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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttataaggatttacgtgagactgcaattttaatgtaaagtttctgctgaaaaaaaggaaggattcatgtattaacatctatgttttgcctggtattgcagGTGGATACTAAACGCCGTCGTAGGTAAAATAGTGTGATAGTATATAAAGCATAAAATGAGTTAGATCTATAATGGATGTACTGAAGATCTTGCTTTTCTA

Basic information

species Glycine max
transcript GLYMA06G01180.2
intron # 3
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|58019940|gb|CX706682.1|CX706682
EST:     NNNNNNNGTTGCAAAACTCTCATTCTGCTTCTAGACACTCAGATACAAAG                         GTGGATACTAAACGCCGTCGTAGGTAAAATAGTGTGATAGTATATAAAGCA
genomic: AAAAAAAGTTGCAAAACTCTCATTCTGCTTCTAGACACTCAGATACAAAGgtatttcaaa ... ggtattgcagGTGGATACTAAACGCCGTCGTAGGTAAAATAGTGTGATAGTATATAAAGCA
EST: gi|9985362|gb|BE659470.1|BE659470
EST:     NNNNNNNGTTGCAAAACTCTCATTCTGCTTCTAGACACTCAGATACAAAG                         GTGGATACTAAACGCCGTCGTAGGTAAAATAGTGTGATAGTATATAAAGCA
genomic: AAAAAAAGTTGCAAAACTCTCATTCTGCTTCTAGACACTCAGATACAAAGgtatttcaaa ... ggtattgcagGTGGATACTAAACGCCGTCGTAGGTAAAATAGTGTGATAGTATATAAAGCA
EST: gi|254336272|gb|GR842451.1|GR842451
EST:     NNNNNNNGTTGCAAAACTCTCATTCTGCTTCTAGACACTCAGATACAAAG                         GTGGATACTAAACGCCGTCGTAGGTAAAATAGTGTGATAGTATATAAAGCA
genomic: AAAAAAAGTTGCAAAACTCTCATTCTGCTTCTAGACACTCAGATACAAAGgtatttcaaa ... ggtattgcagGTGGATACTAAACGCCGTCGTAGGTAAAATAGTGTGATAGTATATAAAGCA
EST: gi|58022943|gb|CX709684.1|CX709684
EST:     NNNNNNNGTTGCAAAACTCTCATTCTGCTTCTAGACACTCAGATACAAAG                         GTGGATACTAAACGCCGTCGTAGGTAAAATAGTGTGATAGTATATAAAGCA
genomic: AAAAAAAGTTGCAAAACTCTCATTCTGCTTCTAGACACTCAGATACAAAGgtatttcaaa ... ggtattgcagGTGGATACTAAACGCCGTCGTAGGTAAAATAGTGTGATAGTATATAAAGCA
EST: gi|31462782|gb|CD404810.1|CD404810
EST:     CAAAAAAGTTGCCAAACTCTCATTCTGCTTCTAGACACTCAGATACANAG                         GTGGATACTAAACGCCGTCGTAGGTAAAATAGTGTGATAGTATATAAAGCA
genomic: AAAAAAAGTTGCAAAACTCTCATTCTGCTTCTAGACACTCAGATACAAAGgtatttcaaa ... ggtattgcagGTGGATACTAAACGCCGTCGTAGGTAAAATAGTGTGATAGTATATAAAGCA
EST: gi|17401428|gb|BM178210.1|BM178210
EST:     NNNNNNNGTTGCAAAACTCTCATTCTGCTTCTAGACACTCAGATACAAAG                         GTGGATACTAAACGCCGTCGTAGGTAAAATAGTGTGATAGTATATAAAGCA
genomic: AAAAAAAGTTGCAAAACTCTCATTCTGCTTCTAGACACTCAGATACAAAGgtatttcaaa ... ggtattgcagGTGGATACTAAACGCCGTCGTAGGTAAAATAGTGTGATAGTATATAAAGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgaaaaaaaggaaggattcatgtattaacatctatgttttgcctggtattgcagGTGGATACTAAACGCCGTCGTAGGTAAAATAGTGTGATAGTATATAAAGCATAAAATGAGTTAGATCTATAATGGATGTACTGAAGATCTTGCTTTTCTA
                       tattaac  putative branch site (score: 1)
                    atgtattaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttataaggatttacgtgagactgcaattttaatgtaaagtttctgctgaaaaaaaggaaggattcatgtattaacatctatgttttgcctggtattgcagGTGGATACTAAACGCCGTCGTAGGTAAAATAGTGTGATAGTATATAAAGCATAAAATGAGTTAGATCTATAATGGATGTACTGAAGATCTTGCTTTTCTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA