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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACTTGCTGGTCACCAAGGGTGTCATCAAGATTGCTGATTTTGGCCTAGCCCGGGAGATCAGTTCACAACCACCATATACTGAGTATGTCTCCACACGGTGgtatgtttgtcaactcaatactttattattattgtaaatgtataatgcactatgttatatgtatttaatttaataaataatgtgtcatgacctctgattag

Basic information

species Glycine max
transcript GLYMA16G17580.2
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G17580.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv02s0033g01110.t01 (Vitis vinifera), 5'ss of exon 6
ACTTGCTGGTCACCAAGGGTGTCATCAAGATTGCTGATTTTGGCCTAGCCCGGGAGATCAGTTCACAACCACCATATACTGAGTATGTCTCCACACGGTGgtatgt-ttgtcaactcaatactttattattattgtaaatgtataatgcactatg---ttatatgtatttaat-ttaataaataatgtgtcatgacctctgattag------------
||||| |||| || || | ||| || || |||||||||||||| || || |||||||||| ||| ||||||||||| || || |||||||| ||||| ||||| || || |    | | |  ||| |     || | ||||| |   |  ||      ||  || |   | || ||| |   |  | | |  | | | || |                
ACTTGTTGGTTACAAAAGATGTAATAAAAATTGCTGATTTTGGTCTTGCTCGGGAGATCAATTCTCAACCACCATACACGGAATATGTCTCTACACGCTGgtacgtgtttttgggttacttgtttgtcccctttattaatgtgttgcgtccttcaaatttcaatctccctgatattatttggttgtattttgttatcactaaaatatggacatggcag
















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|208167092|gb|GD962994.1|GD962994
EST:     ATCAGTTCACAACCACCATATACTGAGTATGTCTCCACACGGTG                         GTATCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGT
genomic: ATCAGTTCACAACCACCATATACTGAGTATGTCTCCACACGGTGgtatgtttgt ... ctctgattagGTATCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGT
EST: gi|193718080|gb|FK653378.1|FK653378
EST:     ATACTGAGTATTGTCTCCACACGGTG                         GTATCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGT
genomic: ATACTGAGTA-TGTCTCCACACGGTGgtatgtttgt ... ctctgattagGTATCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGT
EST: gi|193495067|gb|FK460199.1|FK460199
EST:     CGGGAGATCAGTTCACAACCACCATATACTGAGTATGTCTCCACACGGTG                         GTATCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGT
genomic: CGGGAGATCAGTTCACAACCACCATATACTGAGTATGTCTCCACACGGTGgtatgtttgt ... ctctgattagGTATCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGT
EST: gi|208299186|gb|GE100085.1|GE100085
EST:     GTTCACAACCACCATTATTACTGTAGTATGTCTCCACACGGTG                         GTATCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGT
genomic: GTTCACAACCACCA-TA-TACTG-AGTATGTCTCCACACGGTGgtatgtttgt ... ctctgattagGTATCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGT
EST: gi|193599933|gb|FK550734.1|FK550734
EST:     CGGGAGATCAGTTCACAACCACCATATACTGAGTATGTCTCCACACGGTG                         GTATCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGT
genomic: CGGGAGATCAGTTCACAACCACCATATACTGAGTATGTCTCCACACGGTGgtatgtttgt ... ctctgattagGTATCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGT
EST: gi|208169630|gb|GD967787.1|GD967787
EST:     GGAGATCTAGTTTCACAACCGCCATATACTGAGTATGTCTCCACACGGTG                         GTATCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGT
genomic: GGAGATC-AG-TTCACAACCACCATATACTGAGTATGTCTCCACACGGTGgtatgtttgt ... ctctgattagGTATCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGT
EST: gi|193345679|gb|FK313762.1|FK313762
EST:     AGATCAGTTCACAACCACCATATACTGAGTATGTCTCCACACGGTG                         GTATCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGT
genomic: AGATCAGTTCACAACCACCATATACTGAGTATGTCTCCACACGGTGgtatgtttgt ... ctctgattagGTATCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGT
EST: gi|193423617|gb|FK387282.1|FK387282
EST:     GGGAGATCTAGTTCACAACCACCATATACTGAGTATGTCACCACACGGTG                         GTATCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGT
genomic: GGGAGATC-AGTTCACAACCACCATATACTGAGTATGTCTCCACACGGTGgtatgtttgt ... ctctgattagGTATCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGT
EST: gi|207727178|gb|GD701128.1|GD701128
EST:     CGGGAGATCAGTTCACAACCACCATATACTGAGTATGTCTCCACACGGTG                         GTATCGTGCTCCTGAAGTCCTGCTTCGGTCCCATCTATATAGCTCTAAAGT
genomic: CGGGAGATCAGTTCACAACCACCATATACTGAGTATGTCTCCACACGGTGgtatgtttgt ... ctctgattagGTATCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGT
EST: gi|193651862|gb|FK595565.1|FK595565
EST:     AGTTCACAACCACCATATACTGAGTATGTCTCCACACGGTG                         GTATCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGT
genomic: AGTTCACAACCACCATATACTGAGTATGTCTCCACACGGTGgtatgtttgt ... ctctgattagGTATCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGT
EST: gi|12690052|gb|BG156388.1|BG156388
EST:     CGGGAGATCAGTTCACAACCACCATATACTGAGTATGTCTCCACACGGTG                         GTATCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGT
genomic: CGGGAGATCAGTTCACAACCACCATATACTGAGTATGTCTCCACACGGTGgtatgtttgt ... ctctgattagGTATCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGT
EST: gi|193411420|gb|FK381551.1|FK381551
EST:     CGGGAGATCAGTTCACAACCACCATATACTGAGTATGTCTCCACACGGTG                         GTATCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGT
genomic: CGGGAGATCAGTTCACAACCACCATATACTGAGTATGTCTCCACACGGTGgtatgtttgt ... ctctgattagGTATCGTGCTCCTGAAGTCCTGCTTCAGTCCCATCTATATAGCTCTAAAGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACTTGCTGGTCACCAAGGGTGTCATCAAGATTGCTGATTTTGGCCTAGCCCGGGAGATCAGTTCACAACCACCATATACTGAGTATGTCTCCACACGGTGgtatgtttgtcaactcaatactttattattattgtaaatgtataatgcactatgttatatgtatttaatttaataaataatgtgtcatgacctctgattag

- - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA