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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCACTCTGCTGGTTATTCTGGTGCATTGGCTTATCCTCTTTTGGCTCCTGAAGCAGCACTAAACAGATTGGATGGCCCCAGTTTAGAGGAATTTGTTGCTgtaagatctgttatcctttctgttactacataaatcctactggtattaatttatgcaacacttgtaattttgactgttttttctttctgttttccccttgcaatgtgagaatctaattgttgctggatgtgaaaaatcag

Basic information

species Glycine max
transcript GLYMA08G21380.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G21380.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv09s0002g03200.t01 (Vitis vinifera), 5'ss of exon 4
TCACTCTGCTGGTTATTCTGGTGCATTGGCTTATCCTCTTTTGGCTCCTGAAGCAGCACTAAACAGATTGGATGGCCCCAGTTTAGAGGAATTTGTTGCTgtaagatct-gttatcctttctgttactacataaatcctactggtattaatttatgcaacacttgtaattttgactgttttttctttctgttttccccttgcaatgtgagaatctaattgttgctggatgtgaaaaatcag--------------------
||||||||||||||||||||||||  ||||  ||||||| |||||||||||| | ||  ||||||||||| || || ||| ||| |||||||||||||| ||||||    |  |  |||     |||| |||| |    | |  | ||  |||   |||   |   | | ||   | |  | | | | |||||| |  || |  | ||     ||  || |   ||  |      |||                       
TCACTCTGCTGGTTATTCTGGTGCCCTGGCAAATCCTCTATTGGCTCCTGAATCTGCTATAAACAGATTGAATAGCACCATTTTGGAGGAATTTGTTGCGgtaagacaaagaaaaacttataaatactgcatacaga--attaat-tttttttgctcaatcttctcagtctttcatttcatgtttctttgtttttcattttccttttggtttcctctttttgcgtgtgttctctgaattcctttttctgtctttatttcag
















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|7925880|gb|AW831906.1|AW831906
EST:     AAGCAGCACTAAACAGATTGGATGGCCCCAGTTTAGAGGAATTTGTTGCT                         GAGAATTACACAGCACCTAGAATGGTACTTGCAGCATCTGGGGTTGAGCAC
genomic: AAGCAGCACTAAACAGATTGGATGGCCCCAGTTTAGAGGAATTTGTTGCTgtaagatctg ... gaaaaatcagGAGAATTACACAGCACCTAGAATGGTACTTGCAGCATCTGGGGTTGAGCAC
EST: gi|193530303|gb|FK483702.1|FK483702
EST:     AAGCAGCACTAAACAGATTGGATGGCCCCAGTTTAGAGGAATTTGTTGCT                         GAGAATTACACAGCACCTAGAATGGTACTTGCAGCATCT
genomic: AAGCAGCACTAAACAGATTGGATGGCCCCAGTTTAGAGGAATTTGTTGCTgtaagatctg ... gaaaaatcagGAGAATTACACAGCACCTAGAATGGTACTTGCAGCATCT
EST: gi|254320746|gb|GR827195.1|GR827195
EST:     AAGCAGCACTAAACAGATTGGATGGCCCCAGTTTAGAGGAATTTGTTGCT                         GAGAATTACACAGCACCTAGAATGGTACTTGCAGCATCTGGGGTTGAGCAC
genomic: AAGCAGCACTAAACAGATTGGATGGCCCCAGTTTAGAGGAATTTGTTGCTgtaagatctg ... gaaaaatcagGAGAATTACACAGCACCTAGAATGGTACTTGCAGCATCTGGGGTTGAGCAC
EST: gi|208317262|gb|GE113243.1|GE113243
EST:     AAGCAGCACTAAACAGATTGGATGGCCCCAGTTTAGAGGAATTTGTTGCT                         GAGAATTACACAGCACCTAGAATGGTACTTGCA
genomic: AAGCAGCACTAAACAGATTGGATGGCCCCAGTTTAGAGGAATTTGTTGCTgtaagatctg ... gaaaaatcagGAGAATTACACAGCACCTAGAATGGTACTTGCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCACTCTGCTGGTTATTCTGGTGCATTGGCTTATCCTCTTTTGGCTCCTGAAGCAGCACTAAACAGATTGGATGGCCCCAGTTTAGAGGAATTTGTTGCTgtaagatctgttatcctttctgttactacataaatcctactggtattaatttatgcaacacttgtaattttgactgttttttctttctgttttccccttgcaatgtgagaatctaattgttgctggatgtgaaaaatcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA