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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTTTAGACAAGGAGGCTGTAGAGGATGTGAGAGGGCAAAGAGAGATACCTGACATAAAGCCTGGTTATATTGTGCAACTCAAAGTGgtatggaatttattttttattcatatttgtttgtttggtttttgtttgtgatagtaatttgatcttttgtttactaaatctgatataacag

Basic information

species Glycine max
transcript GLYMA08G34520.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G34520.1 (Glycine max), 5'ss of exon 3
lower sequence: AT1G24240.1 (Arabidopsis thaliana), 5'ss of exon 3
ATTTTAGACAAGGAGGCTGTAGAGGATGTGAGAGGGCAAAGAGAGATACCTGACATAAAGCCTGGTTATATTGTGCAACTCAAAGTGgtatggaatttattttttattcatatttgtttgtttggtttttgtttgtgatagtaatttgatcttttgtttactaaatctgatataacag-----------------
||| |||||||||| || || ||||| ||||||   |  |||||||| || || |||||||||||||| |||||||| || |||||||||   | | |     |   |  || ||  || ||    ||  ||  || | |  ||  | ||||||  | | |||| |   |  |  ||                  
ATTGTAGACAAGGAAGCAGTTGAGGAAGTGAGAACTCTTAGAGAGATTCCAGAGATAAAGCCTGGTTACATTGTGCAGCTAAAAGTGgtaactactgttggcctaggttgtaatttctttttc---ttgggtgagtaagatcaaact-atctttcatcttctaagtgaaacctttcatttactttgtttgaacag

upper sequence: GLYMA08G34520.1 (Glycine max), 5'ss of exon 3
lower sequence: AT5G11750.1 (Arabidopsis thaliana), 5'ss of exon 3
ATTTTAGACAAGGAGGCTGTAGAGGATGTGAGAGGGCAAAGAGAGATACCTGACATAAAGCCTGGTTATATTGTGCAACTCAAAGTGgtatggaatttattttttattcatatttgtttgtttggtttttgtttgtgatagtaatttgatcttttgtttactaaatctgatataacag------------------------------
||| ||||||||||||| || ||||| ||||||   |  |||||||| || || |||||||||||||| ||||| || || |||||||||   | |      ||   |  || ||  || |||  | |  |    ||  |  ||  | ||||||| | | |||| |   |  |  ||                               
ATTGTAGACAAGGAGGCAGTTGAGGAAGTGAGAAATCTTAGAGAGATTCCAGAGATAAAGCCTGGTTACATTGTTCAGCTTAAAGTGgta---agtagggccttagattgtaatttctttttt--tctaggggaatgggatcaaact-atcttttatcttctaagtgaaacctttcataggcttgccatttactttgtttgcacacag

upper sequence: GLYMA08G34520.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv17s0000g09390.t01 (Vitis vinifera), 5'ss of exon 4
ATTTTAGACAAGGAGGCTGTAGAGGATGTGAGAGGGCAAAGAGAGATACCTGACATAAAGCCTGGTTATATTGTGCAACTCAAAGTGgtatggaatttattttttat-tcatatttgtttgtttggtttttgtttgtgatagt---aatttgatc--ttttgtttactaaatctgatataacag------------------------------
||| |||| ||||| || || ||||| ||||| |   | |||||||||||||| |||||||||||||||||||| || |||||||||||||| || |  || || || |  | ||| ||| | |  ||  | | ||| ||  |   | | ||      | |||| |   ||| | |  ||  ||                              
ATTCTAGATAAGGAAGCAGTGGAGGAGGTGAGGGCAAAGAGAGAGATACCTGAGATAAAGCCTGGTTATATTGTTCAGCTCAAAGTGgtatgtaagtgcttgttgatattgtttttatttttattattaatttctgtcattatgtgagtctgggtggctatgttaagggaattttagctataagttgttccattgtgatatttggtatgagcag

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|26048812|gb|CA785265.1|CA785265
EST:     AAAGAGAGATACCTGACATAAAGCCTGGTTATATTGTGCAACTCAAAGTG                         GAAGTACCTGAGAATAAGAGGCGTGTCTCTATTATAAAAGGCATTGCTATT
genomic: AAAGAGAGATACCTGACATAAAGCCTGGTTATATTGTGCAACTCAAAGTGgtatggaatt ... gatataacagGAAGTACCTGAGAATAAGAGGCGTGTCTCTATTATAAAAGGCATTGTTATT
EST: gi|19348978|gb|BM893510.1|BM893510
EST:     AAAGAGAGATACCTGACATAAAGCCTGGTTATATTGTGCAACTCAAAGTG                         GAAGTACCTGAGAATAAGAGGCGTGTCTCTATTATAAAAGGCATTGTTATT
genomic: AAAGAGAGATACCTGACATAAAGCCTGGTTATATTGTGCAACTCAAAGTGgtatggaatt ... gatataacagGAAGTACCTGAGAATAAGAGGCGTGTCTCTATTATAAAAGGCATTGTTATT
EST: gi|120532190|gb|EH260323.1|EH260323
EST:     AAAGAGAGATACCTGACATAAAGCCTGGTTATATTGTGCAACTCAAAGTG                         GAAGTACCTGAGAATAAGAGGCGTGTCTCTATTATAAAAGGCATTGTTATT
genomic: AAAGAGAGATACCTGACATAAAGCCTGGTTATATTGTGCAACTCAAAGTGgtatggaatt ... gatataacagGAAGTACCTGAGAATAAGAGGCGTGTCTCTATTATAAAAGGCATTGTTATT
EST: gi|151409621|gb|EV279429.1|EV279429
EST:     AAAGAGAGATACCTGACATAAAGCCTGGTTATATTGTGCAGCTCAAAGTG                         GAAGTACCTGAGAATAAGAGGCGTGTCTCTATTATAAAAGGCATTGTTATT
genomic: AAAGAGAGATACCTGACATAAAGCCTGGTTATATTGTGCAACTCAAAGTGgtatggaatt ... gatataacagGAAGTACCTGAGAATAAGAGGCGTGTCTCTATTATAAAAGGCATTGTTATT
EST: gi|192330084|gb|FK020900.1|FK020900
EST:     AAAGAGAGATACCTGACATAAAGCCTGGTTATATTGTGCAACTCAAAGTG                         GAAGTACCTGAGAATAAGAGGCGTGTCTCTATTATAAAAGGCATTGTTATT
genomic: AAAGAGAGATACCTGACATAAAGCCTGGTTATATTGTGCAACTCAAAGTGgtatggaatt ... gatataacagGAAGTACCTGAGAATAAGAGGCGTGTCTCTATTATAAAAGGCATTGTTATT
EST: gi|22929866|gb|BU547005.1|BU547005
EST:     AAAGAGAGATACCTGACATAAAGCCTGGTTATATTGTGCAACTCAAAGTG                         GAAGTACCTGAGAATAAGAGGCGTGTCTCTATTATAAAAGGCATTGTTATT
genomic: AAAGAGAGATACCTGACATAAAGCCTGGTTATATTGTGCAACTCAAAGTGgtatggaatt ... gatataacagGAAGTACCTGAGAATAAGAGGCGTGTCTCTATTATAAAAGGCATTGTTATT
EST: gi|120531812|gb|EH259945.1|EH259945
EST:     AAAGAGAGATACCTGACATAAAGCCTGGTTATATTGTGCAACTCAAAGTG                         GAAGTACCTGAGAATAAGAGGCGTGTCTCTATTATAAAAGGCATTGTTATT
genomic: AAAGAGAGATACCTGACATAAAGCCTGGTTATATTGTGCAACTCAAAGTGgtatggaatt ... gatataacagGAAGTACCTGAGAATAAGAGGCGTGTCTCTATTATAAAAGGCATTGTTATT
EST: gi|192300410|gb|FG988827.1|FG988827
EST:     AAAGAGAGATACCTGACATAAAGCCTGGTTATATTGTGCAACTCAAAGTG                         GAAGTACCTGAGAATAAGAGGCGTGTCTCTATTATAAAAGGCATTGTTATT
genomic: AAAGAGAGATACCTGACATAAAGCCTGGTTATATTGTGCAACTCAAAGTGgtatggaatt ... gatataacagGAAGTACCTGAGAATAAGAGGCGTGTCTCTATTATAAAAGGCATTGTTATT
EST: gi|192330085|gb|FK020901.1|FK020901
EST:     AAAGAGAGATACCTGACATAAAGCCTGGTTATATTGTGCAACTCAAAGTG                         GAAGTACCTGAGAATAAGAGGCGTGTCTCTATTATAAAAGGCATTGTTATT
genomic: AAAGAGAGATACCTGACATAAAGCCTGGTTATATTGTGCAACTCAAAGTGgtatggaatt ... gatataacagGAAGTACCTGAGAATAAGAGGCGTGTCTCTATTATAAAAGGCATTGTTATT
EST: gi|20813108|gb|BQ297586.1|BQ297586
EST:     AAAGAGAGATACCTGACATAAAGCCTGGTTATATTGTGCAACTCAAAGTG                         GAAGTACCTGAGAATAAGAAGCGTGTCTCTATTATAAAAGGCATTGTTATT
genomic: AAAGAGAGATACCTGACATAAAGCCTGGTTATATTGTGCAACTCAAAGTGgtatggaatt ... gatataacagGAAGTACCTGAGAATAAGAGGCGTGTCTCTATTATAAAAGGCATTGTTATT
EST: gi|208030856|gb|GD829328.1|GD829328
EST:     AAGAGAGATACCTGACATAAAGCCTGGTTATATTGTGCAACTCAAAAGTG                         GAAGTACCTGAGAATAAGAGGCGTGTCTCTATTATAAAAGGCATTGTTAT
genomic: AAGAGAGATACCTGACATAAAGCCTGGTTATATTGTGCAACTC-AAAGTGgtatggaatt ... gatataacagGAAGTACCTGAGAATAAGAGGCGTGTCTCTATTATAAAAGGCATTGTTAT
EST: gi|21994816|gb|BQ786344.1|BQ786344
EST:     AAAGAGAGATACCTGACATAAAGCCTGGTTATATTGTGCAACTCAAAGTG                         GAAGTACCTGAGAATAAGAGGCGTGTCTCTATTATAAAAGGCATTGTTATT
genomic: AAAGAGAGATACCTGACATAAAGCCTGGTTATATTGTGCAACTCAAAGTGgtatggaatt ... gatataacagGAAGTACCTGAGAATAAGAGGCGTGTCTCTATTATAAAAGGCATTGTTATT
EST: gi|120531982|gb|EH260115.1|EH260115
EST:     AAAGAGAGATACCTGACATAAAGCCTGGTTATATTGTGCAACTCAAAGTG                         GAAGTACCTGAGAATAAGAGGCGTGTCTCTATTATAAAAGGCATTGTTATT
genomic: AAAGAGAGATACCTGACATAAAGCCTGGTTATATTGTGCAACTCAAAGTGgtatggaatt ... gatataacagGAAGTACCTGAGAATAAGAGGCGTGTCTCTATTATAAAAGGCATTGTTATT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATTTTAGACAAGGAGGCTGTAGAGGATGTGAGAGGGCAAAGAGAGATACCTGACATAAAGCCTGGTTATATTGTGCAACTCAAAGTGgtatggaatttattttttattcatatttgtttgtttggtttttgtttgtgatagtaatttgatcttttgtttactaaatctgatataacag

- - - - - - - - - - - - - - - - - - - AAGAGA