATACATACCAGgtatgactgt ... tatatttcagATCTTTAGGGCGTTATCTTATATTCATCGTTGTATTGGAGTCTGCCATCGG
EST: gi|19052551|gb|BM731218.1|BM731218
EST:     AGTTAAACCAAAGGATGCCGCTGATATATGTGAAACTCTATACATACCAG                         ATCTTTAGGGCGTTATCTTATATTCATCGTTGTATTGGAGTCTGCCATCGG
genomic: AGTTAAACCAAAGGATGCCGCTGATATATGTGAAACTCTATACATACCAGgtatgactgt ... tatatttcagATCTTTAGGGCGTTATCTTATATTCATCGTTGTATTGGAGTCTGCCATCGG
EST: gi|15287684|gb|BI471575.1|BI471575
EST:     CTGATATATGTGAAACTCTATACATACCAG                         ATCTTTAGGGCGTTATCTTATATTCATCGTTGTATTGGAGTCTGCCATCGG
genomic: CTGATATATGTGAAACTCTATACATACCAGgtatgactgt ... tatatttcagATCTTTAGGGCGTTATCTTATATTCATCGTTGTATTGGAGTCTGCCATCGG
EST: gi|209699787|gb|BW655800.1|BW655800
EST:     AGTTAAACCAAAGGATGCCGCTGATATATGTGAAACTCTATACATACCAG                         ATCTTTAGGGCGTTATCTTATATTCATCGTTGTATTGGAGTCTGCCATCGG
genomic: AGTTAAACCAAAGGATGCCGCTGATATATGTGAAACTCTATACATACCAGgtatgactgt ... tatatttcagATCTTTAGGGCGTTATCTTATATTCATCGTTGTATTGGAGTCTGCCATCGG
EST: gi|14990268|gb|BI315941.1|BI315941
EST:     AGTTAAACCAAAGGATGCCGCTGATATATGTGAAACTCTATACATACCAG                         ATCTTTAGGGCGTTATCTTATATTCATCGTTGTATTGGAGTCTGCCATCGG
genomic: AGTTAAACCAAAGGATGCCGCTGATATATGTGAAACTCTATACATACCAGgtatgactgt ... tatatttcagATCTTTAGGGCGTTATCTTATATTCATCGTTGTATTGGAGTCTGCCATCGG
EST: gi|27426708|gb|CA938228.1|CA938228
EST:     GATATATGTGAAACTCTATACATACCAG                         ATCTTTAGGGCATTATCTTATATTCATCGTTGTATTGGAGTCTGCCATCGG
genomic: GATATATGTGAAACTCTATACATACCAGgtatgactgt ... tatatttcagATCTTTAGGGCGTTATCTTATATTCATCGTTGTATTGGAGTCTGCCATCGG
EST: gi|11413300|gb|BF425311.1|BF425311
EST:     AGTTAAACCAAAGGATGCCGCTGATATATGTGAAACTCTATACATACCAG                         ATCTTTAGGGCGTTATCTTATATTCATCGTTGTATTGGAGTCTGCCATCGG
genomic: AGTTAAACCAAAGGATGCCGCTGATATATGTGAAACTCTATACATACCAGgtatgactgt ... tatatttcagATCTTTAGGGCGTTATCTTATATTCATCGTTGTATTGGAGTCTGCCATCGG
EST: gi|192296530|gb|FG991636.1|FG991636
EST:     AGTTAAACCAAAGGATGCCGCTGATATATGTGAAACTCTATACATACCAG                         ATCTTTAGGGCGTTATCTTATATTCATCGTTGTATTGGAGTCTGCCATCGG
genomic: AGTTAAACCAAAGGATGCCGCTGATATATGTGAAACTCTATACATACCAGgtatgactgt ... tatatttcagATCTTTAGGGCGTTATCTTATATTCATCGTTGTATTGGAGTCTGCCATCGG
EST: gi|16997007|gb|BM086379.1|BM086379
EST:     AGTTAAACCAAAGGATGCCGCTGATATATGTGAAACTCTATACATACCAG                         ATCTTTAGGGCGTTATCTTATATTCATCGTTGTATTGGAGTCTGCCATCGG
genomic: AGTTAAACCAAAGGATGCCGCTGATATATGTGAAACTCTATACATACCAGgtatgactgt ... tatatttcagATCTTTAGGGCGTTATCTTATATTCATCGTTGTATTGGAGTCTGCCATCGG
EST: gi|15000029|gb|BI320843.1|BI320843
EST:     GTGAAACTCTATACATACCAG                         ATCTTTAGGGCGTTATCTTATATTCATCGTTGTATTGGAGTCTGCCATCGG
genomic: GTGAAACTCTATACATACCAGgtatgactgt ... tatatttcagATCTTTAGGGCGTTATCTTATATTCATCGTTGTATTGGAGTCTGCCATCGG
EST: gi|192321549|gb|FK012899.1|FK012899
EST:     AGTTAAACCAAAGGATGCCGCTGATATATGTGAAACTCTATACATACCAG                         ATCTTTAGGGCGTTATCTTATATTCATCGTTGTATTGGAGTCTGCCATCGG
genomic: AGTTAAACCAAAGGATGCCGCTGATATATGTGAAACTCTATACATACCAGgtatgactgt ... tatatttcagATCTTTAGGGCGTTATCTTATATTCATCGTTGTATTGGAGTCTGCCATCGG
EST: gi|193377439|gb|FK339255.1|FK339255
EST:     AGGATGCCGCTGATATATGTGAAACTCTATACATACCAG                         ATCTTTAGGGCGTTATCTTATATTCATCGTTGTATTGGAGTCTGCCATCGG
genomic: AGGATGCCGCTGATATATGTGAAACTCTATACATACCAGgtatgactgt ... tatatttcagATCTTTAGGGCGTTATCTTATATTCATCGTTGTATTGGAGTCTGCCATCGG
EST: gi|254333709|gb|GR848627.1|GR848627
EST:     AGTTAAACCAAAGGATGCCGCTGATATATGTGAAACTCTATACATACCAG                         ATCTTTAGGGCGTTATCTTATATTCATCGTTGTATTG-AGTCTGCCATCGG
genomic: AGTTAAACCAAAGGATGCCGCTGATATATGTGAAACTCTATACATACCAGgtatgactgt ... tatatttcagATCTTTAGGGCGTTATCTTATATTCATCGTTGTATTGGAGTCTGCCATCGG
EST: gi|9205156|gb|BE331380.1|BE331380
EST:     AGTTAAACCAAAGGATGCCGCTGATATATGTGAAACTCTATACATACCAG                         ATCTTTAGGGCGTTATCTTATATTCATCGTTGTATTGGAGTCTGCCATCGG
genomic: AGTTAAACCAAAGGATGCCGCTGATATATGTGAAACTCTATACATACCAGgtatgactgt ... tatatttcagATCTTTAGGGCGTTATCTTATATTCATCGTTGTATTGGAGTCTGCCATCGG
EST: gi|254327042|gb|GR836651.1|GR836651
EST:     AGTTAAACCAAAGGATGCCGCTGATATATGTGAAACTCTATACATACCAG                         ATCTTTAGG-CGTTATCTTATATTCATCGTTGTATTGGAGTCTGCCATCGG
genomic: AGTTAAACCAAAGGATGCCGCTGATATATGTGAAACTCTATACATACCAGgtatgactgt ... tatatttcagATCTTTAGGGCGTTATCTTATATTCATCGTTGTATTGGAGTCTGCCATCGG
EST: gi|22525150|gb|BU083970.1|BU083970
EST:     AGTTGAACCAAAGGATGCCACTGATATATGTGAAACTCTATACATACCAG                         ATCTTTAGGGCATTATCTTATATTCATCGTTGTATTGGAGTCTGCCATCGG
genomic: AGTTAAACCAAAGGATGCCGCTGATATATGTGAAACTCTATACATACCAGgtatgactgt ... tatatttcagATCTTTAGGGCGTTATCTTATATTCATCGTTGTATTGGAGTCTGCCATCGG
EST: gi|13481244|gb|BG510587.1|BG510587
EST:     ATACATACCAG                         ATCTTTAGGGCGTTATCTTATATTCATCGTTGTATTGGAGTCTGCCATCGG
genomic: ATACATACCAGgtatgactgt ... tatatttcagATCTTTAGGGCGTTATCTTATATTCATCGTTGTATTGGAGTCTGCCATCGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACTTGAATATGTTCCTGAAACAGTTAATCGTGTGATCAAACATTACAACAAGTTAAACCAAAGGATGCCGCTGATATATGTGAAACTCTATACATACCAGgtatgactgttgcccttcctgtcttaagctttcataattgttctggctgtaacaattatttttgatatatttcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT