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'   		12  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgttttttttttcaaacgttatcacttgatttactgtgcctagaaaattattttagattttgagcttgattgtcagtctgatagtttggatttcggatagGCCCGTTCGTGCAGCAGCAGCAGCAGGGTACCTGCCAGTGCCAGATTTGCAAGTTCCGTTGCCACGCAACAATCCTCTTCTTCTGGTTTGGGTGGTTTAT

Basic information

species Glycine max
transcript GLYMA05G36040.1
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|213619606|gb|DB957424.1|DB957424
EST:     AACCGGCAGCCATGTACAGAAACGCTGCTTCACGTCTTAGGGCCATCAAG                         GCCCGTTCGTGCAGCAGCAGCAGCAGGGTACCTGCCAGTGCCAGATTTGCA
genomic: AACCGGCAGCCATGTACAGAAACGCTGCTTCACGTCTTAGGGCCATCAAGgttactatct ... tttcggatagGCCCGTTCGTGCAGCAGCAGCAGCAGGGTACCTGCCAGTGCCAGATTTGCA
EST: gi|213593058|gb|DB966051.1|DB966051
EST:     AACCGGCAGCCATGTACAGAAACGCTGCTTCACGTCTTAGGGCCATCAAG                         GCCCGTTCGTGCAGCAGCAGCAGCAGGGTACCTGCCAGTGCCAGATTTGCA
genomic: AACCGGCAGCCATGTACAGAAACGCTGCTTCACGTCTTAGGGCCATCAAGgttactatct ... tttcggatagGCCCGTTCGTGCAGCAGCAGCAGCAGGGTACCTGCCAGTGCCAGATTTGCA
EST: gi|209716254|gb|BW657557.1|BW657557
EST:     AACCGGCAGCCATGTACAGAAACGCTGCTTCACGTCTTAGGGCCATCAAG                         GCCCGTTCGTGCAGCAGCAGCAGCAGGGTACCTGCCAGTGCCAGATTTGCA
genomic: AACCGGCAGCCATGTACAGAAACGCTGCTTCACGTCTTAGGGCCATCAAGgttactatct ... tttcggatagGCCCGTTCGTGCAGCAGCAGCAGCAGGGTACCTGCCAGTGCCAGATTTGCA
EST: gi|10237483|gb|BE806371.1|BE806371
EST:     AACCGGCAGCCATGTACAGAAACGCTGCTTCACGTCTTAGGGCCATCAAG                         GCCCGTTCGTGCAGCAGCAGCAGCAGGGTACCTGCCAGTGCCAGATTTGCA
genomic: AACCGGCAGCCATGTACAGAAACGCTGCTTCACGTCTTAGGGCCATCAAGgttactatct ... tttcggatagGCCCGTTCGTGCAGCAGCAGCAGCAGGGTACCTGCCAGTGCCAGATTTGCA
EST: gi|213589265|gb|DB957797.1|DB957797
EST:     AACCGGCAGCCATGTACAGAAACGCTGCTTCACGTCTTAGGGCCATCAAG                         GCCCGTTCGTGCAGCAGCAGCAGCAGGGTACCTGCCAGTGCCAGATTTGCA
genomic: AACCGGCAGCCATGTACAGAAACGCTGCTTCACGTCTTAGGGCCATCAAGgttactatct ... tttcggatagGCCCGTTCGTGCAGCAGCAGCAGCAGGGTACCTGCCAGTGCCAGATTTGCA
EST: gi|213594234|gb|DB966135.1|DB966135
EST:     AACCGGCAGCCATGTACAGAAACGCTGCTTCACGTCTTAGGGCCATCAAG                         GCCCGTTCGTGCAGCAGCAGCAGCAGGGTACCTGCCAGTGCCAGATTTGCA
genomic: AACCGGCAGCCATGTACAGAAACGCTGCTTCACGTCTTAGGGCCATCAAGgttactatct ... tttcggatagGCCCGTTCGTGCAGCAGCAGCAGCAGGGTACCTGCCAGTGCCAGATTTGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattattttagattttgagcttgattgtcagtctgatagtttggatttcggatagGCCCGTTCGTGCAGCAGCAGCAGCAGGGTACCTGCCAGTGCCAGATTTGCAAGTTCCGTTGCCACGCAACAATCCTCTTCTTCTGGTTTGGGTGGTTTAT
                              gtctgat  putative branch site (score: 4)
     ttttagatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgttttttttttcaaacgttatcacttgatttactgtgcctagaaaattattttagattttgagcttgattgtcagtctgatagtttggatttcggatagGCCCGTTCGTGCAGCAGCAGCAGCAGGGTACCTGCCAGTGCCAGATTTGCAAGTTCCGTTGCCACGCAACAATCCTCTTCTTCTGGTTTGGGTGGTTTAT

- - - - - - - - - - - cacttga
- - - - - - - - - - - - - - - - actgtgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gagcttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgatag