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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAAGGCAGAGGATGCCATTGTGAAGCTCACTAGGGAGGTTGTGCCTGGCATGATTGTTACTGGGATGGAAGTTGCTGAGATTGATGGTGCTCCAAGGATGgtaaaattctattatcacttgatgatactcttgtgccacttgttcaatttgggatttttctttttaatttttttaaggatgataaaatttgagattgatg...

Basic information

species Glycine max
transcript GLYMA12G16380.2
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G16380.2 (Glycine max), 5'ss of exon 2
lower sequence: Vv19s0177g00140.t01 (Vitis vinifera), 5'ss of exon 1
CAAGGCAGAGGATGCCATTGTGAAGCTCACTAGGGAGGTTGTGCCTGGCATGATTGTTACTGGGATGGAAGTTGCTGAGATTGATGGTGCTCCAAGGATGgtaaaattctattatcacttgatgatactcttgtgccacttgttcaatttgggatttttctt---tttaatttttttaaggatgat--aaaatttgagattgatg
|| |||||||||||  || |||| |||||| |||||||| ||||| || ||||| || || || ||||||||||| |||||||||||  | |||||||||||||  ||||  | || |   |      | | || |   |||||   |     |  ||  ||      ||  |  |||   ||  |  ||||||| | ||     
CACGGCAGAGGATGAGATCGTGAGGCTCACCAGGGAGGTGGTGCCGGGAATGATCGTCACCGGAATGGAAGTTGCAGAGATTGATGGCTCCCCAAGGATGgtaattttcttctttctcactacttgtttttagtactttttgtttcttgaaaaaaattgtttggacaaaagatcattagatatatttgaaaatttaaaat-----

upper sequence: GLYMA12G16380.2 (Glycine max), 5'ss of exon 2
lower sequence: EFJ04508 (Selaginella moellendorffii), 5'ss of exon 1
CAAGGCAGAGGATGCCATTGTGAAGCTCACTAGGGAGGTTGTGCCTGGCATGATTGTTACTGGGATGGAAGTTGCTGAGATTGATGGTGCTCCAAGGATGgtaaaattctattatcacttgatgatactcttgtgccacttgttcaatttgggatttttctttttaatttttttaaggatgataaaatttgagattgatg
||  || ||||| || || |||| ||||||| | |||||||| ||||| ||||| || ||||| |||||||| || ||||| ||||| || || |||||||||||    | ||         || |  |  | ||    |||| |   ||    ||| ||  ||  |                                 
CACTGCCGAGGACGCGATCGTGAGGCTCACTCGCGAGGTTGTTCCTGGGATGATCGTCACTGGCATGGAAGTCGCGGAGATCGATGGGGCACCGAGGATGgtaaagaggtttt---------tgttctttctttg----ttgtccgtcttaacgtttctcggttccag--------------------------------

upper sequence: GLYMA12G16380.2 (Glycine max), 5'ss of exon 2
lower sequence: EFJ26284 (Selaginella moellendorffii), 5'ss of exon 1
CAAGGCAGAGGATGCCATTGTGAAGCTCACTAGGGAGGTTGTGCCTGGCATGATTGTTACTGGGATGGAAGTTGCTGAGATTGATGGTGCTCCAAGGATGgtaaaattctattatcacttgatgatactcttgtgccacttgttcaatttgggatttttctttttaatttttttaaggatgataaaatttgagattgatg
||  || ||||| || || |||| ||||||| | |||||||| ||||| ||||| || ||||| |||||||| || ||||| ||||| || || |||||||||||    | ||         || |  |  | ||    ||||||   ||    ||| ||  ||  |                                 
CACTGCCGAGGACGCGATCGTGAGGCTCACTCGCGAGGTTGTTCCTGGGATGATCGTCACTGGCATGGAAGTCGCGGAGATCGATGGGGCACCGAGGATGgtaaagaggtttt---------tgttctttctttg----ttgttcgtcttaacgtttctcggttccag--------------------------------

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|18040999|gb|BM309293.1|BM309293
EST:     TGATTGTTACTGGGATGGAAGTTGCTGAGATTGATGGTGCTCCAAGGATG                         GGTCCAACATTTGGAGCAATGATGATTTCAGGGCAGAAAGCAGCCCATCTG
genomic: TGATTGTTACTGGGATGGAAGTTGCTGAGATTGATGGTGCTCCAAGGATGgtaaaattct ... gtgaatgcagGGTCCAACATTTGGAGCAATGATGATTTCAGGGCAGAAAGCAGCCCATCTG
EST: gi|18040513|gb|BM308807.1|BM308807
EST:     TGATTGTTACTGNGATGGAAGTTGCTGAGATTGATGGTGCTCCAAGGATG                         GGTCCAACATTTGGAGCAATGATGATTTCAGGGCAGAAAGCAGCCCATCTG
genomic: TGATTGTTACTGGGATGGAAGTTGCTGAGATTGATGGTGCTCCAAGGATGgtaaaattct ... gtgaatgcagGGTCCAACATTTGGAGCAATGATGATTTCAGGGCAGAAAGCAGCCCATCTG
EST: gi|51335092|gb|CO978958.1|CO978958
EST:     TGATTGTTACTGGGATGGAAGTTGCTGAGATTGATGGTGCTCCAAGGATG                         GGTCCAACATTTGGAGCAATGATGATTTCAGGGCAGAAAGCAGCCCATCTG
genomic: TGATTGTTACTGGGATGGAAGTTGCTGAGATTGATGGTGCTCCAAGGATGgtaaaattct ... gtgaatgcagGGTCCAACATTTGGAGCAATGATGATTTCAGGGCAGAAAGCAGCCCATCTG
EST: gi|16996775|gb|BM086147.1|BM086147
EST:     TGATTGTTACTGGGATGGAAGTTGCTGAGATTGATGGTGCTCCAAGGATG                         GGTCCAACATTTGGAGCAATGATGATTTCAGGGCAGAAAGCAGCCCATCTG
genomic: TGATTGTTACTGGGATGGAAGTTGCTGAGATTGATGGTGCTCCAAGGATGgtaaaattct ... gtgaatgcagGGTCCAACATTTGGAGCAATGATGATTTCAGGGCAGAAAGCAGCCCATCTG
EST: gi|208141259|gb|GD938275.1|GD938275
EST:     TGATTGTTACTGGGATGGAAGTTGCTGAGATTGATGGTGCTCCAAGGATG                         GGTCCAACATTTGGAGCAATGATGATTTCAGGGCAGAAAGCAGCCCATCTG
genomic: TGATTGTTACTGGGATGGAAGTTGCTGAGATTGATGGTGCTCCAAGGATGgtaaaattct ... gtgaatgcagGGTCCAACATTTGGAGCAATGATGATTTCAGGGCAGAAAGCAGCCCATCTG
EST: gi|193717854|gb|FK651278.1|FK651278
EST:     TGATTGTTACTGGGATGGAAGTTGCTGAGATTGATGGTGCTCCAAGGATG                         GGTCCAACATTTGGAGCAATGATGATTTCAGGGCAGAAAGCAGCCCATCTG
genomic: TGATTGTTACTGGGATGGAAGTTGCTGAGATTGATGGTGCTCCAAGGATGgtaaaattct ... gtgaatgcagGGTCCAACATTTGGAGCAATGATGATTTCAGGGCAGAAAGCAGCCCATCTG
EST: gi|208060569|gb|GD860033.1|GD860033
EST:     TGATTGTTACTGGGATGGAAGTTGCTGAGATTGATGGTGCTCCAAGGATG                         GGTCCAACATTTGGAGCAATGATGATTTCAGGGCAGAAAGCAGCCCATCTG
genomic: TGATTGTTACTGGGATGGAAGTTGCTGAGATTGATGGTGCTCCAAGGATGgtaaaattct ... gtgaatgcagGGTCCAACATTTGGAGCAATGATGATTTCAGGGCAGAAAGCAGCCCATCTG
EST: gi|208261535|gb|GE059960.1|GE059960
EST:     TGATTGTTACTGGGATGGAAGTTGCTGAGATTGATGGTGCTCCAAGGATG                         GGTCCAACATTTGGAGCAATGATGATTTCAGGGCAGAAAGCAGCCCATCTG
genomic: TGATTGTTACTGGGATGGAAGTTGCTGAGATTGATGGTGCTCCAAGGATGgtaaaattct ... gtgaatgcagGGTCCAACATTTGGAGCAATGATGATTTCAGGGCAGAAAGCAGCCCATCTG
EST: gi|21887540|gb|BQ740753.1|BQ740753
EST:     TGATTGTTACTGGGATGGAAGTTGCTGAGATTGATGGTGCTCCAAGGATG                         GGTCCAACATTTGGAGCAATGATGATTTCAGGGCAGAAAGCAGCCCATCTG
genomic: TGATTGTTACTGGGATGGAAGTTGCTGAGATTGATGGTGCTCCAAGGATGgtaaaattct ... gtgaatgcagGGTCCAACATTTGGAGCAATGATGATTTCAGGGCAGAAAGCAGCCCATCTG
EST: gi|16996556|gb|BM085928.1|BM085928
EST:     TGATTGTTACTGGGATGGAAGTTGCTGAGATTGATGGTGCTCCAAGGATG                         GGTCCAACATTTGGAGCAATGATGATTTCAGGGCAGAAAGCAGCCCATCTG
genomic: TGATTGTTACTGGGATGGAAGTTGCTGAGATTGATGGTGCTCCAAGGATGgtaaaattct ... gtgaatgcagGGTCCAACATTTGGAGCAATGATGATTTCAGGGCAGAAAGCAGCCCATCTG
EST: gi|193388929|gb|FK355228.1|FK355228
EST:     TGATTGTTACTGGGATGGAAGTTGCTGAGATTGATGGTGCTCCAAGGATG                         GGTCCAACATTT
genomic: TGATTGTTACTGGGATGGAAGTTGCTGAGATTGATGGTGCTCCAAGGATGgtaaaattct ... gtgaatgcagGGTCCAACATTT
EST: gi|207811132|gb|GD784341.1|GD784341
EST:     TTGATGGTGCTCCAAGGATG                         GGTCCAACATTTGGAGCAATGATGATTTCAGGGCAGAAAGCAGCCCATCTG
genomic: TTGATGGTGCTCCAAGGATGgtaaaattct ... gtgaatgcagGGTCCAACATTTGGAGCAATGATGATTTCAGGGCAGAAAGCAGCCCATCTG
EST: gi|193552547|gb|FK509486.1|FK509486
EST:     TGATTGTTACTGGGATGGAAGTTGCTGAGATTGATGGTGCTCCAAGGATG                         GGTCCAACATTTGGAGCAATGATGATTTCAGGGCAGAAAGCAGCC
genomic: TGATTGTTACTGGGATGGAAGTTGCTGAGATTGATGGTGCTCCAAGGATGgtaaaattct ... gtgaatgcagGGTCCAACATTTGGAGCAATGATGATTTCAGGGCAGAAAGCAGCC
EST: gi|8286028|gb|BE023516.1|BE023516
EST:     GATTGTTACTGGGAATG-AAGTTGCTGAGATTGATGGTGCTCCAAGGATG                         GGTCCAACATTTGGAGCAATGATGATTTCAGGGCAGAAAGCAGCCCATCTG
genomic: GATTGTTACTGGGA-TGGAAGTTGCTGAGATTGATGGTGCTCCAAGGATGgtaaaattct ... gtgaatgcagGGTCCAACATTTGGAGCAATGATGATTTCAGGGCAGAAAGCAGCCCATCTG
EST: gi|13791586|gb|BG654177.1|BG654177
EST:     TGATTGTTACTGGGATGGAAGTTGCTGAGATTGATGGTGCTCCAAGGATG                         GGTCCAACATTTGGAGCAATGATGATTTCAGGGCAGAAAGCAGCCCATCTG
genomic: TGATTGTTACTGGGATGGAAGTTGCTGAGATTGATGGTGCTCCAAGGATGgtaaaattct ... gtgaatgcagGGTCCAACATTTGGAGCAATGATGATTTCAGGGCAGAAAGCAGCCCATCTG
EST: gi|193365954|gb|FK333315.1|FK333315
EST:     TGATTGTTACTGGGATGGAAGTTGCTGAGATTGATGGTGCTCCAAGGATG                         GGTCCAACATTTGGAGCAATGATGATTTCAGGGCAGAAAGCAGCCCATCTG
genomic: TGATTGTTACTGGGATGGAAGTTGCTGAGATTGATGGTGCTCCAAGGATGgtaaaattct ... gtgaatgcagGGTCCAACATTTGGAGCAATGATGATTTCAGGGCAGAAAGCAGCCCATCTG
EST: gi|192334648|gb|FK025209.1|FK025209
EST:     TGATTGTTACTGGGATGGAAGTTGCTGAGATTGATGGTGTTCCAAGGATG                         GGTCCAACATTTGGAGCAATGATGATTTCAGGGCAGAAAGCAGCCCATCTG
genomic: TGATTGTTACTGGGATGGAAGTTGCTGAGATTGATGGTGCTCCAAGGATGgtaaaattct ... gtgaatgcagGGTCCAACATTTGGAGCAATGATGATTTCAGGGCAGAAAGCAGCCCATCTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CAAGGCAGAGGATGCCATTGTGAAGCTCACTAGGGAGGTTGTGCCTGGCATGATTGTTACTGGGATGGAAGTTGCTGAGATTGATGGTGCTCCAAGGATGgtaaaattctattatcacttgatgatactcttgtgccacttgttcaatttgggatttttctttttaatttttttaaggatgataaaatttgagattgatg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG