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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ataatttgatggtcatgctgttttttaatcagatattagttctgatgtgatgtgatgtggtgctatttgttcttatcttttgttgttctatgttatgtagGTGTTGATTTTAAGATCAAGATGCTCACAGTAGGTGGGAAGAGATTGAAACTAACTATTTGGGACACTG

Basic information

species Glycine max
transcript GLYMA13G20970.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G20970.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv08s0007g04740.t01 (Vitis vinifera), 3'ss of exon 1
--ataatttgatggtcatgctgttttttaatcagatattagttctgatgtgatgtgatgtggtgctatttgttcttatcttttgttgttctatgttatgtagGTGTTGATTTTAAGATCAAGATGCTCACAGTAGGTGGGAAGAGATTGAAACTAACTATTTGGGACACTG
  ||||  | | |      || |||||  ||  |||  |     |  | ||||||| |    |  | ||| || || | |    |   || ||| | || |||||| |||||||| ||||||  ||| || || ||||||||||||||||| || || || ||||||||||
ccataaagtcaggtgacctctttttttagatttgatgatttgagttttctgatgtg-tacact-ttgtttttttttttttgccttgcctcaatgatttgcagGTGTGGATTTTAAAATCAAGCAGCTAACTGTTGGTGGGAAGAGATTGAAGCTTACAATCTGGGACACTG
















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|14011482|gb|BG726404.1|BG726404
EST:     CCTTGTTAGCTTCATCTCCAACTCTGCTGAAGATATTGCTCCCACAATTG                         GTGTTGATTTTAAGATCAAGATGCTCACAGTAGGTGGGAAGAGATTGAAAC
genomic: CCTTGTTAGCTTCATCTCCAACTCTGCTGAAGATATTGCTCCCACAATTGgtaattcatt ... tgttatgtagGTGTTGATTTTAAGATCAAGATGCTCACAGTAGGTGGGAAGAGATTGAAAC
EST: gi|298176712|gb|HO026833.1|HO026833
EST:     GCTCCCACAATTG                         GTGTTGATTTTAAGATCAAGATGCTCACAGTAGGTGGGAAGAGATTGAAAC
genomic: GCTCCCACAATTGgtaattcatt ... tgttatgtagGTGTTGATTTTAAGATCAAGATGCTCACAGTAGGTGGGAAGAGATTGAAAC
EST: gi|192328230|gb|FK022894.1|FK022894
EST:     CCTTGTTAGCTTCATCTCCAACTCTGCTGAAGATATTGCTCCCACAATTG                         GTGTTGATTTTAAGATCAAGATGCTCACAGTAGGTGGGAAGAGATTGAAAC
genomic: CCTTGTTAGCTTCATCTCCAACTCTGCTGAAGATATTGCTCCCACAATTGgtaattcatt ... tgttatgtagGTGTTGATTTTAAGATCAAGATGCTCACAGTAGGTGGGAAGAGATTGAAAC
EST: gi|192303747|gb|FG998673.1|FG998673
EST:     CCTTGTTAGCTTCATCTCCAACTCTGCTGAAGGTATTGCTCCCACAATTG                         GTGTTGATTTTAAGATCAAGATGCTCACAGTAGGTGGGAAGAGATTGAAAC
genomic: CCTTGTTAGCTTCATCTCCAACTCTGCTGAAGATATTGCTCCCACAATTGgtaattcatt ... tgttatgtagGTGTTGATTTTAAGATCAAGATGCTCACAGTAGGTGGGAAGAGATTGAAAC
EST: gi|13563363|gb|BG551583.1|BG551583
EST:     CCTTGTTAGCTTCATCTCCAACTCTGCTGAAGATATTGCTCCCACAATTG                         GTGTTGATTTTAAGATCAAGATGCTCACAGTAGGTGGGAAGAGATTGAAAC
genomic: CCTTGTTAGCTTCATCTCCAACTCTGCTGAAGATATTGCTCCCACAATTGgtaattcatt ... tgttatgtagGTGTTGATTTTAAGATCAAGATGCTCACAGTAGGTGGGAAGAGATTGAAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtgatgtgatgtggtgctatttgttcttatcttttgttgttctatgttatgtagGTGTTGATTTTAAGATCAAGATGCTCACAGTAGGTGGGAAGAGATTGAAACTAACTATTTGGGACACTG
                           ttatctttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ataatttgatggtcatgctgttttttaatcagatattagttctgatgtgatgtgatgtggtgctatttgttcttatcttttgttgttctatgttatgtagGTGTTGATTTTAAGATCAAGATGCTCACAGTAGGTGGGAAGAGATTGAAACTAACTATTTGGGACACTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - -ttgatgg
- - - - - - tcatgct
- - - - - - - - - - - - - - - - - - - - tctgatg
- - - - - - - - - - - - - - - - - - - - - tgatgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtggtg