Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttcttgactgcattgcaagtttttgcggttgttgtatttaagtcagtagacttgtgggcattcttttgtagccttttggatttaacaagtttgttgctttgtgttttgtcatatagGTGGGAGGGAGAAGGCTCCTGCTGCTTTTTGTCGCAAGACACTTACTTCCAAAGACCGATTTGAGATGTGGGGAGATGGATTGCAAACAAGATCCTTCAC

Basic information

species Glycine max
transcript GLYMA03G40720.1
intron # 4
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|207699910|gb|GD682569.1|GD682569
EST:     CCGGATTGGGAGATTCCATAACATATATGGTCCTTATGGGACATGGAAGG                         GTGGAAGGGAGAAGGCTCCTGCTGCTTTTTG
genomic: CCGCATTGGGAGATTCCATAACATATATGGTCCTTATGGGACATGGAAGGgtatgttctt ... tgtcatatagGTGGGAGGGAGAAGGCTCCTGCTGCTTTTTG
EST: gi|298178228|gb|HO023963.1|HO023963
EST:     CCGGATTGGGAGATTCCATAACATATATGGTCCTTATGGGACATGGAAGG                         GTGGAAGGGAGAAGGCTCCTGCTGCTTTTTGTCGCAAGACACTTACTTCCA
genomic: CCGCATTGGGAGATTCCATAACATATATGGTCCTTATGGGACATGGAAGGgtatgttctt ... tgtcatatagGTGGGAGGGAGAAGGCTCCTGCTGCTTTTTGTCGCAAGACACTTACTTCCA
EST: gi|208115132|gb|GD911763.1|GD911763
EST:     CCGGATTGGGAGATTCCATGACATATATGGTCCTTATGGGACATGGAAGG                         GTGGAAGGGAGAAGGCTCCTGCTGCTTTTTGTCGCAAGACACTTACTTCC
genomic: CCGCATTGGGAGATTCCATAACATATATGGTCCTTATGGGACATGGAAGGgtatgttctt ... tgtcatatagGTGGGAGGGAGAAGGCTCCTGCTGCTTTTTGTCGCAAGACACTTACTTCC
EST: gi|298189854|gb|HO038257.1|HO038257
EST:     CCGGATTGGGAGATTCCATAACATATATGGTCCTTATGGGACATGGAAGG                         GTGGAAGGGAGAAGGCTCCTGCTGCTTTTTGTCGCAAGACACTTACTTCCA
genomic: CCGCATTGGGAGATTCCATAACATATATGGTCCTTATGGGACATGGAAGGgtatgttctt ... tgtcatatagGTGGGAGGGAGAAGGCTCCTGCTGCTTTTTGTCGCAAGACACTTACTTCCA
EST: gi|20448810|gb|BQ252934.1|BQ252934
EST:     CCATAACATATATGGTCCTTATGGGACATGGAAGG                         GTGGAAGGGAGAAGGCTCCTGCTGCTTTTTGTCGCAAGACACTTACTTCCA
genomic: CCATAACATATATGGTCCTTATGGGACATGGAAGGgtatgttctt ... tgtcatatagGTGGGAGGGAGAAGGCTCCTGCTGCTTTTTGTCGCAAGACACTTACTTCCA
EST: gi|298167582|gb|HO012845.1|HO012845
EST:     GATTCCATAACATATATGGTCCTTATGGGACATGGAAGG                         GTGGGAGGGAGAAGGCTCCTGCTGCTTTTTGTCACAAGACACTTACTTCCA
genomic: GATTCCATAACATATATGGTCCTTATGGGACATGGAAGGgtatgttctt ... tgtcatatagGTGGGAGGGAGAAGGCTCCTGCTGCTTTTTGTCGCAAGACACTTACTTCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttttgtagccttttggatttaacaagtttgttgctttgtgttttgtcatatagGTGGGAGGGAGAAGGCTCCTGCTGCTTTTTGTCGCAAGACACTTACTTCCAAAGACCGATTTGAGATGTGGGGAGATGGATTGCAAACAAGATCCTTCAC
                  atttaac  putative branch site (score: 3)
                                          ttttgtc  putative PPT
                  atttaacaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgttcttgactgcattgcaagtttttgcggttgttgtatttaagtcagtagacttgtgggcattcttttgtagccttttggatttaacaagtttgttgctttgtgttttgtcatatagGTGGGAGGGAGAAGGCTCCTGCTGCTTTTTGTCGCAAGACACTTACTTCCAAAGACCGATTTGAGATGTGGGGAGATGGATTGCAAACAAGATCCTTCAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA