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'   		24  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAAAAGCTGCTGAATCATTGGCTGATCCTGAAGAATATCCAAATTTGTTTGAAGATTGGCAGGTTGCACTAGCTGTCGAATCTAAAGCTGTGGAAACAAGgtcagtgcagagaatgcatattttattgcatatatattgaaatgtatatagttagtagattagtgtttttttgtgtgcaaaacatctttaactgtgttcttttattatag

Basic information

species Glycine max
transcript GLYMA15G01680.1
intron # 22
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G01680.1 (Glycine max), 5'ss of exon 22
lower sequence: LOC_Os06g05180.1 (Oryza sativa), 5'ss of exon 22
CAAAAGCTGCTGAATCATTGGCTGATCCTGAAGAATATCCAAATTTGTTTGAAGATTGGCAGGTTGCACTAGCTGTCGAATCTAAAGCTGT-----GGAAACAAGg-tcagtgcagagaatgcatattttattgcatatatattgaaatgtatatagttagtagattagtgtttttttgtgtgcaaaacatctttaac--tgtgttcttttattatag
|||||||||| || ||  |||| ||||||   || ||||||||||| |||||||| ||||||||||||||  |||| |||   || | ||      |||   ||   | |    |||   ||| | |||||||      || |     |    ||  ||  | |        | || | |   |||| |   |  ||   |  | ||| ||  |  ||
CAAAAGCTGCAGAGTCTCTGGCAGATCCTTCTGAGTATCCAAATTTATTTGAAGACTGGCAGGTTGCACTTACTGTAGAAAAGAATGTTGCTTCTCGGAGgtaaaaattaccagagaagctgctttttttattattaccatgtaacgctaccaattctt--ttggaagaaactattgtataaacaaacctggtacaatgataaggtctctttcttcag

upper sequence: GLYMA15G01680.1 (Glycine max), 5'ss of exon 22
lower sequence: LOC_Os02g11840.1 (Oryza sativa), 5'ss of exon 13
CAAAAGCTGCTGAATCATTGGCTGATCCTGAAGAATATCCAAATTTGTTTGAAGATTGGCAGGTTGCACTAGCTGTCGAATCTAAAGCTGTGGAAACAAGgtcagtgcagagaatgcatattttattgcatatatattgaaatgtatatagttagtagattagtgtttttttgtgtgcaaaacatctttaac-tgtgttcttttattatag
| ||||| || ||||||||||| |||||||| || || ||||| ||||||||||| |||||  |||| ||   ||| ||| |||| |  | |   | |||||  || |  | ||           |   |  ||| ||    |||  |   ||      ||     ||   ||  ||  | |  || | ||  | || | |  | || |  
CCAAAGCAGCAGAATCATTGGCAGATCCTGACGAGTACCCAAACTTGTTTGAAGACTGGCAAATTGCTCTCAATGTAGAAGCTAATGTCGCGCCCAAAAGgtatgttcgtaaaa----------gtaaaaactatgttcttttgtgaaagttttaccagttctctcttccatgcatgggacaagtcgtcaaggtttgctttcctcttctc-

upper sequence: GLYMA15G01680.1 (Glycine max), 5'ss of exon 22
lower sequence: GRMZM2G095348_T02 (Zea mays), 5'ss of exon 21
CAAAAGCTGCTGAATCATTGGCTGATCCTGAAGAATATCCAAATTTGTTTGAAGATTGGCAGGTTGCACTAGCTGTCGAATCTAAAGCTGT-----GGAAACA-AGgtcagtgcagagaatgc-atattttattgcatatatattgaaatgtatatagttagtagattagtgtttttttgtgtgcaaaacatctttaactgtgttcttttattatag
|||||||||| || ||  |||| ||||||   |||||||||||||| |||||||| ||||||||||| ||| |||| |||   |  | ||       ||   | |  | |   ||   | | | || |||| ||  | | ||||||   |    | |   |  | |  |      ||   |   || ||  |  |||   ||               
CAAAAGCTGCAGAGTCTCTGGCAGATCCTTCTGAATATCCAAATTTATTTGAAGACTGGCAGGTTGCTCTAACTGTAGAAAAAAGCGTTGCTTCTCAGAGgtacacattatcacacgaactactatgttttgttctaga-atattgc--ttaccagaagcaaaaaaaaaaaaacattgaat-cacagaaactgcttattggtcc-------------

upper sequence: GLYMA15G01680.1 (Glycine max), 5'ss of exon 22
lower sequence: AT1G52360.1 (Arabidopsis thaliana), 5'ss of exon 22
CAAAAGCTGCTGAATCATTGGCTGATCCTGAAGAATATCCAAATTTGTTTGAAGATTGGCAGGTTGCACTAGCTGTCGAATCTAAAGCTGTGGAAACAAGgtcagtgcagagaatgcatattttat---tgcatatatattgaaatgtatatagttagtagattagtgtttttttgtgtgcaaaacatctttaactgtgttcttttattatag---------------------------------------------------
||||||| || ||||| |||||||||||||| || ||  ||||| | |||||||||||||| ||||| ||  |||| ||| |||||||||| || ||||||| |  || |    |   |   | |    ||| | | | ||  |  || | |   |     |        ||  |   | |   |      ||    |        |||||||                                                   
CAAAAGCAGCAGAATCTTTGGCTGATCCTGAGGAGTACTCAAATCTTTTTGAAGATTGGCAAGTTGCTCTTTCTGTGGAAGCTAAAGCTGTAGAGACAAGgtaatcgctgcattttttttgctcaagtgtgcttttctcttccatggtttttgaatcaagcagcgaatcgttaatacctactgcatccacgtagtgataactccggattatagatagcgacattctcagacctctctttaaaattgtctgttctccatttacag

upper sequence: GLYMA15G01680.1 (Glycine max), 5'ss of exon 22
lower sequence: AT3G15980.1 (Arabidopsis thaliana), 5'ss of exon 22
CAAAAGCTGCTGAATCATTGGCTGATCCTGAAGAATATCCAAATTTGTTTGAAGATTGGCAGGTTGCACTAGCTGTCGAATCTAAAGCTGTGGAAACAAGgtcagtgcagagaatgcatattttattgcatatatattgaaatgtatatagttagtagattagtgtttttttgtgtgcaaaacatctttaactgtgttcttttattatag
||||||| |||||||| || |||||||||||||| ||  ||||| | ||||| |||||||| ||||| ||  |||| ||| | ||  |||  || |||||||     | ||| |   || || |  |      || ||      |  || ||   ||  |   | |     |||  |   || |  | ||  |||       ||| ||  
CAAAAGCAGCTGAATCTTTAGCTGATCCTGAAGAGTACTCAAATCTTTTTGAGGATTGGCAAGTTGCTCTTTCTGTTGAAGCGAACACTGCAGAGACAAGgt---atccgagcacttattttctgctattcgcattttt---cttccatggtcgtta--tggctttcgaactgta-gttcaataattatatatgtacctagatatgatt-

upper sequence: GLYMA15G01680.1 (Glycine max), 5'ss of exon 22
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 5'ss of exon 22
CAAAAGCTGCTGAATCATTGGCTGATCCTGAAGAATATCCAAATTTGTTTGAAGATTGGCAGGTTGCACTAGCTGTCGAATCTAAAGCTGTGGAAACAAGgtcagtgcagagaatgcatattttattgcatatatattgaaatgtatatagttagtagattagtgtttttttgtgtgcaaaacatctttaactgtgttcttttattatag
|||||||||||||||| ||||||||||||||||| ||||| ||||| ||||| || ||||| ||||  || ||  | |||||||||| ||  || |||||||       |  | | |||    |  |||   ||| ||||  | | | || |||    | |  ||| ||||| |||     ||||  |      |    || |   ||  
CAAAAGCTGCTGAATCTTTGGCTGATCCTGAAGAGTATCCTAATTTATTTGAGGACTGGCAAGTTGGTCTTGCCATTGAATCTAAAGTTGCCGAGACAAGgt-------gccattacatggccttctgc---tatgttgatttctctgtatttatctaactgttgtatttttatgttgctcacattatcgtaaatacctttctggaattt

upper sequence: GLYMA15G01680.1 (Glycine max), 5'ss of exon 22
lower sequence: Vv11s0016g04180.t01 (Vitis vinifera), 5'ss of exon 22
CAAAAGCTGCTGAATCATTGGCTGATCCTGAAGAATATCCAAATTTGTTTGAAGATTGGCAGGTTGCACTAGCTGTCGAATCTAAAGCTGTGGAAACAAGgtcagtgcagagaatgcatattttattgcatata-tattgaaatgtatatagttagtagattagtgtttttttgtgtgcaaaacatctttaactgtgttcttttattatag
 ||||||||| ||||||||||| ||||||||||| || || ||||||||||| || ||||||||||| || |   | |||||||||  |   || | ||||| |   |  ||||      ||||||  || ||  ||||  |  |  ||| |||  | ||||     |||||      ||  | ||   | | | |    | | ||     
AAAAAGCTGCAGAATCATTGGCAGATCCTGAAGAGTACCCTAATTTGTTTGAGGACTGGCAGGTTGCTCTTGACATTGAATCTAAAATTTCAGAGAAAAGgt-atctcttagaa-----gttttat-acacatcctatttgatagactattgttc-ttgattttccctttttaactctcattatattgcttaatatacaatctcatgt---

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|7145778|gb|AW507700.1|AW507700
EST:     GAAGATTGGCAAGTTGCACTAGCTGTCGAATCTAAAGCTGTGGAAACAAG                         GAATGTGTACCCTCCTGCGGAGCAGTAC
genomic: GAAGATTGGCAGGTTGCACTAGCTGTCGAATCTAAAGCTGTGGAAACAAGgtcagtgcag ... tttattatagGAATGTGTACCCTCCTGCGGAGCAGTAC
EST: gi|7795673|gb|AW781070.1|AW781070
EST:     GAAGATTGGCAAGTTGCACTAGCTGTCGAATCTAAAGCTGTGGAAACAAG                         GAATGTGTACCCTCCTGCGGAGCAGTACGTCAACCATGCTGACAAATCACA
genomic: GAAGATTGGCAGGTTGCACTAGCTGTCGAATCTAAAGCTGTGGAAACAAGgtcagtgcag ... tttattatagGAATGTGTACCCTCCTGCGGAGCAGTACGTCAACCATGCTGACAAATCACA
EST: gi|16347999|gb|BI973594.1|BI973594
EST:     GAAGATTGGCAGGTTGCACTAGCTGTCGAATCTAAAGCTGTGGAAACAAG                         GAATGTGTACCCTCCTGCGGAGCAGTACGTCAACCATGCTGACAAATCACA
genomic: GAAGATTGGCAGGTTGCACTAGCTGTCGAATCTAAAGCTGTGGAAACAAGgtcagtgcag ... tttattatagGAATGTGTACCCTCCTGCGGAGCAGTACGTCAACCATGCTGACAAATCACA
EST: gi|208109455|gb|GD905843.1|GD905843
EST:     GAAGATTGGCAGGTTGCACTAGCTGTCGAATCTAAAGCTGTGGAAACAAG                         GAATGTGTACCCTCCTGCGAAGCAGTACGTCAACCATGCTGACAAATCACA
genomic: GAAGATTGGCAGGTTGCACTAGCTGTCGAATCTAAAGCTGTGGAAACAAGgtcagtgcag ... tttattatagGAATGTGTACCCTCCTGCGGAGCAGTACGTCAACCATGCTGACAAATCACA
EST: gi|207771312|gb|GD746427.1|GD746427
EST:     GAAGATTGGCAAGTTGCACTAGCTGTCGAATCTAAAGCTGTGGAAACAAG                         GAATGTGTACCCTCCTGCGGAGCAGTACGTCAACCATGCTGACAAAT
genomic: GAAGATTGGCAGGTTGCACTAGCTGTCGAATCTAAAGCTGTGGAAACAAGgtcagtgcag ... tttattatagGAATGTGTACCCTCCTGCGGAGCAGTACGTCAACCATGCTGACAAAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CAAAAGCTGCTGAATCATTGGCTGATCCTGAAGAATATCCAAATTTGTTTGAAGATTGGCAGGTTGCACTAGCTGTCGAATCTAAAGCTGTGGAAACAAGgtcagtgcagagaatgcatattttattgcatatatattgaaatgtatatagttagtagattagtgtttttttgtgtgcaaaacatctttaactgtgttcttttattatag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG