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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAGCTGTTGCGAGAAGATGATTTCTATAGGATTAGACTGCCGTCCAATGTTTTGAGTCCTCCCGGCCGGGAATATATTATTTCTTCAGTGAAAGCagtaagtatgaatatgaatcaagttgttgtccattggatagtatgaaatatgaataaaaagttgatgttcctttctcactcctactatggtttttagtag...

Basic information

species Glycine max
transcript GLYMA18G47920.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G47920.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv04s0023g00820.t01 (Vitis vinifera), 5'ss of exon 4
GGAGCTGTTGCGAGAAGATGATTTCTATAGGATTAGACTGCCGTCCAATGTTTTGAGTCCTCCCGGCCGGGAATATATTATTTCTTCAGTGAAAGCagtaagtatgaatatgaatcaagt-----tgttgtcca--ttggatagtatgaaatatgaat--aaaaagttgatgttcctttctcactcctactatggtttttagtag
  ||||||| | ||  ||||| ||||||||||| ||| | || ||||||||| |||||||||| ||  |||| || ||||||||| | |||||||| |||||| ||    | || ||  |     | ||  |||  |   |  |  | ||| |  |||  | ||||||  | ||  |||||| ||  ||     |||  | ||  
-AAGCTGTTACAAGGTGATGACTTCTATAGGATAAGATTACCATCCAATGTTGTGAGTCCTCCTGGGAGGGAGTACATTATTTCTGCCGTGAAAGCTgtaagt-tggcagtcaaccacataactatatttcccaaatgcaactgcttaaaaaacaaattcacaaagttactattgttttctccctttta-----gttccttgt--
















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|254345763|gb|GR859410.1|GR859410
EST:     AATGTTTTGAGTCCTCCCGGCCGGGAATATATTA-TTCTTCAGTGAAAGC                         ACGATGTCTTCCAGGGGATGGATTGGAGGAGCATTTTGTAATACAAAT
genomic: AATGTTTTGAGTCCTCCCGGCCGGGAATATATTATTTCTTCAGTGAAAGCagtaagtatg ... tccgaatccaGCGATGTCTTCCAGGGGATGGATTGGAGGAGCATTTTGTAATACAAAT
EST: gi|207751867|gb|GD724084.1|GD724084
EST:     CGGCCGGGAATATATTATTTCTTCAGTGAAAGC                         ACGATGTCTTCCAGGGGATGGATTGGAGGAGCATTTTGTAATACAAAT
genomic: CGGCCGGGAATATATTATTTCTTCAGTGAAAGCagtaagtatg ... tccgaatccaGCGATGTCTTCCAGGGGATGGATTGGAGGAGCATTTTGTAATACAAAT
EST: gi|207753550|gb|GD725976.1|GD725976
EST:     TATTATTTCTTCAGTTGTAAAGC                         ACGATGTCTTCCAGGGGATGGATTGGAGGAGCATTTTGTAATANAAAT
genomic: TATTATTTCTTCAG-TG-AAAGCagtaagtatg ... tccgaatccaGCGATGTCTTCCAGGGGATGGATTGGAGGAGCATTTTGTAATACAAAT
EST: gi|193333542|gb|FK299488.1|FK299488
EST:     CGGCCGGGAATATGTTTATTTCTTCAGTGAAAGC                         ACGATGTCTTCCAGGGGATGGATTGGAGGAGCATTTTGTAATACAAAT
genomic: CGGCCGGGAATAT-ATTATTTCTTCAGTGAAAGCagtaagtatg ... tccgaatccaGCGATGTCTTCCAGGGGATGGATTGGAGGAGCATTTTGTAATACAAAT
EST: gi|208309007|gb|GE101679.1|GE101679
EST:     CGGCCGGGAATATATTATTTCTTCAGTGAAAGC                         ACGATGTCTTCCAGGGGATGGATTGGAGGAGCATTTTGTAATACAAAT
genomic: CGGCCGGGAATATATTATTTCTTCAGTGAAAGCagtaagtatg ... tccgaatccaGCGATGTCTTCCAGGGGATGGATTGGAGGAGCATTTTGTAATACAAAT
EST: gi|208085854|gb|GD882444.1|GD882444
EST:     CTCCCGGCCGGGAATATATTATTTCTTCAGTGAAAGC                         ACGATGTCTTCCAGGGGATGGATTGGAGGAGCATTTTGTAATACAAAT
genomic: CTCCCGGCCGGGAATATATTATTTCTTCAGTGAAAGCagtaagtatg ... tccgaatccaGCGATGTCTTCCAGGGGATGGATTGGAGGAGCATTTTGTAATACAAAT
EST: gi|192325685|gb|FK015042.1|FK015042
EST:     AATGTTTTGAGTCCTCCCGGCCGGGAATATATTATTTCTTCAGTGAAAGC                         ACGATGTCTTCCAGGGGATGGATTGGAGGAGCATTTTGTAATACAAAT
genomic: AATGTTTTGAGTCCTCCCGGCCGGGAATATATTATTTCTTCAGTGAAAGCagtaagtatg ... tccgaatccaGCGATGTCTTCCAGGGGATGGATTGGAGGAGCATTTTGTAATACAAAT
EST: gi|207766656|gb|GD738284.1|GD738284
EST:     AATATATTATTTCTTCAGTGAAAGC                         ACGATGTCTTCCAGGGGATGGATTGGAGGAGCATTTTGTAATACAAAT
genomic: AATATATTATTTCTTCAGTGAAAGCagtaagtatg ... tccgaatccaGCGATGTCTTCCAGGGGATGGATTGGAGGAGCATTTTGTAATACAAAT
EST: gi|208290698|gb|GE082790.1|GE082790
EST:     CGGCCGGGAATATATTATTTCTTCAGTGAAAGC                         ACGATGTCTTCCAGGGGATGGATTGGAGGAGCATTTTGTAATACAAAT
genomic: CGGCCGGGAATATATTATTTCTTCAGTGAAAGCagtaagtatg ... tccgaatccaGCGATGTCTTCCAGGGGATGGATTGGAGGAGCATTTTGTAATACAAAT
EST: gi|208145882|gb|GD941407.1|GD941407
EST:     CGGCCGGGAATATATTATTTCTTCAGTGAAAGC                         ACGATGTCTTCCAGGGGATGGATTGGAGGAGCATTTTGTAATACAAAT
genomic: CGGCCGGGAATATATTATTTCTTCAGTGAAAGCagtaagtatg ... tccgaatccaGCGATGTCTTCCAGGGGATGGATTGGAGGAGCATTTTGTAATACAAAT
EST: gi|193365819|gb|FK333264.1|FK333264
EST:     AATGTTTTGAGTCCTCCCGGCCGGGAATATATTATTTCTTCAGTGAAAGC                         ACGATGTCTTCCAGGGGATGGATTGGA
genomic: AATGTTTTGAGTCCTCCCGGCCGGGAATATATTATTTCTTCAGTGAAAGCagtaagtatg ... tccgaatccaGCGATGTCTTCCAGGGGATGGATTGGA
EST: gi|254331914|gb|GR843657.1|GR843657
EST:     AATGTTTTGAGTCCTCCCGGCCGGGAATATATTATTTCTTCAGTGAAAGC                         ACGATGTCTTCCAGGG-ATGGATTGGAGGAGCATTTTGTAATACAAAT
genomic: AATGTTTTGAGTCCTCCCGGCCGGGAATATATTATTTCTTCAGTGAAAGCagtaagtatg ... tccgaatccaGCGATGTCTTCCAGGGGATGGATTGGAGGAGCATTTTGTAATACAAAT
EST: gi|193427480|gb|FK393520.1|FK393520
EST:     AATGTTTTGAGTCCTCCCGGCCGGGAATATATTATTTCTTCAGTGAAAGC                         ACGATGTCTTCCAGGGGATGGATTGGAGGAGCA-TTTGTAATACAAAT
genomic: AATGTTTTGAGTCCTCCCGGCCGGGAATATATTATTTCTTCAGTGAAAGCagtaagtatg ... tccgaatccaGCGATGTCTTCCAGGGGATGGATTGGAGGAGCATTTTGTAATACAAAT
EST: gi|208134798|gb|GD927467.1|GD927467
EST:     CGGCCGGGAATATATTATTTCTTCAGTGAAAGC                         ACGATGTCTTCCAGGGGATGGATTGGAGGAGCATTTTGTAATACAAAT
genomic: CGGCCGGGAATATATTATTTCTTCAGTGAAAGCagtaagtatg ... tccgaatccaGCGATGTCTTCCAGGGGATGGATTGGAGGAGCATTTTGTAATACAAAT
EST: gi|193356816|gb|FK319564.1|FK319564
EST:     CGGCCGGGAATATATTTATTTTCTTCAGTGAAAGC                         ACGATGTCTTCCAGGGGATGGATTGGAGGAGCATTTTGTAATACAAAT
genomic: CGGCCGGGAATATA-TTA-TTTCTTCAGTGAAAGCagtaagtatg ... tccgaatccaGCGATGTCTTCCAGGGGATGGATTGGAGGAGCATTTTGTAATACAAAT
EST: gi|208124293|gb|GD920505.1|GD920505
EST:     GGGAATATATTATTTCTTCAGTGAAAGC                         ACGATGTCTTCCAGGGGATGGATTGGAGGAGCATTTTGTAATACAAAT
genomic: GGGAATATATTATTTCTTCAGTGAAAGCagtaagtatg ... tccgaatccaGCGATGTCTTCCAGGGGATGGATTGGAGGAGCATTTTGTAATACAAAT
EST: gi|207700941|gb|GD682830.1|GD682830
EST:     AATATATTATTTCTTCAGTGAAAGC                         ACGATGTCTTCCAGGGGATGGATTGGAGGAGCATTTTGTAATACAAAT
genomic: AATATATTATTTCTTCAGTGAAAGCagtaagtatg ... tccgaatccaGCGATGTCTTCCAGGGGATGGATTGGAGGAGCATTTTGTAATACAAAT
EST: gi|208080432|gb|GD878972.1|GD878972
EST:     AATATATTATTTCTTCCGTGAAAGC                         ACGATGTCTTCCAGGGGATGGATTGGAGGAGCATTTTGTAATACAAAT
genomic: AATATATTATTTCTTCAGTGAAAGCagtaagtatg ... tccgaatccaGCGATGTCTTCCAGGGGATGGATTGGAGGAGCATTTTGTAATACAAAT
EST: gi|193325826|gb|FK290265.1|FK290265
EST:     AATGTTTTGAGTCCTCCCGGCCGGGAATATATTATTTCTTCAGTGAAAGC                         ACGATGTCTTCCAGGGGATGGATTGGAGGAGCATTTTGTAATACAAAT
genomic: AATGTTTTGAGTCCTCCCGGCCGGGAATATATTATTTCTTCAGTGAAAGCagtaagtatg ... tccgaatccaGCGATGTCTTCCAGGGGATGGATTGGAGGAGCATTTTGTAATACAAAT
EST: gi|254345762|gb|GR859409.1|GR859409
EST:     AATGTTTTGAGTCCTCCCGGCCGGGAATATATTATTTCTTCAGTGAAAGC                         ACGATGTCTTCCAGGGGATGGATTGGAGGAGCATTTTGTAATACAAAT
genomic: AATGTTTTGAGTCCTCCCGGCCGGGAATATATTATTTCTTCAGTGAAAGCagtaagtatg ... tccgaatccaGCGATGTCTTCCAGGGGATGGATTGGAGGAGCATTTTGTAATACAAAT
EST: gi|193679248|gb|FK619710.1|FK619710
EST:     CGGCCGGGAATATATTTATTTCTTTCAGTGAAAGC                         ACGATGTCTTCCAGGGGATGGATTGGAGGAGCATTTTGTAATACAAAT
genomic: CGGCCGGGAATATA-TTATTTC-TTCAGTGAAAGCagtaagtatg ... tccgaatccaGCGATGTCTTCCAGGGGATGGATTGGAGGAGCATTTTGTAATACAAAT
EST: gi|207740907|gb|GD715853.1|GD715853
EST:     CGGCCGGGAATATATTATTTCTTCAGTGAAAGC                         ACGATGTCTTCCAGGGGATGGATTGGAGGAGCATTTTGTAATACAAAT
genomic: CGGCCGGGAATATATTATTTCTTCAGTGAAAGCagtaagtatg ... tccgaatccaGCGATGTCTTCCAGGGGATGGATTGGAGGAGCATTTTGTAATACAAAT
EST: gi|208035516|gb|GD837680.1|GD837680
EST:     CGGCCGGGAATATATTATTTCTTCAGTGAAAGC                         ACGATGTCTTCCAGGGGATGGATTGGAGGAGCATTTTGTAATACAAAT
genomic: CGGCCGGGAATATATTATTTCTTCAGTGAAAGCagtaagtatg ... tccgaatccaGCGATGTCTTCCAGGGGATGGATTGGAGGAGCATTTTGTAATACAAAT
EST: gi|208218438|gb|GE017506.1|GE017506
EST:     TTTCTTCAGTGAAAGC                         ACGATGTCTTCCAGGGGATGGATTGGAGGAGCATTTTGTAATACAAAT
genomic: TTTCTTCAGTGAAAGCagtaagtatg ... tccgaatccaGCGATGTCTTCCAGGGGATGGATTGGAGGAGCATTTTGTAATACAAAT
EST: gi|207790915|gb|GD760484.1|GD760484
EST:     CGGCCGGGAATATATTATTTCTTCAGTGAAAGC                         ACGATGTCTTCCAGGGGATGGATTGGAGGAGCATTTTGTAATACAAAT
genomic: CGGCCGGGAATATATTATTTCTTCAGTGAAAGCagtaagtatg ... tccgaatccaGCGATGTCTTCCAGGGGATGGATTGGAGGAGCATTTTGTAATACAAAT
EST: gi|192299870|gb|FG987828.1|FG987828
EST:     AATGTTTTGAGTCCTCCCGGCCGGGAATATATTATTTCTTCAGTGAAAGC                         ACGATGTCTTCCAGGGGATGGATTGGAGGAGCATTTTGTAATACAAAT
genomic: AATGTTTTGAGTCCTCCCGGCCGGGAATATATTATTTCTTCAGTGAAAGCagtaagtatg ... tccgaatccaGCGATGTCTTCCAGGGGATGGATTGGAGGAGCATTTTGTAATACAAAT
EST: gi|207727158|gb|GD704328.1|GD704328
EST:     TCAGTGAAAGC                         ACGATGTCTTCCAGGGGATGGATTGGAGGAGCATTTTGTAATACAAAT
genomic: TCAGTGAAAGCagtaagtatg ... tccgaatccaGCGATGTCTTCCAGGGGATGGATTGGAGGAGCATTTTGTAATACAAAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGAGCTGTTGCGAGAAGATGATTTCTATAGGATTAGACTGCCGTCCAATGTTTTGAGTCCTCCCGGCCGGGAATATATTATTTCTTCAGTGAAAGCagtaagtatgaatatgaatcaagttgttgtccattggatagtatgaaatatgaataaaaagttgatgttcctttctcactcctactatggtttttagtag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aataaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tctcactc