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

...tttgtgaaattgtatatgattatttgtattgaagctctttgattgaatgattgacctagtgtcggcaataaataacgactattgaattccatgaaactagGGCGCTGAATTGATGAGCAAACACGGAGTTAATGTTCCGAGAGGCGTGGCTGTTTCCTCTGTTGAAGAGGTCAGAAAGGCCATCAAGGACCTTTTCCCTA

Basic information

species Glycine max
transcript GLYMA13G18730.1
intron # 1
splice site 3'
intron type U2

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|213604491|gb|DB970639.1|DB970639
EST:     GAAAATGGCAGCACAACCAACTCCGCCGCCTCAACATCCACGAGTACCAG                         GGCGCTGAATTGATGAGCAAACACGGAGTTAATGTTCCGAGAGGCGTGGCT
genomic: GAAAATGGCAGCACAACCAACTCCGCCGCCTCAACATCCACGAGTACCAGgtctctgtct ... atgaaactagGGCGCTGAATTGATGAGCAAACACGGAGTTAATGTTCCGAGAGGCGTGGCT
EST: gi|207821460|gb|GD790609.1|GD790609
EST:     GAAAATGGCAGCACAACCAACTCCGCCGCCTCAACATCCACGAGTACCAG                         GGCGCTGAATTGATGAGCAAACACGGAGTTAATGTTCCGAGAGGCGTGGCT
genomic: GAAAATGGCAGCACAACCAACTCCGCCGCCTCAACATCCACGAGTACCAGgtctctgtct ... atgaaactagGGCGCTGAATTGATGAGCAAACACGGAGTTAATGTTCCGAGAGGCGTGGCT
EST: gi|193680795|gb|FK621215.1|FK621215
EST:     GAAAATGGCAGCACAACCAACTCCGCCGCCTCAACATCCACGAGTACCAG                         GGCGCTGAATTGA
genomic: GAAAATGGCAGCACAACCAACTCCGCCGCCTCAACATCCACGAGTACCAGgtctctgtct ... atgaaactagGGCGCTGAATTGA
EST: gi|208031111|gb|GD827539.1|GD827539
EST:     GAAAATGGCAGCACAACCAACTCCGCCGCCTCAACATCCACGAGTACCAG                         GGCGCTGAATTGATGAGCAAACACGGAGTTAATGTTCCGAGAGGCGTGGCT
genomic: GAAAATGGCAGCACAACCAACTCCGCCGCCTCAACATCCACGAGTACCAGgtctctgtct ... atgaaactagGGCGCTGAATTGATGAGCAAACACGGAGTTAATGTTCCGAGAGGCGTGGCT
EST: gi|213618122|gb|DB965279.1|DB965279
EST:     GAAAATGGCAGCACAACCAACTCCGCCGCCTCAACATCCACGAGTACCAG                         GGCGCTGAATTGATGAGCAAACACGGAGTTAATGTTCCGAGAGGCGTGGCT
genomic: GAAAATGGCAGCACAACCAACTCCGCCGCCTCAACATCCACGAGTACCAGgtctctgtct ... atgaaactagGGCGCTGAATTGATGAGCAAACACGGAGTTAATGTTCCGAGAGGCGTGGCT
EST: gi|209716489|gb|BW676939.1|BW676939
EST:     GAAAATGGCAGCACAACCAACTCCGCCGCCTCAACATCCACGAGTACCAG                         GGCGCTGAATTGATGAGCAAACACGGAGTTAATGTTCCGAGAGGCGTGGCT
genomic: GAAAATGGCAGCACAACCAACTCCGCCGCCTCAACATCCACGAGTACCAGgtctctgtct ... atgaaactagGGCGCTGAATTGATGAGCAAACACGGAGTTAATGTTCCGAGAGGCGTGGCT
EST: gi|298184933|gb|HO030146.1|HO030146
EST:     GAAAATGGCAGCACAACCAACTCCGCCGCCTCAACATCCACGAGTACCAG                         GGCGCTGAATTGATGAGCAAACACGGAGTTAATGTTCCGAGAGGCGTGGCT
genomic: GAAAATGGCAGCACAACCAACTCCGCCGCCTCAACATCCACGAGTACCAGgtctctgtct ... atgaaactagGGCGCTGAATTGATGAGCAAACACGGAGTTAATGTTCCGAGAGGCGTGGCT
EST: gi|298188285|gb|HO034978.1|HO034978
EST:     GAAAATGGCAGCACAACCAACTCCGCCGCCTCAACATCCACGAGTACCAG                         GGCGCTGAATTGATGAGCAAACACGGAGTTAATGTTCCGAGAGGCGTGGCT
genomic: GAAAATGGCAGCACAACCAACTCCGCCGCCTCAACATCCACGAGTACCAGgtctctgtct ... atgaaactagGGCGCTGAATTGATGAGCAAACACGGAGTTAATGTTCCGAGAGGCGTGGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatgattgacctagtgtcggcaataaataacgactattgaattccatgaaactagGGCGCTGAATTGATGAGCAAACACGGAGTTAATGTTCCGAGAGGCGTGGCTGTTTCCTCTGTTGAAGAGGTCAGAAAGGCCATCAAGGACCTTTTCCCTA
                        aaataac  putative branch site (score: 2)
                     aataaataa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttgtgaaattgtatatgattatttgtattgaagctctttgattgaatgattgacctagtgtcggcaataaataacgactattgaattccatgaaactagGGCGCTGAATTGATGAGCAAACACGGAGTTAATGTTCCGAGAGGCGTGGCTGTTTCCTCTGTTGAAGAGGTCAGAAAGGCCATCAAGGACCTTTTCCCTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - -tgaatga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtcggc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ataaataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgaattc