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'   		25  
 5'  3'   		26  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagcctcagttcaatgtgttgcgtaaataatttcatttataatatttttatctgataccaatggcatcaattgtagTGGTTCCCGCGAGACTCATCTGCACCAATATCGTATGCAACTTTCTCATGTGATAGCCAGCTGGTATTTGCCAGCTTTTTAGATGCAACAATCTGTGTAT

Basic information

species Glycine max
transcript GLYMA08G22910.2
intron # 24
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G22910.2 (Glycine max), 3'ss of exon 24
lower sequence: Vv09s0002g08370.t01 (Vitis vinifera), 3'ss of exon 23
------gttagcctcagttcaatgtgttgcgtaaataatttcatttataatatttttatctgataccaatggcatcaattgtagTGGTTCCCGCGAGACTCATCTGCACCAATATCGTATGCAACTTTCTCATGTGATAGCCAGCTGGTATTTGCCAGCTTTTTAGATGCAACAATCTGTGTAT
       ||  |   | |   ||    | |     |  || | || |   | || | || |  |     |   ||   ||  ||||| | |  || ||  |  |||| ||||||||  ||||||| ||||||||||||||||  || |||| |||||| || |||||||||||  |||||||||
gtactctttttctctaatcacattcactcctctgcttcttgctttcagtttcttatgatatttttttcttcttatt--tttcagTGGGTTCAACGTGAAGCTGCTGCTCCAATATCCCATGCAACCTTCTCATGTGATAGCCTCCTAGTATATGCCAGTTTCTTAGATGCAACTGTCTGTGTAT
















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|19934774|gb|BQ079804.1|BQ079804
EST:     AAACTCAGCTCGCCATTTATGAAGCAACTAAATTAGAAGGACTAAAGCAG                         TGGTTCCCGCGAGACTCATCTGCACCAATATCGTATGCAACTTTCTCATGT
genomic: AAACTCAGCTCGCCATTTATGAAGCAACTAAATTAGAAGGACTAAAGCAGgttagcctca ... tcaattgtagTGGTTCCCGCGAGACTCATCTGCACCAATATCGTATGCAACTTTCTCATGT
EST: gi|14999140|gb|BI320223.1|BI320223
EST:     AAACTCAGCTCGCCATTTATGAAGCAACTAAATTAGAAGGACTAAAGCAG                         TGGTTCCCGCGAGACTCATCTG
genomic: AAACTCAGCTCGCCATTTATGAAGCAACTAAATTAGAAGGACTAAAGCAGgttagcctca ... tcaattgtagTGGTTCCCGCGAGACTCATCTG
EST: gi|27427240|gb|CA938760.1|CA938760
EST:     AAACTCAGCTCGCCATTTATGAAGCAACTAAATTAGAAGGACTAAAGCAG                         TGGTTCCCGCGAGACTCATCTGCACCAATATCGTATGCAACTTTCTCATGT
genomic: AAACTCAGCTCGCCATTTATGAAGCAACTAAATTAGAAGGACTAAAGCAGgttagcctca ... tcaattgtagTGGTTCCCGCGAGACTCATCTGCACCAATATCGTATGCAACTTTCTCATGT
EST: gi|6963505|gb|AW432198.1|AW432198
EST:     AAACTCAGCTCGCCATTTATGAAGCAACTAAATTAGAAGGACTAAAGCAG                         TGGTTCCCGCGAGACTCATCTGCACCAATATCGTATGCAACTTTCTCATGT
genomic: AAACTCAGCTCGCCATTTATGAAGCAACTAAATTAGAAGGACTAAAGCAGgttagcctca ... tcaattgtagTGGTTCCCGCGAGACTCATCTGCACCAATATCGTATGCAACTTTCTCATGT
EST: gi|10845152|gb|BF068313.1|BF068313
EST:     AAACTCAGCTCGCCATTTATGAAGCAACTAAATTAGAAGGACTAAAGCAG                         TGGTTCCCGCGAGACTCATCTGCACCAATATCGTATGCAACTTTCTCATGT
genomic: AAACTCAGCTCGCCATTTATGAAGCAACTAAATTAGAAGGACTAAAGCAGgttagcctca ... tcaattgtagTGGTTCCCGCGAGACTCATCTGCACCAATATCGTATGCAACTTTCTCATGT
EST: gi|15812260|gb|BI784535.1|BI784535
EST:     AAACTCAGCTCGCCATTTATGAAGCAACTAAATTAGAAGGACTAAAGCAG                         TGGTTCCCGCGAGACTCATCTGCACCAATATCGTATGCAACTTTCTCATGT
genomic: AAACTCAGCTCGCCATTTATGAAGCAACTAAATTAGAAGGACTAAAGCAGgttagcctca ... tcaattgtagTGGTTCCCGCGAGACTCATCTGCACCAATATCGTATGCAACTTTCTCATGT
EST: gi|19054194|gb|BM732861.1|BM732861
EST:     AAACTCAGCTCGCCATTTATGAAGCAACTAAATTAGAAGGACTAAAGCAG                         TGGTTCCCGCGAGACTCATCTGCACCAATATCGTATGCAACTTTCTCATGT
genomic: AAACTCAGCTCGCCATTTATGAAGCAACTAAATTAGAAGGACTAAAGCAGgttagcctca ... tcaattgtagTGGTTCCCGCGAGACTCATCTGCACCAATATCGTATGCAACTTTCTCATGT
EST: gi|11687500|gb|BF595176.1|BF595176
EST:     AAACTCAGCTCGCCATTTATGAAGCAACTAAATTAGAAGGACTAAAGCAG                         TGGTTCCCGCGAGACTCATCTGCACCAATATCGTATGCAACTTTCTCATGT
genomic: AAACTCAGCTCGCCATTTATGAAGCAACTAAATTAGAAGGACTAAAGCAGgttagcctca ... tcaattgtagTGGTTCCCGCGAGACTCATCTGCACCAATATCGTATGCAACTTTCTCATGT
EST: gi|10239010|gb|BE807898.1|BE807898
EST:     AAACTCAGCTCGCCATTTATGAAGCAACTAAATTAGAAGGACTAAAGCAG                         TGGTTCCCGCGAGACTCATCTGCACCAATATCGTATGCAACTTTCTCATGT
genomic: AAACTCAGCTCGCCATTTATGAAGCAACTAAATTAGAAGGACTAAAGCAGgttagcctca ... tcaattgtagTGGTTCCCGCGAGACTCATCTGCACCAATATCGTATGCAACTTTCTCATGT
EST: gi|207824854|gb|GD796790.1|GD796790
EST:     AAACTCAGCTCGCCATTTATGAAGCAACTAAATTAGAAGGACTAAAGCAG                         TGGTCCCCGCGAGACTCATTTGCACCAATATCGTATGCAACTTTCTCATGT
genomic: AAACTCAGCTCGCCATTTATGAAGCAACTAAATTAGAAGGACTAAAGCAGgttagcctca ... tcaattgtagTGGTTCCCGCGAGACTCATCTGCACCAATATCGTATGCAACTTTCTCATGT
EST: gi|7233186|gb|AW568535.1|AW568535
EST:     AAACTCAGCTCGCCATTTATGAAGCAACTAAATTAGAAGGACTAAAGCAG                         TGGTTCCCGCGAGACTCATCTGCACCAATATCGTATGCAACTTTCTCATGT
genomic: AAACTCAGCTCGCCATTTATGAAGCAACTAAATTAGAAGGACTAAAGCAGgttagcctca ... tcaattgtagTGGTTCCCGCGAGACTCATCTGCACCAATATCGTATGCAACTTTCTCATGT
EST: gi|26048827|gb|CA785280.1|CA785280
EST:     AAACTCAGCTCGCCATTTATGAAGCAACTAAATTAGAAGGACTAAAGCAG                         TGGTTCCCGCGAGACTCATCTGCACCAATATCGTATGCAACTTTCTCATGT
genomic: AAACTCAGCTCGCCATTTATGAAGCAACTAAATTAGAAGGACTAAAGCAGgttagcctca ... tcaattgtagTGGTTCCCGCGAGACTCATCTGCACCAATATCGTATGCAACTTTCTCATGT
EST: gi|254339484|gb|GR848148.1|GR848148
EST:     AAACTCAGCTCGCCATTTATG-AGC-ACTAAATTAGAAGGACTAAAGCAG                         TGGTTCCCGCGAGACTCATCTGCACCAATATCGTATGCAACTTTCTCATGT
genomic: AAACTCAGCTCGCCATTTATGAAGCAACTAAATTAGAAGGACTAAAGCAGgttagcctca ... tcaattgtagTGGTTCCCGCGAGACTCATCTGCACCAATATCGTATGCAACTTTCTCATGT
EST: gi|193388224|gb|FK353907.1|FK353907
EST:     AAACTCAGCTCGCCATTTATGAAGCAACTAAATTAGAAGGACTAAAGCAG                         TGGTTCCCGCGAGACTCATCTGCACCAATATCGTATGCAACTT-CTCAT
genomic: AAACTCAGCTCGCCATTTATGAAGCAACTAAATTAGAAGGACTAAAGCAGgttagcctca ... tcaattgtagTGGTTCCCGCGAGACTCATCTGCACCAATATCGTATGCAACTTTCTCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgtaaataatttcatttataatatttttatctgataccaatggcatcaattgtagTGGTTCCCGCGAGACTCATCTGCACCAATATCGTATGCAACTTTCTCATGTGATAGCCAGCTGGTATTTGCCAGCTTTTTAGATGCAACAATCTGTGTAT
                            atctgat  putative branch site (score: 4)
     ataatttcatttataa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttagcctcagttcaatgtgttgcgtaaataatttcatttataatatttttatctgataccaatggcatcaattgtagTGGTTCCCGCGAGACTCATCTGCACCAATATCGTATGCAACTTTCTCATGTGATAGCCAGCTGGTATTTGCCAGCTTTTTAGATGCAACAATCTGTGTAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG