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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGATGGCCAGAAGAGAGCTCTTGTGATAGGAGGAGGCATAGCCAACTTTACTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAGgtaagtctatgatcaatagagcttagttcagatgtatgatgagaatcttcttgtagtagttaattgagtgttgagctattgcaattcaggag

Basic information

species Glycine max
transcript GLYMA02G04120.2
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G04120.2 (Glycine max), 5'ss of exon 11
lower sequence: Vv01s0127g00260.t01 (Vitis vinifera), 5'ss of exon 12
TGATGGCCAGAAGAGAGCTCTTGTGATAGGAGGAGGCATAGCCAACTTTACTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAGgtaagtctatgatcaatagagcttagttcagatgtatgatgagaatcttcttgtagtagttaattgagtgttgagctattgcaattcaggag-
||||||||  |||||||||||||| || |||||||| ||||| |||||||||||||||||||| || |||| ||| |||||||| || ||||| |||||||| |   |||    | | |||||| |   |  |      |    || ||  | ||  |  |||    |  || |  ||||    |  | |   
TGATGGCCTTAAGAGAGCTCTTGTAATTGGAGGAGGAATAGCTAACTTTACTGATGTTGCTGCTACTTTTAATGGCATAATTCGCGCTTTGAAAGAGAAGgtgatcttattcctattcgagctttgcaaaattcccatgttgccattttactttaaaaaataacactgaatttatgtattattgtgtaagcag
















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|14206380|gb|BG840058.1|BG840058
EST:     CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAGGAG                       
genomic: CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAG-A--AGgtaagtctat ... aattcagg
EST: gi|57575455|gb|CX548430.1|CX548430
EST:     CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAG                         G
genomic: CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAGgtaagtctat ... aattcaggag-
EST: gi|57575455|gb|CX548430.1|CX548430
EST:     CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAG                         G
genomic: CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAGgtaagtctat ... aattcaggag-
EST: gi|57575455|gb|CX548430.1|CX548430
EST:     CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAG                         G
genomic: CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAGgtaagtctat ... aattcaggag-
EST: gi|57575455|gb|CX548430.1|CX548430
EST:     CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAG                         G
genomic: CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAGgtaagtctat ... aattcaggag-
EST: gi|13563285|gb|BG551505.1|BG551505
EST:     CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAGGAG                       
genomic: CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAG-A--AGgtaagtctat ... aattcagg
EST: gi|209697932|gb|BW670134.1|BW670134
EST:     CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAGGAG                       
genomic: CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAG-A--AGgtaagtctat ... aattcagg
EST: gi|15200604|gb|BI424435.1|BI424435
EST:     CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAGGAG                       
genomic: CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAG-A--AGgtaagtctat ... aattcagg
EST: gi|23734638|gb|BU765558.1|BU765558
EST:     CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAGGAG                       
genomic: CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAG-A--AGgtaagtctat ... aattcagg
EST: gi|207731938|gb|GD705185.1|GD705185
EST:     CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAGGAG                       
genomic: CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAG-A--AGgtaagtctat ... aattcagg
EST: gi|9564586|gb|BE474095.1|BE474095
EST:     CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAGGAG                       
genomic: CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAG-A--AGgtaagtctat ... aattcagg
EST: gi|192305538|gb|FG994304.1|FG994304
EST:     CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAGGAG                       
genomic: CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAG-A--AGgtaagtctat ... aattcagg
EST: gi|4397575|gb|AI496572.1|AI496572
EST:     CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAG                         G
genomic: CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAGgtaagtctat ... aattcaggag-
EST: gi|4397575|gb|AI496572.1|AI496572
EST:     CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAG                         G
genomic: CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAGgtaagtctat ... aattcaggag-
EST: gi|4397575|gb|AI496572.1|AI496572
EST:     CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAG                         G
genomic: CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAGgtaagtctat ... aattcaggag-
EST: gi|4397575|gb|AI496572.1|AI496572
EST:     CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAG                         G
genomic: CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAGgtaagtctat ... aattcaggag-
EST: gi|6725270|gb|AW309669.1|AW309669
EST:     CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAG                         TCGAAATTGAAAGCAGCAAGGATGCACATCTTTGTGAGGAGAGGGGGTCCC
genomic: CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAGgtaagtctat ... aattcaggagTCGAAATTGAAAGCAGCAAGGATGCACATCTTTGTGAGGAGAGGGGGTCCC
EST: gi|58016426|gb|CX703168.1|CX703168
EST:     CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAGGAG                       
genomic: CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAG-A--AGgtaagtctat ... aattcagg
EST: gi|10237746|gb|BE806634.1|BE806634
EST:     CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAGGAG                       
genomic: CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAG-A--AGgtaagtctat ... aattcagg
EST: gi|10253979|gb|BE821689.1|BE821689
EST:     CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAGGAG                       
genomic: CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAG-A--AGgtaagtctat ... aattcagg
EST: gi|209701248|gb|BW652226.1|BW652226
EST:     CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAGGAG                       
genomic: CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAG-A--AGgtaagtctat ... aattcagg
EST: gi|213610810|gb|DB974873.1|DB974873
EST:     CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAGGAG                       
genomic: CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAG-A--AGgtaagtctat ... aattcagg
EST: gi|19453151|gb|BM954561.1|BM954561
EST:     CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAG                         G
genomic: CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAGgtaagtctat ... aattcaggag-
EST: gi|19453151|gb|BM954561.1|BM954561
EST:     CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAG                         G
genomic: CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAGgtaagtctat ... aattcaggag-
EST: gi|19453151|gb|BM954561.1|BM954561
EST:     CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAG                         G
genomic: CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAGgtaagtctat ... aattcaggag-
EST: gi|19453151|gb|BM954561.1|BM954561
EST:     CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAG                         G
genomic: CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAGgtaagtctat ... aattcaggag-
EST: gi|213602664|gb|DB978107.1|DB978107
EST:     CATTTAGTGGTATAATTCGGGCATTGAAGGAGTTTGAG                         TCGAAATTGAAAGCAGCAAGGATGCACATCTTTGTGAGGAGAGGGGGTCC
genomic: CATTTAGTGGTATAATTCGGGCATTGAAGGAG---AAGgtaagtctat ... aattcaggagTCGAAATTGAAAGCAGCAAGGATGCACATCTTTGTGAGGAGAGGGGGTCC
EST: gi|6134504|gb|AW132897.1|AW132897
EST:     CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAG                         G
genomic: CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAGgtaagtctat ... aattcaggag-
EST: gi|6134504|gb|AW132897.1|AW132897
EST:     CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAG                         G
genomic: CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAGgtaagtctat ... aattcaggag-
EST: gi|6134504|gb|AW132897.1|AW132897
EST:     CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAG                         G
genomic: CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAGgtaagtctat ... aattcaggag-
EST: gi|6134504|gb|AW132897.1|AW132897
EST:     CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAG                         G
genomic: CTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAGgtaagtctat ... aattcaggag-

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGATGGCCAGAAGAGAGCTCTTGTGATAGGAGGAGGCATAGCCAACTTTACTGATGTTGCTGCCACATTTAGTGGTATAATTCGGGCATTGAAGGAGAAGgtaagtctatgatcaatagagcttagttcagatgtatgatgagaatcttcttgtagtagttaattgagtgttgagctattgcaattcaggag

- - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA