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'   		19  
 5'  3'   		20  
 5'  3'   
21  
 5'  3'   		22  
 5'  3'   		23  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAACCTTTTTTTCTGGTTATACATGAAGGTGAAACTCTTGACGAAATTAAAGTGCGAATACAAAAGAAACTTCAAGTTCCTGATGATGAATTCTGCAAGgtgatttctcgtgttatttttttggtgaccatctttttgattaattttgtttgcttgatgttttaattgagaaaaagttcatatgtacatttgatttcagttcacctaactgtttttttttttttactatttcttgtttggccag

Basic information

species Glycine max
transcript GLYMA20G11330.1
intron # 21
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G11330.1 (Glycine max), 5'ss of exon 21
lower sequence: LOC_Os11g36470.1 (Oryza sativa), 5'ss of exon 25
GGAACCTTTTTTTCTGGTTATACATGAAGGTGAAACTCTTGACGAAATTAAAGTGCGAATACAAAAGAAACTTCAAGTTCCTGATGATGAATTCTGCAAGgtgatt--tctcgtgttatttttttggtgaccat---ctttttgattaattttgtttgcttgatgttttaattgagaaaaagttcatatgtacatttgatttcagttcacctaactgtttttttttttttactatttcttgtttggccag
 || ||||||| ||| | ||| | ||||||||| ||| | |  ||| | || | ||| ||||| || ||||| ||||| |||||||| |||||||||||||||||   |||  ||   ||| ||  |  | | |    || |    |  ||| | |||||   | |  |  |  |      | | ||    | || | |                                                   
AGATCCTTTTTATCTTGCTATCCGTGAAGGTGAGACTTTAGCAGAAGTAAAGGAGCGCATACAGAAAAAACTCCAAGTCCCTGATGAGGAATTCTGCAAGgtgatccatctgttgaagtttcttatgaaagcgtggaattataacatgttttggcttgctctttatccttgtccaccttgggattatgctgatatataag--------------------------------------------------
















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|18690763|gb|BM519611.1|BM519611
EST:     AAGTGCGAATACAAAAGAAACTTCAAGTTCCTGATGATGAATTCTGCAAG                         TGGAAGTTTGCATTTCTATCACTAGGGCGTCCTGAGTACCTTCAAGATTCT
genomic: AAGTGCGAATACAAAAGAAACTTCAAGTTCCTGATGATGAATTCTGCAAGgtgatttctc ... gtttggccagTGGAAGTTTGCATTTCTATCACTAGGGCGTCCTGAGTACCTTCAAGATTCT
EST: gi|17153585|gb|BM143518.1|BM143518
EST:     AAGTGCGAATACAAAAGAAACTTCAAGTTCCTGATGATGAATTCTGCAAG                         TGGAAGTTTGCATTTCTATCACTAGGGCGTCCTGAGTAC
genomic: AAGTGCGAATACAAAAGAAACTTCAAGTTCCTGATGATGAATTCTGCAAGgtgatttctc ... gtttggccagTGGAAGTTTGCATTTCTATCACTAGGGCGTCCTGAGTAC
EST: gi|193546964|gb|FK502343.1|FK502343
EST:     TGATGAATTCTGCAAG                         TGGAAGTTTGCATTTCTATCACTAGGGCGTCCTGAGTACCTTCAAGATTCT
genomic: TGATGAATTCTGCAAGgtgatttctc ... gtttggccagTGGAAGTTTGCATTTCTATCACTAGGGCGTCCTGAGTACCTTCAAGATTCT
EST: gi|308098749|gb|HO760490.1|HO760490
EST:     AAGTGCGAATACAAAAGAAACTTCAAGTTCCTGATGATGAATTCTGCAAG                         TGGAAGTTTGCATTTCTATCACTAGGGCGTCCTGAGT
genomic: AAGTGCGAATACAAAAGAAACTTCAAGTTCCTGATGATGAATTCTGCAAGgtgatttctc ... gtttggccagTGGAAGTTTGCATTTCTATCACTAGGGCGTCCTGAGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGAACCTTTTTTTCTGGTTATACATGAAGGTGAAACTCTTGACGAAATTAAAGTGCGAATACAAAAGAAACTTCAAGTTCCTGATGATGAATTCTGCAAGgtgatttctcgtgttatttttttggtgaccatctttttgattaattttgtttgcttgatgttttaattgagaaaaagttcatatgtacatttgatttcagttcacctaactgtttttttttttttactatttcttgtttggccag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA