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'   		13  
 5'  3'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   		17  
 5'  3'   		18  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctgttttctttcttttgttttgttcacatataatgcttgttttgtgtagttttttttctagtttgttttcctcgtgttaagtgccgaacctctagaaaacctcgacgaaggtttaaagtcaattaaatcctccatttattgcttcagGGGAATAGTGCCAAACCTGATGAACTGCATGAAATAATCAGGGCTGGAGCTATGGGACTGAAGCTGCATGAGGACTGGGGAACTACACCGGCTGCAATAG

Basic information

species Glycine max
transcript GLYMA11G37250.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G37250.1 (Glycine max), 3'ss of exon 11
lower sequence: AT1G67550.1 (Arabidopsis thaliana), 3'ss of exon 10
gtctgttttctttcttttgttttgttcacatataatgcttgttttgtgtagttttttttctagtttgttttcctcgtgttaagtgccgaacctctagaaaacctcgacgaaggtttaaagtcaattaaatcctccatttattgcttcagGGGAATAGTGCCAAACCTGATGAACTGCATGAAATAATCAGGGCTGGAGCTATGGGACTGAAGCTGCATGAGGACTGGGGAACTACACCGGCTGCAATAG
                                        ||    | | |||| || |  |   || | |||| ||  |   ||      |||      |  ||   |||   |||  || |   ||||    | ||       | |||| ||||  || |||||    || || | | | ||| |   ||||||||| |||||| |||||||||||||||||||||||||||| || ||||||||||
----------------------------------------gtgggatat-gtttcttcttgatactgatatccttgttatccatgta----ctcatctgtatttc---gaactcttacggttagc-aaatgtatcgttg------ttagGGAAATACAGCTAAACCGTTAGAGCTTCGTCACATAGTGGAGGCTGGAGCAATGGGATTGAAGCTGCATGAGGACTGGGGAACTACTCCTGCTGCAATAG

upper sequence: GLYMA11G37250.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv01s0010g02760.t01 (Vitis vinifera), 3'ss of exon 10
-------------------------gtctgttttctttcttttgttttgttcacata-taatgcttgttttgtgtagttttttttctagtttgttttcctcgtgtta---agtgccgaacctctagaaaacctcgacgaaggtttaaagtcaattaaatcctccatttattgcttcagGGGAATAGTGCCAAACCTGATGAACTGCATGAAATAATCAGGGCTGGAGCTATGGGACTGAAGCTGCATGAGGACTGGGGAACTACACCGGCTGCAATAG
                            |  ||| ||| |||| |    |||||||  | | | |  |   |   |  |||   ||| |||      | |||  |||   | |||| |     | | ||  ||  |      | |   || || |||    ||  ||| ||| || ||||||| ||||||||||| || |  || ||||||||||| ||||||||||| ||||| ||||||||||||||||||||||||||||| || ||||||||||
gtgtgcttcattatttgcaacttatagtttctttgtttgttttatagctttcacatggtcaagatgctgaagcacacatttggatct-gttgaaggacttcgaattatataatgcctaggtagttgcaattctgaagtctcctctcttgttaagtaacaaatc--tttgttgatttagGGGAACAGTGCCAAACCAGACGGGCTACATGAAATAATTAGGGCTGGAGCAATGGGTCTGAAGCTGCATGAGGACTGGGGAACTACTCCTGCTGCAATAG
















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|16278014|gb|BI942681.1|BI942681
EST:     ATGACATGCCTTTAAACTTTGGTTTCACTGGAAAA                         GGGAATAGTGCCAAACCTGATGAACTGCATGAAATAATCAGGGCTGGAGCT
genomic: ATGACATGCCTTTAAACTTTGGTTTCACTGGAAAAgtctgttttc ... attgcttcagGGGAATAGTGCCAAACCTGATGAACTGCATGAAATAATCAGGGCTGGAGCT
EST: gi|151394452|gb|EV264323.1|EV264323
EST:     TGCTACAATCAACAGATGACATGCCTTTAAACTTTGGTTTCACTGGAAAA                         GGGAATAGTGCCAAACCTGATGAGCTGCATGAAATAATCAGGGCTGGAGCT
genomic: TGCTACAATCAACAGATGACATGCCTTTAAACTTTGGTTTCACTGGAAAAgtctgttttc ... attgcttcagGGGAATAGTGCCAAACCTGATGAACTGCATGAAATAATCAGGGCTGGAGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagaaaacctcgacgaaggtttaaagtcaattaaatcctccatttattgcttcagGGGAATAGTGCCAAACCTGATGAACTGCATGAAATAATCAGGGCTGGAGCTATGGGACTGAAGCTGCATGAGGACTGGGGAACTACACCGGCTGCAATAG
                                              ttgcttc  CT-rich tract
                   tttaaagtcaattaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtctgttttctttcttttgttttgttcacatataatgcttgttttgtgtagttttttttctagtttgttttcctcgtgttaagtgccgaacctctagaaaacctcgacgaaggtttaaagtcaattaaatcctccatttattgcttcagGGGAATAGTGCCAAACCTGATGAACTGCATGAAATAATCAGGGCTGGAGCTATGGGACTGAAGCTGCATGAGGACTGGGGAACTACACCGGCTGCAATAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC