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

AGTGGATGTCTGGAGCTGTGGTGTAATTTTATATGCGCTTCTTTGTGGCACTCTTCCTTTTGATGATGAAAACATTCCAAATCTCTTCAAGAAAATAAAGgtattgttaatgttaattttatttatttaattaactgagtgatcagctgttgtctacatatatattaaaactgcccaggccttggacatatggctaattt...

Basic information

species Glycine max
transcript GLYMA08G26180.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G26180.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os05g45420.3 (Oryza sativa), 5'ss of exon 5
AGTGGATGTCTGGAGCTGTGGTGTAATTTTATATGCGCTTCTTTGTGGCACTCTTCCTTTTGATGATGAAAACATTCCAAATCTCTTCAAGAAAATAAAGgtattgttaatgttaattttatttatttaattaactgagtgatcagctgttgtctacatatatattaaaactgcccaggccttggacatatggctaattt--
||| ||||| ||||| |||||||| ||| | ||||| ||||||||||| || ||||| |||||||| || || ||||| || || || ||||||||||||||     ||      || | || |||   | | |   ||       ||  | ||    ||||| |||||       |  |  ||  | | | | |  | |  
AGTTGATGTGTGGAGTTGTGGTGTTATTCTTTATGCTCTTCTTTGTGGTACCCTTCCATTTGATGACGAGAATATTCCCAACCTTTTTAAGAAAATAAAGgt-----tagcaaagatgtgatatatcctactgataaaggtgctgcctcatctccttttatatgttaaagta----aaactctgtccgttttgatgttctag

upper sequence: GLYMA08G26180.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os03g17980.2 (Oryza sativa), 5'ss of exon 5
AGTGGATGTCTGGAGCTGTGGTGTAATTTTATATGCGCTTCTTTGTGGCACTCTTCCTTTTGATGATGAAAACATTCCAAATCTCTTCAAGAAAATAAAGgta--------ttgttaatgtta-----attttat---ttatttaattaactgagtgatcagctgt-tgtctacatatatattaaaactgcccaggccttggacatatggctaattt--------------
 || ||||| ||||||||||| || ||  | ||||| || |||||||| |||||||| ||||||||||| || || || || || ||||| || ||||||||         || |  | | ||     |  || |    | ||   || |||   || ||       | ||||  | | |||||  | |    |    |||   || || |   |||              
GGTTGATGTATGGAGCTGTGGAGTGATCCTTTATGCTCTCCTTTGTGGTACTCTTCCATTTGATGATGAGAATATCCCCAACCTATTCAAAAAGATAAAGgtgagatagatttatgtaggctagccagaccttgtaaactcttatgttgactagatggtccttaaaatatctaagtttttattattattctgtatat-ttgagtatttgacctgtttgtttggtgttccag

upper sequence: GLYMA08G26180.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G077278_T01 (Zea mays), 5'ss of exon 5
AGTGGATGTCTGGAGCTGTGGTGTAATTTTATATGCGCTTCTTTGTGGCACTCTTCCTTTTGATGATGAAAACATTCCAAATCTCTTCAAGAAAATAAAGgtattgttaatgttaattttatttatttaattaactgagtgatcagctgttgtctacatatatattaaaactgcccag-gccttggacatatggctaattt---
||| || |||||||||||||| || ||| | ||||| ||||||||||||||||| || ||||| ||||| || |||||||| || |||||||||||||||||      |    |||| | | | ||||   || ||||   |    |  || | |   | ||| || ||  ||| ||     ||     |||  ||||||    
AGTTGACGTCTGGAGCTGTGGAGTTATTCTTTATGCTCTTCTTTGTGGCACTCTCCCATTTGACGATGAGAATATTCCAAACCTTTTCAAGAAAATAAAGgtg-----agctataatctcagtgattt---tacctgaaaaagattcctttatat---tttatttttaatatgctcaataaattctttttatatctaattgtag

upper sequence: GLYMA08G26180.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G107867_T02 (Zea mays), 5'ss of exon 5
AGTGGATGTCTGGAGCTGTGGTGTAATTTTATATGCGCTTCTTTGTGGCACTCTTCCTTTTGATGATGAAAACATTCCAAATCTCTTCAAGAAAATAAAGgtattgttaatgttaattttatttatttaattaactgagtgatcagctgttgtctacatatatattaaaactgcccaggccttggacatatggctaattt
 || ||||| ||||| ||||| || ||| | ||||| ||||||||||| |||||||| ||||||||||| || ||||| ||||| ||||| ||||| |||||   |  |    | || |    ||   |  |  |  |   || || |  |||       | ||| |  |||  | |     |||   || || |     
GGTCGATGTATGGAGTTGTGGGGTGATTCTTTATGCTCTTCTTTGTGGAACTCTTCCATTTGATGATGAGAATATTCCCAATCTGTTCAAAAAAATTAAGgtga-gaaagcacttatgtggaatacaaaccttgc--aacaattagattctgttctggagt-tatgaccactctcta---tctggttttacggttttag-

upper sequence: GLYMA08G26180.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G180704_T01 (Zea mays), 5'ss of exon 5
AGTGGATGTCTGGAGCTGTGGTGTAATTTTATATGCGCTTCTTTGTGGCACTCTTCCTTTTGATGATGAAAACATTCCAAATCTCTTCAAGAAAATAAAGgtattgttaatgttaattttatttatttaattaactgagtgatcagctgttgtctac--atatatattaaaactgcccaggccttggacatatggctaattt--
||| ||||| ||||||||||| || ||| | ||||| ||| | ||||| ||||| || |||||||| || ||||| ||||| || || ||||||||||||||   |  | | |  |   | ||   |||   |  |   |  | |  ||||  || |  || || |    | |||      |||             | |||  
AGTTGATGTGTGGAGCTGTGGGGTTATTCTTTATGCTCTTTTATGTGGTACTCTGCCATTTGATGACGAGAACATACCAAACCTTTTTAAGAAAATAAAGgt-cagcaagtatctacggttttacattagaaatgttcattgttacatgtt-cctgctgatttagagcctatctgtatctccctccttttctcttgcactttag

upper sequence: GLYMA08G26180.1 (Glycine max), 5'ss of exon 5
lower sequence: AT3G29160.3 (Arabidopsis thaliana), 5'ss of exon 5
AGTGGATGTCTGGAGCTGTGGTGTAATTTTATATGCGCTTCTTTGTGGCACTCTTCCTTTTGATGATGAAAACATTCCAAATCTCTTCAAGAAAATAAAGgtattgttaatgttaattttatttatttaattaactgagtgatcagctgttgtctacatatatattaaaact-gcccaggccttggacatatggctaattt
||| ||||| ||||| || || || || || || || ||  | || || ||||||||||||||||||||||||||||| || || ||||||||||| |||||| |||   |  || ||| ||| |  |||   |||   |  | |   | |   ||  ||| |     ||||   | |||  ||     | |   ||    
AGTAGATGTATGGAGTTGCGGAGTTATATTGTACGCTCTATTATGCGGTACTCTTCCTTTTGATGATGAAAACATTCCCAACCTTTTCAAGAAAATTAAGgtactgtacgttatactttgattcagctaaaagactct-tcttaaatggattcatatgtatgtgaagtaacttatcaaggtgttttttttctctttag---

upper sequence: GLYMA08G26180.1 (Glycine max), 5'ss of exon 5
lower sequence: AT3G01090.2 (Arabidopsis thaliana), 5'ss of exon 5
AGTGGATGTCTGGAGCTGTGGTGTAATTTTATATGCGCTTCTTTGTGGCACTCTTCCTTTTGATGATGAAAACATTCCAAATCTCTTCAAGAAAATAAAGgtat-tgttaatgttaattttattt-atttaattaactgagtgatcagctgttgtctacatatatattaaaactgcccaggccttggacatatggctaattt---------------
||| |||||||||||||||||||| ||  | || || ||||| ||||| || ||||| |||||||||||||||||||| || || || ||||| |||||||||  |  || |  |  |  | |||  | || || |   | || |    | || | |   ||| | |   | |  ||   | ||   || | |   |  | |               
AGTAGATGTCTGGAGCTGTGGTGTGATACTCTACGCTCTTCTCTGTGGGACGCTTCCATTTGATGATGAAAACATTCCCAACCTTTTTAAGAAGATAAAGgtacattctattactcctcctctttcgtctatttgaactaatgcttgaattttttat-tttatttttcgtatcacccttcgactgtaaccttttttttttctcttttcgtcctatag

upper sequence: GLYMA08G26180.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv14s0108g01230.t01 (Vitis vinifera), 5'ss of exon 5
AGTGGATGTCTGGAGCTGTGGTGTAATTTTATATGCGCTTCTTTGTGGCACTCTTCCTTTTGATGATGAAAACATTCCAAATCTCTTCAAGAAAATAAAGgtattgttaatgttaattttatttatttaattaactgagtgatcagctgttgtctacata--tatattaaaactgcccaggccttggacatatggctaattt
 |||||||| |||||||| ||||| ||||| || || ||||||||||| |||||||| |||||||||||||||||||| || || ||||||||||||||||||||  |||  ||| ||   |   ||| |  |  ||   | | |||||   ||| |||   | | ||    |     |    ||     | ||  ||    
GGTGGATGTATGGAGCTGCGGTGTTATTTTGTACGCTCTTCTTTGTGGTACTCTTCCATTTGATGATGAAAACATTCCCAACCTTTTCAAGAAAATAAAGgtatttctaaatttacttcactaacttttagcatgtgccagcttagctgg-atctgcattgctcttttttgtccttttactttttatttttttgtttagaa-

upper sequence: GLYMA08G26180.1 (Glycine max), 5'ss of exon 5
lower sequence: PP1S28_12V6.1 (Physcomitrella patens), 5'ss of exon 4
AGTGGATGTCTGGAGCTGTGGTGTAATTTTATATGCGCTTCTTTGTGGCACTCTTCCTTTTGATGATGAAAACATTCCAAATCTCTTCAAGAAAATAAAGgt---attgttaat--gttaattttatttatttaattaactgagtgatcagctgttgtctacatatatattaaaactgcc-caggccttggacatatggctaattt
 |||||||| ||||||||||| || ||| | ||||| ||| | |||||  || | || ||||| || ||||||||||||||||| || |||||||| |||||   ||||||  |  |     | ||  |||||  ||   ||  || | | | |   |  |      ||||     |    ||| ||    | |   |  ||    
GGTGGATGTGTGGAGCTGTGGCGTTATTCTGTATGCTCTTTTGTGTGGTTCTTTACCCTTTGACGACGAAAACATTCCAAATCTGTTTAAGAAAATCAAGgttagattgttggttcggcgtgtctagctatttgtttcg-tgtctggt-aacagcgctgcagtcgagtattgtgtttctttcagtccgcttagaaccgcgta----

upper sequence: GLYMA08G26180.1 (Glycine max), 5'ss of exon 5
lower sequence: EFJ10631 (Selaginella moellendorffii), 5'ss of exon 5
AGTGGATGTCTGGAGCTGTGGTGTAATTTTATATGCGCTTCTTTGTGGCACTCTTCCTTTTGATGATGAAAACATTCCAAATCTCTTCAAGAAAATAAAGgtattgttaatgt-taattttatttatttaattaactgagtgatcagctgttgtctacatatatattaaaactgcccaggccttggacatatggctaattt
||||||||| |||||||||||||| || || || || ||||| ||||| | | | |||||||| || || ||||| ||||| || |||||||| || |||||| || |  ||  |  || |    ||    ||  || |   ||  ||  | |                                                
AGTGGATGTATGGAGCTGTGGTGTCATATTGTACGCACTTCTGTGTGGAAGTTTACCTTTTGACGACGAGAACATCCCAAACCTTTTCAAGAAGATCAAGgtaatggttttggatgcttctgccaatgcctttctctcaacaat-ggcgctcgcag---------------------------------------------

upper sequence: GLYMA08G26180.1 (Glycine max), 5'ss of exon 5
lower sequence: EFJ35371 (Selaginella moellendorffii), 5'ss of exon 4
AGTGGATGTCTGGAGCTGTGGTGTAATTTTATATGCGCTTCTTTGTGGCACTCTTCCTTTTGATGATGAAAACATTCCAAATCTCTTCAAGAAAATAAAGgtatt-gttaatgttaattttatttatttaattaactgagtgatcagctgttgtctacatatatattaaaactgcccaggccttggacatatggctaattt
||||||||| |||||||||||||| || || || || ||||| ||||| | | | |||||||| || || ||||| ||||| || |||||||| || |||||| | | |   | |  || |    ||    ||  || |   ||  ||  | |                                                
AGTGGATGTATGGAGCTGTGGTGTCATATTGTACGCACTTCTGTGTGGAAGTTTACCTTTTGACGACGAGAACATCCCAAACCTTTTCAAGAAGATCAAGgtagtagctttggatgcttgtgccaatgcctttctctcaacaat-ggcgctcgcag---------------------------------------------

upper sequence: GLYMA08G26180.1 (Glycine max), 5'ss of exon 5
lower sequence: EFJ16445 (Selaginella moellendorffii), 5'ss of exon 4
AGTGGATGTCTGGAGCTGTGGTGTAATTTTATATGCGCTTCTTTGTGGCACTCTTCCTTTTGATGATGAAAACATTCCAAATCTCTTCAAGAAAATAAAGgtattgttaatgttaattttatttatttaattaactgagtgatcagctgttgtctacatatatattaaaactgcccaggccttggacatatggctaattt
||| || || ||||||||||| || ||  |||| || ||||| |||||||  ||||| ||||| || ||||||||||||||||| ||||||||||| |||||    | | |    |    |   | |   |||| ||  |  ||   | |||| ||     |                                      
AGTAGACGTATGGAGCTGTGGGGTGATACTATACGCACTTCTCTGTGGCAGCCTTCCCTTTGACGACGAAAACATTCCAAATCTATTCAAGAAAATCAAGgtga-atcagt-cagacaacaagaagtc--ttaaatgttttttcttttcttgtttattcccag-------------------------------------

upper sequence: GLYMA08G26180.1 (Glycine max), 5'ss of exon 5
lower sequence: EFJ17922 (Selaginella moellendorffii), 5'ss of exon 4
AGTGGATGTCTGGAGCTGTGGTGTAATTTTATATGCGCTTCTTTGTGGCACTCTTCCTTTTGATGATGAAAACATTCCAAATCTCTTCAAGAAAATAAAGgtattgttaatgttaattttatttatttaattaactgagtgatcagctgttgtctacatatatattaaaactgcccaggccttggacatatggctaattt
||| || || ||||||||||| || ||  |||| || ||||| |||||||  ||||| ||||| || ||||||||||||||||| ||||||||||| |||||      |||         | | |   ||  |   |  | |   | | || | | | | | ||||   |                              
AGTAGACGTATGGAGCTGTGGGGTGATACTATACGCACTTCTCTGTGGCAGCCTTCCCTTTGACGACGAAAACATTCCAAATCTATTCAAGAAAATCAAGgtg-----aat--------cagtcagacaacaagaagtcttaaatgttttttttttcttgtttattcccag-----------------------------

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|308099103|gb|HO760944.1|HO760944
EST:     CTCTTCCTTTTGATGATGAAAACATTCCAAATCTCTTCAAGAAAATAAAG                         GGCGGTATTTACACTCTTCCCAGTCATCTATCTCCCAATGCTAGAGATTTG
genomic: CTCTTCCTTTTGATGATGAAAACATTCCAAATCTCTTCAAGAAAATAAAGgtattgttaa ... tttcatgtagGGCGGTATTTACACTCTTCCCAGTCATCTATCTCCCAATGCTAGAGATTTG
EST: gi|208210675|gb|GE011736.1|GE011736
EST:     CTCTTCCTTTTGATGATGAAAACATTCCAAATCTCTTCAAGAAAATAAAG                         GGCGGTATTTACACTCTTCCCAGTCATCTATACTACCCAATGCTAGAGATT
genomic: CTCTTCCTTTTGATGATGAAAACATTCCAAATCTCTTCAAGAAAATAAAGgtattgttaa ... tttcatgtagGGCGGTATTTACACTCTTCCCAGTCATCTAT-CT-CCCAATGCTAGAGATT
EST: gi|209726300|gb|BW659613.1|BW659613
EST:     CTCTTCCTTTTGATGATGAAAACATTCCAAATCTCTTCAAGAAA-TAAAG                         GGCGGTATTTACACTCTTCCCAGTCATCTATCTCCCAATGCT
genomic: CTCTTCCTTTTGATGATGAAAACATTCCAAATCTCTTCAAGAAAATAAAGgtattgttaa ... tttcatgtagGGCGGTATTTACACTCTTCCCAGTCATCTATCTCCCAATGCT
EST: gi|17519479|gb|BM188521.1|BM188521
EST:     CTCTTCCTTTTGATGATGAAAACATTCCAAATCTCTTCAAGAAAATAAAG                         GGCGGTATTTACACTCTTCCCAGTCATCTATCTCCCAATGCTAGAGATTTG
genomic: CTCTTCCTTTTGATGATGAAAACATTCCAAATCTCTTCAAGAAAATAAAGgtattgttaa ... tttcatgtagGGCGGTATTTACACTCTTCCCAGTCATCTATCTCCCAATGCTAGAGATTTG
EST: gi|193495997|gb|FK461937.1|FK461937
EST:     CTCTTCCTTTTGATGATGAAAACATTCCAAATCTCTTCAAGAAAATAAAG                         GGCGGTATTTACACTCTTCCCAGTCATCTATCTCCCAATGCTAG
genomic: CTCTTCCTTTTGATGATGAAAACATTCCAAATCTCTTCAAGAAAATAAAGgtattgttaa ... tttcatgtagGGCGGTATTTACACTCTTCCCAGTCATCTATCTCCCAATGCTAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGTGGATGTCTGGAGCTGTGGTGTAATTTTATATGCGCTTCTTTGTGGCACTCTTCCTTTTGATGATGAAAACATTCCAAATCTCTTCAAGAAAATAAAGgtattgttaatgttaattttatttatttaattaactgagtgatcagctgttgtctacatatatattaaaactgcccaggccttggacatatggctaattt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA