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

gtaactgggaccataactgctaaatttatatttgcatgatgtcatttgaagtttaattgttgctttgctttgtcaccatcatggtggaaagagaaaaaatgatccttttttcccaatacatctatctttgattcttaaattttcggacttaaaatgcagGTTAGGCAAGGATTTTCCATCTAATACGAATCCTGAGATTTTCCGCTGTGCGGTTTGCCAAGCAGATCAGCCCTCTGTGGACAGTTTATCAATGAACACT

Basic information

species Glycine max
transcript GLYMA20G38270.1
intron # 7
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|19269499|gb|BM885755.1|BM885755
EST:     GGTGTTGTGGAGGAATTATTTGAAGAGGGTTCTGCAATGCTTACAGAGAG                         GTTAGGCAAGGATTTTCCATCTAATACGAATCCTGAGATTTTCCGCTGTGC
genomic: GGTGTTGTGGAGGAATTATTTGAAGAGGGTTCTGCAATGCTTACAGAGAGgtaactggga ... taaaatgcagGTTAGGCAAGGATTTTCCATCTAATACGAATCCTGAGATTTTCCGCTGTGC
EST: gi|10234774|gb|BE803662.1|BE803662
EST:     GGTGTTGTGGAGGAATTATTTGAAGAGGGTTCTGCCATGCTTACAGAGAG                         GTTAAGCAAGGATTTTCCATCTAATACGAATCCTGAGATTTTCCGCTTTGC
genomic: GGTGTTGTGGAGGAATTATTTGAAGAGGGTTCTGCAATGCTTACAGAGAGgtaactggga ... taaaatgcagGTTAGGCAAGGATTTTCCATCTAATACGAATCCTGAGATTTTCCGCTGTGC
EST: gi|151400269|gb|EV270083.1|EV270083
EST:     GGTGTTGTGGAGGAATTATTTGAAGAGGGTTCTGCAATGCTTACAGAGAG                         GTTAGGCAAGGATTTTCCATCTAATACGAATCCTGAGATTTTCCGCTGTGC
genomic: GGTGTTGTGGAGGAATTATTTGAAGAGGGTTCTGCAATGCTTACAGAGAGgtaactggga ... taaaatgcagGTTAGGCAAGGATTTTCCATCTAATACGAATCCTGAGATTTTCCGCTGTGC
EST: gi|22522410|gb|BU081221.1|BU081221
EST:     GGTGTTGTGGAGGAATTATTTGAAGAGGGTTCTGCAATGCTTACAGAGAG                         GTTAGGCAAGGATTTTCCATCTAATACGAATCCTGAGATTTTCCGCTGTGC
genomic: GGTGTTGTGGAGGAATTATTTGAAGAGGGTTCTGCAATGCTTACAGAGAGgtaactggga ... taaaatgcagGTTAGGCAAGGATTTTCCATCTAATACGAATCCTGAGATTTTCCGCTGTGC
EST: gi|18733866|gb|BM527857.1|BM527857
EST:     GGTGTTGTGGAGGAATTATTTGAAGAGGGTTCTGCAATGCTTACAGAGAG                         GTTAGGCAAGGATTTTCCATCTAATACGAATCCTGAGATTTTCCGCTGTGC
genomic: GGTGTTGTGGAGGAATTATTTGAAGAGGGTTCTGCAATGCTTACAGAGAGgtaactggga ... taaaatgcagGTTAGGCAAGGATTTTCCATCTAATACGAATCCTGAGATTTTCCGCTGTGC
EST: gi|13791007|gb|BG653598.1|BG653598
EST:     GGTGTTGTGGAGGAATTATTTGAAGAGGGTTCTGCAATGCTTACAGAGAG                         GTTAGGCAAGGATTTTCCATCTAATACGAATCCTGAGATTTTCCGCTGTGC
genomic: GGTGTTGTGGAGGAATTATTTGAAGAGGGTTCTGCAATGCTTACAGAGAGgtaactggga ... taaaatgcagGTTAGGCAAGGATTTTCCATCTAATACGAATCCTGAGATTTTCCGCTGTGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttttttcccaatacatctatctttgattcttaaattttcggacttaaaatgcagGTTAGGCAAGGATTTTCCATCTAATACGAATCCTGAGATTTTCCGCTGTGCGGTTTGCCAAGCAGATCAGCCCTCTGTGGACAGTTTATCAATGAACACT
                     ctttgat  putative branch site (score: 5)
                  tatctttgattcttaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaactgggaccataactgctaaatttatatttgcatgatgtcatttgaagtttaattgttgctttgctttgtcaccatcatggtggaaagagaaaaaatgatccttttttcccaatacatctatctttgattcttaaattttcggacttaaaatgcagGTTAGGCAAGGATTTTCCATCTAATACGAATCCTGAGATTTTCCGCTGTGCGGTTTGCCAAGCAGATCAGCCCTCTGTGGACAGTTTATCAATGAACACT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA