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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTGGGTTTGCTGGGATTGGAGTTGGCGCTGCTTACTATGGTCTAAGGCCTGTTGTGGAGTTTATGACTTTTAACTTCTCCATGCAGgttggagtttatcttgattgcatcctttctttcttaaattgagtgtgagttaaatgatatattttttacagcagcaccacttaatttatgtatatgtaca...

Basic information

species Glycine max
transcript GLYMA14G36540.3
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G36540.3 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G097226_T02 (Zea mays), 5'ss of exon 6
GCTGGGTTTGCTGGGATTGGAGTTGGCGCTGCTTACTATGGTCTAAGGCCTGTTGTGGAGTTTATGACTTTTAACTTCTCCATGCAGgttggagttt-atcttgattgcatcctttctttcttaaattgagtgtgagttaaatgatatattttttacagcagcac-cacttaatttatgtatatgtaca
||||| ||| |||| ||||| ||||| || |||||  |||||||  ||||| || | ||||||||||| ||||| ||||| ||||||||  || ||| || ||| |  ||   ||    | ||  | |  |  |   ||||   ||||    |  ||  | |     |||  | |  |   |   | | 
GCTGGTTTTACTGGCATTGGTGTTGGTGCAGCTTATCATGGTCTTCGGCCTATTATAGAGTTTATGACATTTAATTTCTCGATGCAGgtcagattttgatattggtaacaaatttaaagttttttactt-gcctttcttaacgtatat-ccctggacgtctgagtgtactataatggtccctgcttgct

upper sequence: GLYMA14G36540.3 (Glycine max), 5'ss of exon 6
lower sequence: AT5G50850.1 (Arabidopsis thaliana), 5'ss of exon 7
GCTGGGTTTGCTGGGATTGGAGTTGGCGCTGCTTACTATGGTCTAAGGCCTGTTGTGGAGTTTATGACTTTTAACTTCTCCATGCAGgttggagtttatcttgattgcatcctttctttcttaaattgagtgtgagt---taaatgatatattttttacagcagcaccacttaatttatgtatatgtaca
||||| ||| |||| ||||||||||| ||||| ||   |||  ||| ||| ||||| || |||||||| ||||||||||| ||||||||| | |||  | ||  ||  || ||||   |  || |||  |  |   |   | | |    |||   | |  |  ||   ||| |  | ||| |  | |   
GCTGGATTTACTGGAATTGGAGTTGGTGCTGCCTATGCTGGCTTAAAGCCCGTTGTAGAATTTATGACGTTTAACTTCTCTATGCAGgttagcgttggtttttgttatattctttgaatactacattttgcctctttctttgacttgattatgcataattgttgcgttactcagatcatgcac-tctg--

upper sequence: GLYMA14G36540.3 (Glycine max), 5'ss of exon 6
lower sequence: Vv17s0000g00690.t01 (Vitis vinifera), 5'ss of exon 6
GCTGGGTTTGCTGGGATTGGAGTTGGCGCTGCTTACTATGGTCTAAGGCCTGTTGTGGAGTTTATGACTTTTAACTTCTCCATGCAGgttggagtttatcttgattgcatcctttctttcttaaattgagtgtgagttaaatgata--tattttttacagcagcaccacttaatttatgtatatgtaca--
|| || ||||| || ||||||||||| ||||||||| ||||||| | |||| |  | || |||||||| ||||| |||||| |||||||  |||||   |||  ||  |    ||  |  || |||||||| | | | |  |  ||  | | | ||   | |  |||| |||     | |||   |  |  
GCGGGCTTTGCCGGAATTGGAGTTGGTGCTGCTTACCATGGTCTTAAGCCTATCATAGAATTTATGACATTTAATTTCTCCTTGCAGgtcagagtt--actttcttaaaaa--ttggtctttgaattgagtcttaatcatgtcttaggtctctcttgtggtattaccagttaccacctctattcctgtatc

upper sequence: GLYMA14G36540.3 (Glycine max), 5'ss of exon 6
lower sequence: PP1S368_36V6.1 (Physcomitrella patens), 5'ss of exon 6
GCTGGGTTTGCTGGGATTGGAGTTGGCGCTGCTTACTATGGTCTAAGGCCTGTTGTGGAGTTTATGACTTTTAACTTCTCCATGCAGgttggagtttatcttgattgcatcctttctttcttaaat--tgagtgtgagttaaatgatatattttttacagcagcaccacttaatttatgtatatgtaca
||||| || || ||  |||| ||||| || ||    ||||| || | |||| |||| ||||||||||| ||||||||| ||||||||||   || | || || |||     | |  |   || |||  |  ||    |   |  ||||| | |||     ||    | ||| |   | |  | ||    
GCTGGATTCGCAGGTCTTGGTGTTGGAGCAGCAATGTATGGCCTGAAGCCTATTGTTGAGTTTATGACCTTTAACTTCGCCATGCAGgt--aagctgattttcattcttctcataataatttcaatgtttcgttcttggacacggatatgtatttgcagacatggactcttgaagaaagcttttggttt

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|7588536|gb|AW704259.1|AW704259
EST:     ATGGTCTAAGGCCTGTTGTGGAGTTTATGACTTTTAACTTCTCCATGCAG                         GCAATAGATCATATTATTAACTCTGCCGCAAAATCAAACTACATGTCTGCT
genomic: ATGGTCTAAGGCCTGTTGTGGAGTTTATGACTTTTAACTTCTCCATGCAGgttggagttt ... tttgttgcagGCAATAGATCATATTATTAACTCTGCCGCAAAATCAAACTACATGTCTGCT
EST: gi|254319588|gb|GR829100.1|GR829100
EST:     ATGGTCTAAGGCCTGTTGTGGAGTTTATGACTTTTAACTTCTCCATGCAG                         GCAATAGATCATATTATTAACTCTGCCGCAAAATCAAACTACATGTCTGCT
genomic: ATGGTCTAAGGCCTGTTGTGGAGTTTATGACTTTTAACTTCTCCATGCAGgttggagttt ... tttgttgcagGCAATAGATCATATTATTAACTCTGCCGCAAAATCAAACTACATGTCTGCT
EST: gi|120533350|gb|EH261483.1|EH261483
EST:     ATGGTCTAAGGCCTGTTGTGGAGTTTATGACTTTTAACTTCTCCATGCAG                         GCAATAGATCATATTATTAACTCTGCCGCAAAATCAAACTACATGTCTGCT
genomic: ATGGTCTAAGGCCTGTTGTGGAGTTTATGACTTTTAACTTCTCCATGCAGgttggagttt ... tttgttgcagGCAATAGATCATATTATTAACTCTGCCGCAAAATCAAACTACATGTCTGCT
EST: gi|192323797|gb|FK015608.1|FK015608
EST:     ATGGTCTAAGGCCTGTTGTGGAGTTTATGACTTTTAACTTCTCCATGCAG                         GCAATAGATCATATTATTAACTCTGCCGCAAAATCAAACTACGTGTCTGCT
genomic: ATGGTCTAAGGCCTGTTGTGGAGTTTATGACTTTTAACTTCTCCATGCAGgttggagttt ... tttgttgcagGCAATAGATCATATTATTAACTCTGCCGCAAAATCAAACTACATGTCTGCT
EST: gi|37994649|gb|CF806308.1|CF806308
EST:     ATGGTCTAAGGCCTGTTGTGGAGTTTATGACTTTTAACTTCTCCATGCAG                         GCAATAGATCATATTATTAACTCTGCCGCAAAATCAAACTACATGTCTGCT
genomic: ATGGTCTAAGGCCTGTTGTGGAGTTTATGACTTTTAACTTCTCCATGCAGgttggagttt ... tttgttgcagGCAATAGATCATATTATTAACTCTGCCGCAAAATCAAACTACATGTCTGCT
EST: gi|151396530|gb|EV266407.1|EV266407
EST:     ATGGTCTAAGGCCTGTTGTGGAGTTTATGACTTTTAACTTCTCCATGCAG                         GCAATAGATCATATTATTAACTCTGCCGCAAAATCAAACTACATGTCTGCT
genomic: ATGGTCTAAGGCCTGTTGTGGAGTTTATGACTTTTAACTTCTCCATGCAGgttggagttt ... tttgttgcagGCAATAGATCATATTATTAACTCTGCCGCAAAATCAAACTACATGTCTGCT
EST: gi|21638580|gb|BM139626.1|BM139626
EST:     ATGGTCTAAGGCCTGTTGTGGAGTTTATGACTTTTAACTTCTCCATGCAG                         GCAATAGATCATATTATTAACTCTGCCGCAAAATCAAACTACATGTCTGCT
genomic: ATGGTCTAAGGCCTGTTGTGGAGTTTATGACTTTTAACTTCTCCATGCAGgttggagttt ... tttgttgcagGCAATAGATCATATTATTAACTCTGCCGCAAAATCAAACTACATGTCTGCT
EST: gi|151404289|gb|EV274099.1|EV274099
EST:     ATGGTCTAAGGCCTGTTGTGGAGTTTATGACTTTTAACTTCTCCATGCAG                         GCAATAGATCATATTATTAACTCTGCCGCAAAATCAAACTACATGTCTGCT
genomic: ATGGTCTAAGGCCTGTTGTGGAGTTTATGACTTTTAACTTCTCCATGCAGgttggagttt ... tttgttgcagGCAATAGATCATATTATTAACTCTGCCGCAAAATCAAACTACATGTCTGCT
EST: gi|254340298|gb|GR858423.1|GR858423
EST:     ATGGTCTAAGGCCTGTTGTGGAGTTTATGACTTTTAACTTCTCCATGCAG                         GCAATAGATCATATTATTAACTCTGCCGCAAAATCAAACTACATGTCTGCT
genomic: ATGGTCTAAGGCCTGTTGTGGAGTTTATGACTTTTAACTTCTCCATGCAGgttggagttt ... tttgttgcagGCAATAGATCATATTATTAACTCTGCCGCAAAATCAAACTACATGTCTGCT
EST: gi|254335254|gb|GR846751.1|GR846751
EST:     ATGGTCTAAGGCCTGTTGTGGAGTTTATGACTTTTAACTTCTCCATGCAG                         GCAATAGATCATATTATTAACTCTGCCGCAAAATCAAACTACATGTCTGCT
genomic: ATGGTCTAAGGCCTGTTGTGGAGTTTATGACTTTTAACTTCTCCATGCAGgttggagttt ... tttgttgcagGCAATAGATCATATTATTAACTCTGCCGCAAAATCAAACTACATGTCTGCT
EST: gi|16996929|gb|BM086301.1|BM086301
EST:     ATGGTCTAAGGCCTGTTGTGGAGTTTATGACTTTTAACTTCTCCATGCAG                         GCAATAGATCATATTATTAACTCTGCCGCAAAATCAAACTACATGTCTGCT
genomic: ATGGTCTAAGGCCTGTTGTGGAGTTTATGACTTTTAACTTCTCCATGCAGgttggagttt ... tttgttgcagGCAATAGATCATATTATTAACTCTGCCGCAAAATCAAACTACATGTCTGCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCTGGGTTTGCTGGGATTGGAGTTGGCGCTGCTTACTATGGTCTAAGGCCTGTTGTGGAGTTTATGACTTTTAACTTCTCCATGCAGgttggagtttatcttgattgcatcctttctttcttaaattgagtgtgagttaaatgatatattttttacagcagcaccacttaatttatgtatatgtaca

- - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG