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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCCGCCTTAGGGGAAAGATTGATTCCAATGGCTGTGTCGCTGCTTTTTTGGAGGAGCGGTTAAATATGGGTCTGAATTTTATTCTTTCTGCAGAGgtcaggcatttttctttttgcttttccactgctctttttatttgagtagggatgaaaatctagtttggtgggggatgttgagttaggttttgatcggcttttgcatttttgccctgacatggttttcgtatgtattaattgcag

Basic information

species Glycine max
transcript GLYMA05G34360.3
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G34360.3 (Glycine max), 5'ss of exon 10
lower sequence: LOC_Os01g16910.1 (Oryza sativa), 5'ss of exon 10
TGCCGCCTTAGGGGAAAGATTGATTCCAATGGCTGTGTCGCTGCTTTTTTGGAGGAGCGGTTAAATATGGGTCTGAATTTTATTCTTTCTGCAGAGgtcaggcatttttctttttgcttttccactgctctttttatttgagtagggatgaaaatctagtttggtgggggatgttgagttaggttttgatcggcttttgcatttttgccctgacatggttttcgtatgtattaattgcag
|| || || ||||| ||||||||| ||||||||  |||  ||||| |||||||||||||||| |     ||  |||||||  |||||||||||||||||||    ||       | ||| | |  | | |          | ||  |||  ||  |    |   |     | ||| |  || ||    | |    | ||                                         
TGTCGTCTGAGGGGGAAGATTGATACCAATGGCGTTGTTTCTGCTCTTTTGGAGGAGCGGTTGACCCCCGGCGTGAATTTCGTTCTTTCTGCAGAGgtcag---cttgcagccctacttattctatacaccaggctacctattattgattcaatgccctctatttttaacacgtttatgtaagtgggaaaccaagtctg-----------------------------------------

upper sequence: GLYMA05G34360.3 (Glycine max), 5'ss of exon 10
lower sequence: Vv03s0097g00590.t01 (Vitis vinifera), 5'ss of exon 10
TGCCGCCTTAGGGGAAAGATTGATTCCAATGGCTGTGTCGCTGCTTTTTTGGAGGAGCGGTTAAATATGGGTCTGAATTTTATTCTTTCTGCAGAGgtcaggcatttttctttttgcttttccactgctctttttatttgagtagggatgaaaatctagtttggtgggggatgttgagttag--gttttgatcggcttttgcatttttgccctgacatggttttcgtatgtattaattgcag
||||| ||||||||||||||||| |||||||| ||    ||||||||| | || ||||| || ||||||||||| ||||| ||||||||||||||||| ||      | |   ||  |||    ||| || ||||  |       | |    |  |||| |      |  ||  ||   ||    |||| ||   ||                                             
TGCCGTCTTAGGGGAAAGATTGACTCCAATGGGTGCACAGCTGCTTTTCTTGAAGAGCGATTGAATATGGGTCTTAATTTCATTCTTTCTGCAGAGgtgagaaccaatgcacgttaatttatggctgttccttttcct-------gcaccgcaccctagctgttattgttattctgcactattcattttaatgaactggaagg---------------------------------------
















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|192329088|gb|FK019731.1|FK019731
EST:     TTTTGGAGGAGCGGTTAAATATGGGTCTGAATTTTATTCTTTCTGCAGAG                         CTTGACCACAGGAAAAAGGACTACAAATTTGGGTTTGGTTTGACTGTGGGA
genomic: TTTTGGAGGAGCGGTTAAATATGGGTCTGAATTTTATTCTTTCTGCAGAGgtcaggcatt ... ttaattgcagCTTGACCACAGGAAAAAGGACTACAAATTTGGGTTTGGTTTGACTGTGGGA
EST: gi|31311896|gb|CD397099.1|CD397099
EST:     TTTTGGAGGAGCGGTTAAATATGGGTCTGAATTTTATTCTTTCTGCAGAG                         CTTGACCACAGGAAAAAGGACTACAAATTTGGGTTTGGTTTGACTGTGGGA
genomic: TTTTGGAGGAGCGGTTAAATATGGGTCTGAATTTTATTCTTTCTGCAGAGgtcaggcatt ... ttaattgcagCTTGACCACAGGAAAAAGGACTACAAATTTGGGTTTGGTTTGACTGTGGGA
EST: gi|16345872|gb|BI971467.1|BI971467
EST:     AATTTTATTCTTTCTGCAGAG                         CTTGACCACAGGAAAAAGGACTACAAATTTGGGTTTGGTTTGACTGTGGGA
genomic: AATTTTATTCTTTCTGCAGAGgtcaggcatt ... ttaattgcagCTTGACCACAGGAAAAAGGACTACAAATTTGGGTTTGGTTTGACTGTGGGA
EST: gi|120532642|gb|EH260775.1|EH260775
EST:     TTTTGGAGGAGCGGTTAAATATGGGTCTGAATTTTATTCTTTCTGCAGAG                         CTTGACCACAGGAAAAAAGACTACAAATTTGGGTTTGGTTTGACCGTTGGA
genomic: TTTTGGAGGAGCGGTTAAATATGGGTCTGAATTTTATTCTTTCTGCAGAGgtcaggcatt ... ttaattgcagCTTGACCACAGGAAAAAGGACTACAAATTTGGGTTTGGTTTGACTGTGGGA
EST: gi|51344546|gb|CO985279.1|CO985279
EST:     GGTTAAATATGGGTCTGAATTTTATTCTTTCTGCAGAG                         CTTGACCACAGGAAAAAGGACTACAAATTTGGGTTTGGTTTGACTGTGGGA
genomic: GGTTAAATATGGGTCTGAATTTTATTCTTTCTGCAGAGgtcaggcatt ... ttaattgcagCTTGACCACAGGAAAAAGGACTACAAATTTGGGTTTGGTTTGACTGTGGGA
EST: gi|7924740|gb|AW830766.1|AW830766
EST:     GAATTTTATTCTTTCTGCAGAG                         CTTGACCACAGGAAAAAGGACTACAAATTTGGGTTTGGTTTGACTGTGGGA
genomic: GAATTTTATTCTTTCTGCAGAGgtcaggcatt ... ttaattgcagCTTGACCACAGGAAAAAGGACTACAAATTTGGGTTTGGTTTGACTGTGGGA
EST: gi|209707360|gb|BW670910.1|BW670910
EST:     TTTTGGAGGAGCGGTTAAATATGGGTCTGAATTTTATTCTTTCTGCAGAG                         CTTGACCACAGGAAAAAGGACTACAAATTTGGGTTTGGTTTGACTGTGGGA
genomic: TTTTGGAGGAGCGGTTAAATATGGGTCTGAATTTTATTCTTTCTGCAGAGgtcaggcatt ... ttaattgcagCTTGACCACAGGAAAAAGGACTACAAATTTGGGTTTGGTTTGACTGTGGGA
EST: gi|192322688|gb|FK015025.1|FK015025
EST:     TTTTGGAGGAGCGGTTAAATATGGGTCTGAATTTTATTCTTTCTGCAGAG                         CTTGACCACAGGAAAAAGGACTACAAATTTGGGTTTGGTTTGACTGTGGGA
genomic: TTTTGGAGGAGCGGTTAAATATGGGTCTGAATTTTATTCTTTCTGCAGAGgtcaggcatt ... ttaattgcagCTTGACCACAGGAAAAAGGACTACAAATTTGGGTTTGGTTTGACTGTGGGA
EST: gi|16344556|gb|BI970151.1|BI970151
EST:     AATTTTATTCTTTGTGCAGAG                         CTTGACCACAGGAAAAAGGACTACAAATTTGGGTTTGGTTTGACTGTGGGA
genomic: AATTTTATTCTTTCTGCAGAGgtcaggcatt ... ttaattgcagCTTGACCACAGGAAAAAGGACTACAAATTTGGGTTTGGTTTGACTGTGGGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGCCGCCTTAGGGGAAAGATTGATTCCAATGGCTGTGTCGCTGCTTTTTTGGAGGAGCGGTTAAATATGGGTCTGAATTTTATTCTTTCTGCAGAGgtcaggcatttttctttttgcttttccactgctctttttatttgagtagggatgaaaatctagtttggtgggggatgttgagttaggttttgatcggcttttgcatttttgccctgacatggttttcgtatgtattaattgcag

- - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG