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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ccctggattttatcaatttgatacatgaacatattagtatccattggtaatccgttttaattattattaattactaacaccttttttttgttgccatctaGATTTCTTGCTGAGTATAGATTTGATGTCTCAAAATTGGAGCCAGTGGTGGCCAA

Basic information

species Glycine max
transcript GLYMA17G37540.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G37540.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv08s0056g01640.t01 (Vitis vinifera), 3'ss of exon 10
-------ccctggattttatcaatttgatacatgaacatattagtatccattggtaatccgttttaattattattaattactaacaccttttttttgttgccatctaGATTTCTTGCTGAGTATAGATTTGATGTCTCAAAATTGGAGCCAGTGGTGGCCAA-
            ||  ||     ||| |||  ||      |||  ||  |||  |  ||   ||||||| | |||  || || |   || | |||| ||      |||||||||| | |||||||||||||||||||||||| |||| ||  ||||||| || 
aaaaaagggaaagaggttgcaggttttatatttgt-----ttaccatttatta-ttttctcctttaatt-tcatttgtt-ctgatgactctattttctttgttcttagATTTCTTTCCGAGTATAGATTTGATGTCTCAAAACTGGAACCGCTGGTGGCAAAG
















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|207829920|gb|GD804986.1|GD804986
EST:     GGGCAAGACATCTCTGCCATATGAACCTGTTTATAGTGACGATCAAGCAA                         GATTTCTCGCAGAGTATAGATTTGATGTCTCAAAATTGGAGCCAGTGGTGG
genomic: GGGCAAGACATCTCTGCCATATGAACCTGTTTATAGTGACGATCAAGCAAggtagttata ... ttgccatctaGATTTCTTGCTGAGTATAGATTTGATGTCTCAAAATTGGAGCCAGTGGTGG
EST: gi|192301029|gb|FG987984.1|FG987984
EST:     GGGCAAGACATCTCTGCCATATGAACCTGTTTATAGTGACGATCAAGCAA                         GATTTCTTGCTGAGTATAGATTTGATGTCTCAAAATTGGAGCCAGTGGTGG
genomic: GGGCAAGACATCTCTGCCATATGAACCTGTTTATAGTGACGATCAAGCAAggtagttata ... ttgccatctaGATTTCTTGCTGAGTATAGATTTGATGTCTCAAAATTGGAGCCAGTGGTGG
EST: gi|193549001|gb|FK510070.1|FK510070
EST:     GGGCAAGACATCTCTGCCATATGAACCTGTTTATAGTGACGATCAAGCAA                         GATTTCTCGCAGAGTATAGATTTGATGTCTCAAAATTGGAGCCAGTGGTGG
genomic: GGGCAAGACATCTCTGCCATATGAACCTGTTTATAGTGACGATCAAGCAAggtagttata ... ttgccatctaGATTTCTTGCTGAGTATAGATTTGATGTCTCAAAATTGGAGCCAGTGGTGG
EST: gi|120492530|gb|EH220697.1|EH220697
EST:     GGGCAAGACATCTCTGCCATATGAACCTGTTTATAGTGACGATCAAGCAA                         GATTTCTTGCTGAGTATAGATTTGATGTCTCAAAATTGGAGCCAGTGGTGG
genomic: GGGCAAGACATCTCTGCCATATGAACCTGTTTATAGTGACGATCAAGCAAggtagttata ... ttgccatctaGATTTCTTGCTGAGTATAGATTTGATGTCTCAAAATTGGAGCCAGTGGTGG
EST: gi|151403004|gb|EV272817.1|EV272817
EST:     GGGCAAGACATCTCTGCCATATGAACCTGTTTATAGTGACGATCAAGCAA                         GATTTCTTGCTGAGTATAGATTTGATGTCTCAAAATTGGAGCCAGTGGTGG
genomic: GGGCAAGACATCTCTGCCATATGAACCTGTTTATAGTGACGATCAAGCAAggtagttata ... ttgccatctaGATTTCTTGCTGAGTATAGATTTGATGTCTCAAAATTGGAGCCAGTGGTGG
EST: gi|120492830|gb|EH220997.1|EH220997
EST:     GGGCAAGACATCTCTGCCATATGAACCTGTTTATAGTGACGATCAAGCAA                         GATTTCTTGCTGAGTATAGATTTGATGTCTCANAATTGGAGCCAGTGGTGG
genomic: GGGCAAGACATCTCTGCCATATGAACCTGTTTATAGTGACGATCAAGCAAggtagttata ... ttgccatctaGATTTCTTGCTGAGTATAGATTTGATGTCTCAAAATTGGAGCCAGTGGTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggtaatccgttttaattattattaattactaacaccttttttttgttgccatctaGATTTCTTGCTGAGTATAGATTTGATGTCTCAAAATTGGAGCCAGTGGTGGCCAA
                          tactaac  putative branch site (score: 0)
                                  ccttttttttgttgcc  CT-rich tract
         ttttaattattattaa  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ccctggattttatcaatttgatacatgaacatattagtatccattggtaatccgttttaattattattaattactaacaccttttttttgttgccatctaGATTTCTTGCTGAGTATAGATTTGATGTCTCAAAATTGGAGCCAGTGGTGGCCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG
ccctgga
- - - - - - - - - - - -catgaac