Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATTGAAAGTCTTGATCCAGCTTTGCTACGGCCTGGTCGAATTGACAGGAAGATAGAATTTCCTCTTCCTGATATCAAAACAAGGAGACGCATCTTTCAGgtaggcatgactaattttgtgaaagcaatacacctaccatgtgtttgggaaatcttgatggcctggtccatttgtgttctttctttatttttgttttttt...

Basic information

species Glycine max
transcript GLYMA10G04920.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G04920.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os07g49150.1 (Oryza sativa), 5'ss of exon 3
AATTGAAAGTCTTGATCCAGCTTTGCTACGGCCTGGTCGAATTGACAGGAAGATAGAATTTCCTCTTCCTGATATCAAAACAAGGAGACGCATCTTTCAGgtaggcatg-actaattttgtgaaagcaatacacctaccatgtgtttgggaaatcttgatggcctggtccatttgtgttctttctttatttttgttttttt-
 || ||||||||||||||||| |||||||| |||||||| || ||  ||||||||||||||||||| || ||||| ||||| ||| | |||||||| ||||||   ||  | || | |  |        || | || |    ||  ||  ||    ||||   | | ||| || ||  || |   |  | |   |  |    
CATCGAAAGTCTTGATCCAGCATTGCTACGCCCTGGTCGCATAGATCGGAAGATAGAATTTCCTCTGCCAGATATTAAAACTAGGCGGCGCATCTTCCAGgtaaatatccattagtatcttt-------tagaacttcagaatgcatgataa---ctgataagcagttcctttggttctcatgaatgttgtgaatcgtgcag

upper sequence: GLYMA10G04920.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os03g18690.1 (Oryza sativa), 5'ss of exon 4
AATTGAAAGTCTTGATCCAGCTTTGCTACGGCCTGGTCGAATTGACAGGAAGATAGAATTTCCTCTTCCTGATATCAAAACAAGGAGACGCATCTTTCAGgtaggcatgactaattttgtgaaagcaatacacctaccatgtgtttgggaaatcttgatggcctggtccatttgtgttctttctttatttttgttttttt
 |||||||||||||| ||||||||||| || |||||||| || ||||| ||||| ||||||||  | || ||||| ||||| ||||| || ||||| |||||             |||   | |    | ||  | |  | |  |||| ||          |||| | | ||  | |   |  ||| |   ||       
CATTGAAAGTCTTGACCCAGCTTTGCTTCGACCTGGTCGGATAGACAGAAAGATTGAATTTCCGTTACCAGATATTAAAACCAGGAGGCGGATCTTCCAGgtg-----------cttttctacaatgtttcaagttctgtcttattggaaa----------cctgcttcgttcttatcaatagtttttgggtgcag----

upper sequence: GLYMA10G04920.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G095593_T01 (Zea mays), 5'ss of exon 3
AATTGAAAGTCTTGATCCAGCTTTGCTACGGCCTGGTCGAATTGACAGGAAGATAGAATTTCCTCTTCCTGATATCAAAACAAGGAGACGCATCTTTCAGgtaggcatgactaattttg-tgaaagcaat-acacctaccatgtgtttgggaaatcttgatggcctggtccatttgtgttctttctttatttttgttttttt
 |||||||||||||||||||| ||||| ||||| || || || ||| ||||||| ||||||||||| || ||||| ||||| ||  |||||||||| ||||||    ||||   | |   ||| |  | |  ||   || ||||  ||   |    ||| |  | |  |  |   | ||| |    || |            
CATTGAAAGTCTTGATCCAGCCTTGCTTCGGCCAGGCCGTATAGACCGGAAGATTGAATTTCCTCTACCAGATATTAAAACTAGACGACGCATCTTCCAGgtac-tgtgacgtctgtaaatgataatatttgcattaacaatgttcttaataccctttgtt--cttattatagaag-gttgtaaacttgtgcag--------

upper sequence: GLYMA10G04920.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G104373_T01 (Zea mays), 5'ss of exon 4
AATTGAAAGTCTTGATCCAGCTTTGCTACGGCCTGGTCGAATTGACAGGAAGATAGAATTTCCTCTTCCTGATATCAAAACAAGGAGACGCATCTTTCAGgtaggcatgactaattttgtgaaagcaatacacctaccatgtgtttgggaaatcttgatggcctggtccatttgtgttctttctttatttttgttttttt
 |||||||||||||||||||| ||||| || || |||||||||||||| ||||| ||||| ||| | |||||| |||| || ||| | |||||||| |||||            || | ||  |  ||  |  ||      ||||     ||| |  |  || || |   ||  |        ||| ||||  |      
TATTGAAAGTCTTGATCCAGCCTTGCTTCGCCCAGGTCGAATTGACAGAAAGATTGAATTCCCTTTACCTGATGTCAAGACTAGGCGGCGCATCTTCCAGgtgc----------ttctatgtgatgaaagcttctgagtcctgttcttttaat-taaaaagcatgatttgttgttaccaaaattttgttttgatgagcag

upper sequence: GLYMA10G04920.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G056569_T01 (Zea mays), 5'ss of exon 3
AATTGAAAGTCTTGATCCAGCTTTGCTACGGCCTGGTCGAATTGACAGGAAGATAGAATTTCCTCTTCCTGATATCAAAACAAGGAGACGCATCTTTCAGgtaggcatgactaattttgtgaaagcaatacacctaccat--gtgtttgggaaatcttgatggcctggtccatttgtgttctttctttatttttgttttttt
 ||||||||||||||||| |||||||| ||||| || || || ||| ||||||| ||||| ||||| || ||||| ||||| || ||||||||||| ||||| |   | ||  || |   || || ||||     |  ||   |||| |  | | |||  || |||  |  | |   | |  |      |            
CATTGAAAGTCTTGATCCTGCTTTGCTTCGGCCAGGCCGTATAGACCGGAAGATTGAATTCCCTCTCCCAGATATTAAAACTAGAAGACGCATCTTCCAGgt-gctgtaac--atctgtagacagtaatatttgcattatcaatgttcgtaatacctttttgtccttat--aatgaaggttgtaaaccgtgcag--------

upper sequence: GLYMA10G04920.1 (Glycine max), 5'ss of exon 4
lower sequence: AT4G29040.1 (Arabidopsis thaliana), 5'ss of exon 4
AATTGAAAGTCTTGATCCAGCTTTGCTACGGCCTGGTCGAATTGACAGGAAGATAGAATTTCCTCTTCCTGATATCAAAACAAGGAGACGCATCTTTCAGgtaggcatgactaattttgtgaaagcaatacacctaccatgtgtttgggaaatcttgatggcctggtccatttgtgttctttctttatttttgttttttt
||| || |||||||| |||||  |||| || ||||| || ||||| ||||| || || || ||||| || |||||||||||||| ||||| ||||| ||||||   ||   ||||| |    |      | | | |  |  |||| |  |  |  |  |    ||     | || ||||| | | ||   | |       
AATCGAGAGTCTTGACCCAGCACTGCTTCGACCTGGACGGATTGATAGGAAAATCGAGTTCCCTCTCCCAGATATCAAAACAAGAAGACGTATCTTCCAGgta---atatataattctactgagatggcaaatcaatgacttgttcgaaactttcttgttcattgaggt-tgtgggttctgtttataaaatag-------

upper sequence: GLYMA10G04920.1 (Glycine max), 5'ss of exon 4
lower sequence: AT2G20140.1 (Arabidopsis thaliana), 5'ss of exon 4
AATTGAAAGTCTTGATCCAGCTTTGCTACGGCCTGGTCGAATTGACAGGAAGATAGAATTTCCTCTTCCTGATATCAAAACAAGGAGACGCATCTTTCAGgtaggcatgactaattttgtgaaagcaatacacctaccatgtgtttgggaaatcttgatgg-cctggtccatttgtgttctttctttatttttgttttttt
 || || |||||||| || ||  | ||  | || || || || |||||||| || ||||| |||||||| |||||||||||||| ||||| ||||| |||||   ||  |||  |  |    |||   |   | | |  | | | ||     ||| ||  |  ||| ||  ||| |  |        ||| ||        
GATCGAGAGTCTTGACCCGGCACTTCTTAGACCAGGCCGGATCGACAGGAAAATCGAATTCCCTCTTCCAGATATCAAAACAAGAAGACGTATCTTCCAGgttc-cacaactggtgatccttaag---ttttctttctttttttgtgaattttctagaaagatctgatcggtttttaattgcatgccattattag------

upper sequence: GLYMA10G04920.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv07s0005g05160.t01 (Vitis vinifera), 5'ss of exon 4
AATTGAAAGTCTTGATCCAGCTTTGCTACGGCCTGGTCGAATTGACAGGAAGATAGAATTTCCTCTTCCTGATATCAAAACAAGGAGACGCATCTTTCAGgtag--gcatgactaattttgtgaaagcaatacacctaccatgtgtt------------tgggaaatcttgat-----ggcctggtccatttg-tgttctttctttatttttgttttttt---------
|||||||||| | |||||||||||||| |||||||||||||| || |||||||| ||||| ||||||||||| || |||||||| |||||||| || ||||||   |  ||  |||  || || ||     | |   || || | ||            || || | ||  ||       |||||     ||  | ||  |     | | |  ||| |||         
AATTGAAAGTTTGGATCCAGCTTTGCTTCGGCCTGGTCGAATAGATAGGAAGATTGAATTCCCTCTTCCTGACATTAAAACAAGAAGACGCATTTTCCAGgtacatgtgtgtttaagattatgcaaatgcaatattcactatattttcatccgacttcttgtgacaactgaatcaccaaacctggcttgattactattactaagcaaatctcatttatttaaattgcag

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|208191748|gb|GD991500.1|GD991500
EST:     AACAAGGAGACGCTATTCTTTTCAG                         ATACACACATCGAGGATGACATTAGCTGATGATGTCAACTTGGAAGAATT
genomic: AACAAGGAGACGC-A-TC-TTTCAGgtaggcatga ... tggaattaagATACACACATCGAGGATGACATTAGCTGATGATGTCAACTTGGAAGAATT
EST: gi|7233057|gb|AW568408.1|AW568408
EST:     AGATAGAATTTCCTCTTCCTGATATCAAAACAAGGAGACGCATCTTTCAG                         ATACACACATCGAGGATGACATTAGCTGATGATGTCAACTTGGAAGAATTT
genomic: AGATAGAATTTCCTCTTCCTGATATCAAAACAAGGAGACGCATCTTTCAGgtaggcatga ... tggaattaagATACACACATCGAGGATGACATTAGCTGATGATGTCAACTTGGAAGAATTT
EST: gi|208208074|gb|GE003361.1|GE003361
EST:     AGATAGAACTTCCTCTTCCTGANANCAAAACAAGGAGACGCATCTTTCAG                         ATACACACATCGAGGATGACATTAGCTGATGATGTCAACTTGGAAGAATTT
genomic: AGATAGAATTTCCTCTTCCTGATATCAAAACAAGGAGACGCATCTTTCAGgtaggcatga ... tggaattaagATACACACATCGAGGATGACATTAGCTGATGATGTCAACTTGGAAGAATTT
EST: gi|6454107|gb|AW184855.1|AW184855
EST:     AGATAGAATTTCCTCTTCCTGATATCAAAACAAGGAGACGCATCTTTCAG                         ATACACACATCGAGGATGACATTAGCTGATGATGTCAACTTGGAAGAATTT
genomic: AGATAGAATTTCCTCTTCCTGATATCAAAACAAGGAGACGCATCTTTCAGgtaggcatga ... tggaattaagATACACACATCGAGGATGACATTAGCTGATGATGTCAACTTGGAAGAATTT
EST: gi|208176638|gb|GD979545.1|GD979545
EST:     AGATAGAATTTCCTCTTCCTGATATCAAAACAAGGAGACGCATCTTTCAG                         ATACACACATCGAGGATGACATTAGCTGATGATGTCAACTTGGAAGAATTT
genomic: AGATAGAATTTCCTCTTCCTGATATCAAAACAAGGAGACGCATCTTTCAGgtaggcatga ... tggaattaagATACACACATCGAGGATGACATTAGCTGATGATGTCAACTTGGAAGAATTT
EST: gi|7796438|gb|AW781835.1|AW781835
EST:     AGATAGAATTTCCTCTTCCTGATATCAAAACAAGGAGACGCATCTTTCAG                         ATACACACATCGAGGATGACATTAGCTGATGATGTCAACTTGGAAGAATTT
genomic: AGATAGAATTTCCTCTTCCTGATATCAAAACAAGGAGACGCATCTTTCAGgtaggcatga ... tggaattaagATACACACATCGAGGATGACATTAGCTGATGATGTCAACTTGGAAGAATTT
EST: gi|14991505|gb|BI317178.1|BI317178
EST:     AGATAGAATTTCCTCTTCCTGATATCAAAACAAGGAGACGCATCTTTCAG                         ATACACACATCGAGGATGACA
genomic: AGATAGAATTTCCTCTTCCTGATATCAAAACAAGGAGACGCATCTTTCAGgtaggcatga ... tggaattaagATACACACATCGAGGATGACA
EST: gi|209698517|gb|BW652396.1|BW652396
EST:     AGATAGAATTTCCTCTTCCTGATATCAAAACAAGGAGACGCATCTTTCAG                         ATACACACATCGAGGATGACATTAGCTGATGATGTCAACTTGGAAGAATTT
genomic: AGATAGAATTTCCTCTTCCTGATATCAAAACAAGGAGACGCATCTTTCAGgtaggcatga ... tggaattaagATACACACATCGAGGATGACATTAGCTGATGATGTCAACTTGGAAGAATTT
EST: gi|14258976|gb|BG881884.1|BG881884
EST:     AGATAGAATTTCCTCTTCCTGATATCAAAACAAGGAGACGCATCTTTCAG                         ATACACACATCGAGGATGACATTAGCTGATGATGTCAACTTGGAAGAATTT
genomic: AGATAGAATTTCCTCTTCCTGATATCAAAACAAGGAGACGCATCTTTCAGgtaggcatga ... tggaattaagATACACACATCGAGGATGACATTAGCTGATGATGTCAACTTGGAAGAATTT
EST: gi|23057351|gb|BU578025.1|BU578025
EST:     AGATAGAATTTCCTCTTCCTGATATCAAAACAAGGAGACGCATCTTTCAG                         ATACACACATCGAGGATGACATTAGCTGATGATGTCAACTTGGAAGAATTT
genomic: AGATAGAATTTCCTCTTCCTGATATCAAAACAAGGAGACGCATCTTTCAGgtaggcatga ... tggaattaagATACACACATCGAGGATGACATTAGCTGATGATGTCAACTTGGAAGAATTT
EST: gi|18710289|gb|BM522491.1|BM522491
EST:     AGATAGAATTTCCTCTTCCTGATATCAAAACAAGGAGACGCATCTTTCAG                         ATACACACATCGAGGATGACATTAGCTGATGATGTCAACTTGGAAGAATTT
genomic: AGATAGAATTTCCTCTTCCTGATATCAAAACAAGGAGACGCATCTTTCAGgtaggcatga ... tggaattaagATACACACATCGAGGATGACATTAGCTGATGATGTCAACTTGGAAGAATTT
EST: gi|254313974|gb|GR831603.1|GR831603
EST:     AGATAGAATTTCCTCTTCCTGATATCAAAACAAGGAGACGCATCTTTCAG                         ATACACACATCGAGGATGACATTAGCTGATGATGTCAACTTGGAAGAATTT
genomic: AGATAGAATTTCCTCTTCCTGATATCAAAACAAGGAGACGCATCTTTCAGgtaggcatga ... tggaattaagATACACACATCGAGGATGACATTAGCTGATGATGTCAACTTGGAAGAATTT
EST: gi|208292233|gb|GE092067.1|GE092067
EST:     AGATAGAATTTCCTCTTCCTGATATCAAAACAAGGAGACGCATCTTTCAG                         ATACACACATCGAGGATGACATTAGCTGATGATGTCAACTTGGAAGAATTT
genomic: AGATAGAATTTCCTCTTCCTGATATCAAAACAAGGAGACGCATCTTTCAGgtaggcatga ... tggaattaagATACACACATCGAGGATGACATTAGCTGATGATGTCAACTTGGAAGAATTT
EST: gi|208043860|gb|GD842342.1|GD842342
EST:     AGATAGAATTTCCTCTTCCTGATATCAAAACAAGGAGACGCATCTTTCGG                         ATACACACATCGAGGATGACATTAGCTGATGATGTCAACTTGGAAGAATTT
genomic: AGATAGAATTTCCTCTTCCTGATATCAAAACAAGGAGACGCATCTTTCAGgtaggcatga ... tggaattaagATACACACATCGAGGATGACATTAGCTGATGATGTCAACTTGGAAGAATTT
EST: gi|6454899|gb|AW185509.1|AW185509
EST:     AGATAGAATTTCCTCTTCCTGATATCAAAACAAGGAGACGCATCTTTCAG                         ATACACACATCGAGGATGACATTAGCTGATGATGTCAACTTGGAAGAATT-
genomic: AGATAGAATTTCCTCTTCCTGATATCAAAACAAGGAGACGCATCTTTCAGgtaggcatga ... tggaattaagATACACACATCGAGGATGACATTAGCTGATGATGTCAACTTGGAAGAATTT
EST: gi|254316119|gb|GR825928.1|GR825928
EST:     AGATAGAATTTCCTCTTCCTGATATCAAAACAAGGAGACGCATCTTTCAG                         ATACACACATCGAGGATGACATTAGCTGATGATGTCAACTTGGAAGAATTT
genomic: AGATAGAATTTCCTCTTCCTGATATCAAAACAAGGAGACGCATCTTTCAGgtaggcatga ... tggaattaagATACACACATCGAGGATGACATTAGCTGATGATGTCAACTTGGAAGAATTT
EST: gi|24205871|gb|BU965124.1|BU965124
EST:     AGATAGAATTTCCTCTTCCTGATATCAAAACAAGGAGACGCATCTTTCAG                         ATACACACATCGAGGATGACATTAGCTGATGATGTCAACTTGGAAGAATTT
genomic: AGATAGAATTTCCTCTTCCTGATATCAAAACAAGGAGACGCATCTTTCAGgtaggcatga ... tggaattaagATACACACATCGAGGATGACATTAGCTGATGATGTCAACTTGGAAGAATTT
EST: gi|22927270|gb|BU544409.1|BU544409
EST:     AGATAGAATTTCCTCTTCCTGATATCAAAACAAGGAGACGCATCTTTCAG                         ATACACACATCGAGGATGACATTAGCTGATGATGTCAACTTGGAANNNTTT
genomic: AGATAGAATTTCCTCTTCCTGATATCAAAACAAGGAGACGCATCTTTCAGgtaggcatga ... tggaattaagATACACACATCGAGGATGACATTAGCTGATGATGTCAACTTGGAAGAATTT
EST: gi|254316118|gb|GR825927.1|GR825927
EST:     AGATAGAATTTCCTCTTCCTGATATCAAAACAAGGAGACGCATCTTTCAG                         ATACACACATCGAGGATGACATTAGCTGATGATGTCAACT
genomic: AGATAGAATTTCCTCTTCCTGATATCAAAACAAGGAGACGCATCTTTCAGgtaggcatga ... tggaattaagATACACACATCGAGGATGACATTAGCTGATGATGTCAACT
EST: gi|193316137|gb|FK282665.1|FK282665
EST:     ATCAAAACAAGGAGACGCATCTTTCAG                         ATACACACATCGAGGATGACATTAGCTGATGATGTCAACTTGGAAGAATTT
genomic: ATCAAAACAAGGAGACGCATCTTTCAGgtaggcatga ... tggaattaagATACACACATCGAGGATGACATTAGCTGATGATGTCAACTTGGAAGAATTT
EST: gi|298164759|gb|HO014404.1|HO014404
EST:     AGATAGAATTTCCTCTTCCTGATATCAAAACAAGGAGACGCATCTTTCAG                         ATACACACATCGAGG
genomic: AGATAGAATTTCCTCTTCCTGATATCAAAACAAGGAGACGCATCTTTCAGgtaggcatga ... tggaattaagATACACACATCGAGG
EST: gi|14011173|gb|BG726104.1|BG726104
EST:     AGATAGAATTTCCTCTTCCTGATATCAAAACAAGGAGACGCATCTTTCAG                         ATACACACATCGAGGATGACATTAGCTGATGATGTCAACTTGGAAGAATTT
genomic: AGATAGAATTTCCTCTTCCTGATATCAAAACAAGGAGACGCATCTTTCAGgtaggcatga ... tggaattaagATACACACATCGAGGATGACATTAGCTGATGATGTCAACTTGGAAGAATTT
EST: gi|193577240|gb|FK536603.1|FK536603
EST:     AGATAGAATTTCCTCTTCCTGATATCAAAACAAGGAGACGCATCTTTCAG                         ATACACACATCGAGGATGACATTAGCTGATGATGTCAACTTGGAAGAATTT
genomic: AGATAGAATTTCCTCTTCCTGATATCAAAACAAGGAGACGCATCTTTCAGgtaggcatga ... tggaattaagATACACACATCGAGGATGACATTAGCTGATGATGTCAACTTGGAAGAATTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AATTGAAAGTCTTGATCCAGCTTTGCTACGGCCTGGTCGAATTGACAGGAAGATAGAATTTCCTCTTCCTGATATCAAAACAAGGAGACGCATCTTTCAGgtaggcatgactaattttgtgaaagcaatacacctaccatgtgtttgggaaatcttgatggcctggtccatttgtgttctttctttatttttgttttttt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA