Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tggattttttattcaattatcaatttcatgaagcttctcatgttcaccacttggtaggatatagttatgatattatttttccacaaaaaatttatatcagGTCAAGGGTGAATCAAACATTTCATACATATGTTCACGTTACTATCGGGCTCCAGAACTAATATTTGGTGCAACAGAATACACAGCTTCTATTGATATCT

Basic information

species Glycine max
transcript GLYMA12G15470.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G15470.2 (Glycine max), 3'ss of exon 6
lower sequence: AT1G06390.1 (Arabidopsis thaliana), 3'ss of exon 6
----------------------------------------------------------------tggattt--tttattcaattatcaatttcatgaagcttctcatgttcaccacttggtaggatata----gttatgatattatttttccaca---aaaaattta-tatcagGTCAAGGGTGAATCAAACATTTCATACATATGTTCACGTTACTATCGGGCTCCAGAACTAATATTTGGTGCAACAGAATACACAGCTTCTATTGATATCT
                                                                 | || |  || | | |  || ||  |   ||    || |    || |   |   | || || |     ||| || ||    ||||  |        |||| | ||| ||||||| |||||| ||||||| ||||| || || || ||||| ||||| ||||||||||| || ||||| || ||||| || ||||| || || ||||| |
gtaagggtgttatcttttcattatctcaccttttttgtgtgttttcggcttggttatgtatctacgcatctagttcactgagctaccatataagtgtgagttataccattaagtgcg-agcagcatgttctctgttttggtaacccttttaaatttttggtaattcactattagGTCAAAGGTGAACCAAACATATCATATATCTGCTCCCGTTATTATCGTGCTCCAGAACTGATCTTTGGCGCCACAGAGTATACAGCATCCATAGATATAT

upper sequence: GLYMA12G15470.2 (Glycine max), 3'ss of exon 6
lower sequence: Vv12s0028g01810.t01 (Vitis vinifera), 3'ss of exon 6
tggattttttattcaattatcaatttcatgaagcttct--catgttca--ccacttggtaggatata--gttatgatattatttttccacaaaaaatttatatcagGTCAAGGGTGAATCAAACATTTCATACATATGTTCACGTTACTATCGGGCTCCAGAACTAATATTTGGTGCAACAGAATACACAGCTTCTATTGATATCT
    | ||| |    ||||         |     |||   |||||| |    |  ||||    |||   |||     || |||||| | |  |    | |  |||||||||||||||| ||||||| |||||||| ||||| || ||||| ||||| |||||||| |||||||||||||| ||||||||| | || |||||||| |
----tatttcagaacattaatgccgcagtatgttttcctgcatgtttaatttatgtggtgttctattttgtttcaccatgatttttgctctcatcgctca--tcagGTCAAGGGTGAAGCAAACATATCATACATTTGTTCTCGCTACTACCGGGCCCCAGAACTTATATTTGGTGCAACTGAATACACAACATCGATTGATATTT

upper sequence: GLYMA12G15470.2 (Glycine max), 3'ss of exon 6
lower sequence: EFJ07216 (Selaginella moellendorffii), 3'ss of exon 7
tggattttttattcaattatcaatttcatgaagcttctcatgttcaccacttggtaggatatagttatgatattatttttccacaaaaaatttatatcagGTCAAGGGTGAATCAAACATTTCATACATATGTTCACGTTACTATCGGGCTCCAGAACTAATATTTGGTGCAACAGAATACACAGCTTCTATTGATATCT
                |      || ||   ||  ||      |    | |  | ||   ||  ||  | |      ||| |     |||   | | ||||| ||||| ||  | ||||| || || || ||||| |||||||| || ||||| ||||| |||||||||||||| || |||||| |  | || || ||||
---------------gtgggtgcttacaaataggatcc-----ttggaattcagcagctgat--ttgcgtttcctgcttttcctggcaaa---acaacagGTGAAGGGAGAGCCCAACATATCGTATATCTGTTCCCGTTACTACCGTGCTCCGGAACTTATATTTGGTGCAACTGACTACACAACAGCCATCGACATCT

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|208291209|gb|GE092863.1|GE092863
EST:     CTCTTACTCACCAAGTTAAGCTATGTGATTTTGGGAGTGCCAAAGTTCTG                         GTCAAGGGTGAATCAAACATTTCATACATATGTT
genomic: CTCTTACTCACCAAGTTAAGCTATGTGATTTTGGGAGTGCCAAAGTTCTGgtatgttggt ... tttatatcagGTCAAGGGTGAATCAAACATTTCATACATATGTT
EST: gi|10237492|gb|BE806380.1|BE806380
EST:     CTCTTACTCACCAAGTTAAGCTATGTGATTTTGGGAGTGCCAAAGTTCTG                         GTCAAGGGTGAATCAAACATTTCATACATATGTTCACGTTACTATCGGGCT
genomic: CTCTTACTCACCAAGTTAAGCTATGTGATTTTGGGAGTGCCAAAGTTCTGgtatgttggt ... tttatatcagGTCAAGGGTGAATCAAACATTTCATACATATGTTCACGTTACTATCGGGCT
EST: gi|193547442|gb|FK501939.1|FK501939
EST:     CTCTTACTCACCAAGTTAAGCTATGTGATTTTGGGAGTGCCAAAGTTCTG                         GTCAAGGGTGAATCAAACATTTCATACATATGTTCACGTTACTATCGGGCT
genomic: CTCTTACTCACCAAGTTAAGCTATGTGATTTTGGGAGTGCCAAAGTTCTGgtatgttggt ... tttatatcagGTCAAGGGTGAATCAAACATTTCATACATATGTTCACGTTACTATCGGGCT
EST: gi|193519296|gb|FK473171.1|FK473171
EST:     CTCTTACTCACCAAGTTAAGCTATGTGATTTTGGGAGTGCCAAAGTTCTG                         GTCAAGGGTGAATCAAACATTTCATACATATGTTCACGTTACTATCGGGCT
genomic: CTCTTACTCACCAAGTTAAGCTATGTGATTTTGGGAGTGCCAAAGTTCTGgtatgttggt ... tttatatcagGTCAAGGGTGAATCAAACATTTCATACATATGTTCACGTTACTATCGGGCT
EST: gi|208175296|gb|GD975963.1|GD975963
EST:     CTCTTACTCACCAAGTTAAGCTATGTGATTTTGGGAGTGCCAAAGTTCTG                         GTCAAGGGTGAATCAAACATTTCATACATATGTTCACGTTACTATCGGGCT
genomic: CTCTTACTCACCAAGTTAAGCTATGTGATTTTGGGAGTGCCAAAGTTCTGgtatgttggt ... tttatatcagGTCAAGGGTGAATCAAACATTTCATACATATGTTCACGTTACTATCGGGCT
EST: gi|37994214|gb|CF805960.1|CF805960
EST:     CTCTTACTCACCAAGTTAAGCTATGTGATTNTGGGAGTGCCANAGTTCTG                         GTCAAGGGTGAATCAAACATTTCATACATAT
genomic: CTCTTACTCACCAAGTTAAGCTATGTGATTTTGGGAGTGCCAAAGTTCTGgtatgttggt ... tttatatcagGTCAAGGGTGAATCAAACATTTCATACATAT
EST: gi|192301989|gb|FG995159.1|FG995159
EST:     CTCTTACTCACCAAGTTAAGCTATGTGATTTTGGGAGTGCCAAAGTTCTG                         GTCAAGGGTGAATCAAACATTTCATACATATGTTCACGCTACTATCGGGCT
genomic: CTCTTACTCACCAAGTTAAGCTATGTGATTTTGGGAGTGCCAAAGTTCTGgtatgttggt ... tttatatcagGTCAAGGGTGAATCAAACATTTCATACATATGTTCACGTTACTATCGGGCT
EST: gi|193431643|gb|FK395149.1|FK395149
EST:     CTCTTACTCACCAAGTTAAGCTATGTGATTTTGGGAGTGCCAAAGTTCTG                         GTCAAGGGTGAATCAAACATTTCATACATATGTTCACGTTACTATCGGGCT
genomic: CTCTTACTCACCAAGTTAAGCTATGTGATTTTGGGAGTGCCAAAGTTCTGgtatgttggt ... tttatatcagGTCAAGGGTGAATCAAACATTTCATACATATGTTCACGTTACTATCGGGCT
EST: gi|193309170|gb|FK273990.1|FK273990
EST:     CTCTTACTCACCAAGTTAAGCTATGTGATTTTGGGAGTGCCAAAGTTCTG                         GTCAAGGGTGAATCAAA
genomic: CTCTTACTCACCAAGTTAAGCTATGTGATTTTGGGAGTGCCAAAGTTCTGgtatgttggt ... tttatatcagGTCAAGGGTGAATCAAA
EST: gi|193514122|gb|FK466980.1|FK466980
EST:     CTCTTACTCACCAAGTTAAGCTATGTGATTTTGGGAGTGCCAAAGTTCTG                         GTCAAGGGTGAATCAAACATTTCATACATATGTTCACGTTACTATCGGGCT
genomic: CTCTTACTCACCAAGTTAAGCTATGTGATTTTGGGAGTGCCAAAGTTCTGgtatgttggt ... tttatatcagGTCAAGGGTGAATCAAACATTTCATACATATGTTCACGTTACTATCGGGCT
EST: gi|208039137|gb|GD834645.1|GD834645
EST:     CTCTTACTCACCAAGTTAAGCTATGTGATTTTGGGAGTGCCAAAGTTCTG                         GTCAAGGGTGAATCAAACATTTCATACATATGTTCACGTTACTATCGGGCT
genomic: CTCTTACTCACCAAGTTAAGCTATGTGATTTTGGGAGTGCCAAAGTTCTGgtatgttggt ... tttatatcagGTCAAGGGTGAATCAAACATTTCATACATATGTTCACGTTACTATCGGGCT
EST: gi|193345633|gb|FK313744.1|FK313744
EST:     CTCTTACTCACCAAGTTAAGCTATGTGATTTTGGGAGTGCCAAAGTTCTG                         GTCAAGGGTGAATCAAACATTTCATACATATGTTCACGTTACTATCGGGCT
genomic: CTCTTACTCACCAAGTTAAGCTATGTGATTTTGGGAGTGCCAAAGTTCTGgtatgttggt ... tttatatcagGTCAAGGGTGAATCAAACATTTCATACATATGTTCACGTTACTATCGGGCT
EST: gi|22525206|gb|BU084017.1|BU084017
EST:     CTCTTACTCACCAAGTTAAGCTATGTGATTTTGGGAGTGCCAAAGTTCTG                         GTCAAGGGTGAATCAAACATTTCATACATATGTTCACGTTTCTATCGGGCT
genomic: CTCTTACTCACCAAGTTAAGCTATGTGATTTTGGGAGTGCCAAAGTTCTGgtatgttggt ... tttatatcagGTCAAGGGTGAATCAAACATTTCATACATATGTTCACGTTACTATCGGGCT
EST: gi|208072046|gb|GD871504.1|GD871504
EST:     CTCTTACTCACCAAGTTAAGCTATGTGATTTTGGGAGTGCCAAAGTTCTG                         GTCAAGGGTGAATCAAACATTTCATACATATGTTCACGTTACTATCGGGCT
genomic: CTCTTACTCACCAAGTTAAGCTATGTGATTTTGGGAGTGCCAAAGTTCTGgtatgttggt ... tttatatcagGTCAAGGGTGAATCAAACATTTCATACATATGTTCACGTTACTATCGGGCT
EST: gi|208294438|gb|GE091681.1|GE091681
EST:     CTCTTACTCACCAAGTTAAGCTATGTGATTTTGGGAGTGCCAAAGTTCTG                         GTCAAGGGTGAATCAAACATTTCATACATATGTTCACGTTACTATCGGGCT
genomic: CTCTTACTCACCAAGTTAAGCTATGTGATTTTGGGAGTGCCAAAGTTCTGgtatgttggt ... tttatatcagGTCAAGGGTGAATCAAACATTTCATACATATGTTCACGTTACTATCGGGCT
EST: gi|254341725|gb|GR852862.1|GR852862
EST:     CTCTTACTCACCAAGTTAAGCTATGTGATTTTGGGAGTGCCAAAGTTCTG                         GTCAAGGGTGAATCAAACATTTCATACATATGTTCACGTTACTATCGGGCT
genomic: CTCTTACTCACCAAGTTAAGCTATGTGATTTTGGGAGTGCCAAAGTTCTGgtatgttggt ... tttatatcagGTCAAGGGTGAATCAAACATTTCATACATATGTTCACGTTACTATCGGGCT
EST: gi|19935688|gb|BQ080542.1|BQ080542
EST:     CTCTTACTCACCAAGTTAAGCTATGTGATTTTGGGAGTGCCAAAGTTCTG                         GTCAAGGGTGAATCAAACATTTCATACATATGTTCACGTTACTATCGGGCT
genomic: CTCTTACTCACCAAGTTAAGCTATGTGATTTTGGGAGTGCCAAAGTTCTGgtatgttggt ... tttatatcagGTCAAGGGTGAATCAAACATTTCATACATATGTTCACGTTACTATCGGGCT
EST: gi|193588938|gb|FK540980.1|FK540980
EST:     CTCTTACTCACCAAGTTAAGCTATGTGATTTTGGGAGTGCCAAAGTTCTG                         GTCAAGGGTGAATCAAACATTTCATACATATGTTCACGTTACTATCGGGCT
genomic: CTCTTACTCACCAAGTTAAGCTATGTGATTTTGGGAGTGCCAAAGTTCTGgtatgttggt ... tttatatcagGTCAAGGGTGAATCAAACATTTCATACATATGTTCACGTTACTATCGGGCT
EST: gi|208096558|gb|GD892867.1|GD892867
EST:     AGTGCCAAAGTTCTG                         GTCAAGGGTGAATCAAACATTTCATACATATGTTCACGTTACTATCGGGCT
genomic: AGTGCCAAAGTTCTGgtatgttggt ... tttatatcagGTCAAGGGTGAATCAAACATTTCATACATATGTTCACGTTACTATCGGGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

accacttggtaggatatagttatgatattatttttccacaaaaaatttatatcagGTCAAGGGTGAATCAAACATTTCATACATATGTTCACGTTACTATCGGGCTCCAGAACTAATATTTGGTGCAACAGAATACACAGCTTCTATTGATATCT
             atatagttatgatatt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tggattttttattcaattatcaatttcatgaagcttctcatgttcaccacttggtaggatatagttatgatattatttttccacaaaaaatttatatcagGTCAAGGGTGAATCAAACATTTCATACATATGTTCACGTTACTATCGGGCTCCAGAACTAATATTTGGTGCAACAGAATACACAGCTTCTATTGATATCT

- - - - - - - - - - - - ttcatga
- - - - - - - - - - - - - - - - gcttctc
- - - - - - - - - - - - - - - - - - - - - -tcaccac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acaaaaa