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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcttgtatttaaaaaattaattgtgattaaatatccttgtggcactgaaaaatcccatctgatttatgtattctctccaaacttaatgccaggttgtggaacttgatttcttgtatcccagTGAAGGTATTCATCGAAGGTGGGATAATGGTTATCGCATCACCTCAACTGCTGCAACATGGGATCAAGCTGCTTTTGTTCTTAGTGTCCCAAGAAGAAAA

Basic information

species Glycine max
transcript GLYMA06G09190.2
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G09190.2 (Glycine max), 3'ss of exon 14
lower sequence: LOC_Os01g10150.1 (Oryza sativa), 3'ss of exon 14
----------------------------------gtcttgtatttaaaaaattaattgtgattaaatatccttgtggcactgaaaaatcccatctgatttatgtattctctccaaacttaatgccaggttgtggaacttgatttcttgtatcccagTGAAGGTATTCATCGAAGGTGGGATAATGGTTATCGCATCACCTCAACTGCTGCAACATGGGATCAAGCTGCTTTTGTTCTTAGTGTCCCAAGAAGAAAA
                                  |  ||  |||| |  |   |  |   | | | ||||  |     |   |||| ||      ||||| | |  |||| |  | ||   |   |||| || |||||||||||||| ||||| |||||||| || |||| | | ||||||| |||||||||||| ||  |||| || || ||||| || || |  |                             
gtacgtttggagtgtccaagagccttgtaaaattgaatt-cattttagcagcaagctac-actgactatcaattgaatatgtaaaagtcttga--gattt-tattatctcgcatatctcttttgtagGTAGTAGAACTTGATTTCTTATATCCGAGTGAAGGAATCCATCAACGCTGGGATAGTGGTTATCGCATAACTGCAACAGCAGCCACATGTGACCAGGTGG-----------------------------

upper sequence: GLYMA06G09190.2 (Glycine max), 3'ss of exon 14
lower sequence: LOC_Os01g10150.2 (Oryza sativa), 3'ss of exon 14
----------------------------------gtcttgtatttaaaaaattaattgtgattaaatatccttgtggcactgaaaaatcccatctgatttatgtattctctccaaacttaatgccaggttgtggaacttgatttcttgtatcccagTGAAGGTATTCATCGAAGGTGGGATAATGGTTATCGCATCACCTCAACTGCTGCAACATGGGATCAAGCTGCTTTTGTTCTTAGTGTCCCAAGAAGAAAA
                                  |  ||  |||| |  |   |  |   | | | ||||  |     |   |||| ||      ||||| | |  |||| |  | ||   |   |||| || |||||||||||||| ||||| |||||||| || |||| | | ||||||| |||||||||||| ||  |||| || || ||||| || || |  |||||                         
gtacgtttggagtgtccaagagccttgtaaaattgaatt-cattttagcagcaagctac-actgactatcaattgaatatgtaaaagtcttga--gattt-tattatctcgcatatctcttttgtaggtagTAGAACTTGATTTCTTATATCCGAGTGAAGGAATCCATCAACGCTGGGATAGTGGTTATCGCATAACTGCAACAGCAGCCACATGTGACCAGGTGGCTTT-------------------------

upper sequence: GLYMA06G09190.2 (Glycine max), 3'ss of exon 14
lower sequence: GRMZM2G116151_T03 (Zea mays), 3'ss of exon 14
-------------------------------------------------------------------gtcttgtatttaaaaaattaattgtgattaa-atatccttgtgg--------cactgaaaa--atcccatctgatttatgtattctctccaa---acttaatgccaggttgtggaacttgatttcttgtatcccagTGAAGGTATTCATCGAAGGTGGGATAATGGTTATCGCATCACCTCAACTGCTGCAACATGGGATCAAGCTGCTTTTGTTCTTAGTGTCCCAAGAAGAAAA
                                                                   | | ||  || | |    | | | | |  || ||| | |   |           |||||||        |   | ||   | || | |  ||     ||  |   |||||||||| ||||| ||||||||||| ||||| ||||| |||||| | ||||||||||| | |||||||||  | ||||| || ||||||||||| || |                             
gtacgttgacgtgctcagaaggctggcctttgctttgaatcgtctactatccaggaaaaaacatatcgacatgccttgatattgctgactctcaagaacatagcttcaagaaaaacatatgctgaaaacagcattgttaaacttggttcttatttttaatgtttttggttttagGTTGTGGAGCTTGACTTCTTGTATCCAAGTGAGGGTATCCATCGACGATGGGATAATGGATTTCGCATCACGGCTACTGCAGCTACATGGGATCAGGCAG-----------------------------

upper sequence: GLYMA06G09190.2 (Glycine max), 3'ss of exon 14
lower sequence: GRMZM2G095634_T01 (Zea mays), 3'ss of exon 7
--gtcttgtatttaaaaaattaattgtgattaaatatc----cttgtggc---actgaaaaatcccatctgatttatgtattctctccaaacttaatg-ccaggttgtggaacttgatttcttgtatcccagTGAAGGTATTCATCGAAGGTGGGATAATGGTTATCGCATCACCTCAACTGCTGCAACATGGGATCAAGCTGCTTTTGTTCTTAGTGTCCCAAGAAGAAAA
  ||| |  |  |  |  || |  | ||     |  ||    || || ||   |||  |||| | | | |   |||| |   || |    | ||| |  |||||| || ||||| ||||||||||||||||| || || ||||||  ||||||||| |  |||||  | || ||| || || |||| || || ||||| ||||                             
gagtcgttcagatcgactatcacctctgcaccgacttctcgactagtcgcccgactttaaaacctcgttt--cttat-tgaactattggcatttactttccagGTGGTTGAACTGGATTTCTTGTATCCCAGCGAGGGAATTCATAAAAGGTGGGACAGGGGTTACTGGATAACCGCAGCTCCTGCTACTTGTGATCAGGCTG-----------------------------

upper sequence: GLYMA06G09190.2 (Glycine max), 3'ss of exon 14
lower sequence: Vv09s0002g03680.t01 (Vitis vinifera), 3'ss of exon 14
gtcttgtatttaaaaaattaattgtgattaaatatccttgtggcactgaaaaatcccatctgatttatgtattctctccaaacttaatgccaggttgtggaacttgatttcttgtatcccagTGAAGGTATTCATCGAAGGTGGGATAATGGTTATCGCATCACCTCAACTGCTGCAACATGGGATCAAGCTGCTTTTGTTCTTAGTGTCCCAAGAAGAAAA
   || | |  |    | ||  |     ||| |     | |||| |  ||    ||  | |  || |   ||||| |  |   |||||  |||||||| || || |||||  | || || || ||||||||||||||| |||||||||||||||  || || ||  ||||||| ||||| |||||||| ||||                             
--gttatctggattttactatgttctcctaatttgttatatggctcctaag---cctttattcttcactgattctgttga---ttaatttcagGTTGTTGAGCTGGATTTTCTTTACCCTAGCGAAGGTATTCATCGACGGTGGGATAATGGTTTCCGTATTACAGCAACTGCAGCAACTTGGGATCAGGCTG-----------------------------

upper sequence: GLYMA06G09190.2 (Glycine max), 3'ss of exon 14
lower sequence: PP1S131_16V6.1 (Physcomitrella patens), 3'ss of exon 14
-------------------------------------------------------------------------gtcttgtatttaaaaa-attaattg--tgattaaatatccttgtggcactgaaaaatcccatctgatttatgtattctctccaaacttaatgcc------aggttgtggaacttgatttcttgtatcccagTGAAGGTATTCATCGAAGGTGGGATAATGGTTATCGCATCACCTCAACTGCTGCAACATGGGATCAAGCTGCTTTTGTTCTTAGTGTCCCAAGAAGAAAA
                                                                          |   |||  | |||| |||   ||    ||| |  || | |||        |  | |  ||   |||  | | |  |  | ||  |   ||||      |||| || || ||||||||||||||||||||||||||||||||| || | ||||| | ||| || ||||| ||||| |||||||| || |||||||| || |                             
gtaattagcgctctaagcctacttgatttacgaaaaccgcatactatttttgcttcttcgactcggagcagatatgaagtaaatgaaaatatttgctgaccaatttagaattcctgtcatcggacatcacctgattacattcctctctcttaccgaatgtatttgccctctgcagGTCGTTGAGCTTGATTTCTTGTATCCCAGTGAAGGTATTCATAGACGATGGGACAGTGGATACCGCATAACCTCTACTGCTGCGACTTGGGATCAGGCAG-----------------------------

upper sequence: GLYMA06G09190.2 (Glycine max), 3'ss of exon 14
lower sequence: PP1S66_174V6.1 (Physcomitrella patens), 3'ss of exon 14
--------------------------------------------------------------------------------------------gtcttgtatttaaaaaattaattgtgattaaatatccttgtggcactg-------aaaaatcccatctgatttatgtattctctccaaacttaatgcc---aggttgtggaacttgatttcttgtatcccagTGAAGGTATTCATCGAAGGTGGGATAATGGTTATCGCATCACCTCAACTGCTGCAACATGGGATCAAGCTGCTTTTGTTCTTAGTGTCCCAAGAAGAAAA
                                                                                            |      || |  |  | |  ||||||   || | | | |  |    |        |  || | || || ||     | |    |     ||     |   |||| || || ||||| ||||||||||| || |||||||||||  |  | ||||| | ||| ||||||||||| || |||||||| |||||||||||||| |                             
gtgattaaaaccgtcgatcggtttttttattaaactttcatttatttttatcagctttatgattttagcatgatccaaagtgtacatcaattgagagacatatcgaggact--ttgtgacctaacaccttagaagtgacgtgtttttgattatgctatttgtttctcacaatgctgctttcttttgcctctgcagGTGGTTGAGCTTGACTTCTTGTATCCTAGCGAAGGTATTCACAGGCGATGGGACAGTGGATATCGCATCACATCTACTGCTGCCACATGGGATCAAGCAG-----------------------------

upper sequence: GLYMA06G09190.2 (Glycine max), 3'ss of exon 14
lower sequence: EFJ38433 (Selaginella moellendorffii), 3'ss of exon 12
gtcttgtatttaaaaaattaattgtgattaaatatccttgtggcactgaaaaatcccatctgatttatgtattctctccaaacttaatgc-caggttgtggaacttgatttcttgtatcccagTGAAGGTATTCATCGAAGGTGGGATAATGGTTATCGCATCACCTCAACTGCTGCAACATGGGATCAAGCTGCTTTTGTTCTTAGTGTCCCAAGAAGAAAA
                                      |||    |        |    |  | || | |     | | | |   | | | ||||| ||||| || |||||| | |||||||| ||||| || || ||  ||||||||  ||| |||||||||||| | ||||| ||||| ||||||||||| |                             
-----------------------------------gtctgttaatccattcgggcttcgcacacttgtttgacagcgctatatgcattacacagGTAGTGGAGCTGGATTTCCTCTATCCCAGCGAAGGCATCCACCGGCGGTGGGATTGTGGATATCGCATCACCGCCACTGCGGCAACTTGGGATCAAGCAG-----------------------------

upper sequence: GLYMA06G09190.2 (Glycine max), 3'ss of exon 14
lower sequence: EFJ31718 (Selaginella moellendorffii), 3'ss of exon 12
gtcttgtatttaaaaaattaattgtgattaaatatccttgtggcactgaaaaatcccatctgatttatgtattctctccaaacttaatgccaggttgtggaacttgatttcttgtatcccagTGAAGGTATTCATCGAAGGTGGGATAATGGTTATCGCATCACCTCAACTGCTGCAACATGGGATCAAGCTGCTTTTGTTCTTAGTGTCCCAAGAAGAAAA
                                      |||    |        |    |  | || | |     | | |  | | |  | |||| ||||| || |||||| | |||||||| ||||| || || ||  ||||||||  ||| |||||||||||| | ||||| ||||| ||||||||||| |                             
-----------------------------------gtctgttaatccattcgggcttcgcacacttgtttgacagcgctatgcatgacac-agGTAGTGGAGCTGGATTTCCTCTATCCCAGCGAAGGCATCCACCGGCGGTGGGATTGTGGATATCGCATCACCGCCACTGCGGCAACTTGGGATCAAGCAG-----------------------------

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|193442849|gb|FK404227.1|FK404227
EST:     GCTCTAGATGGGCAATTGTTATGTCTCGTGGGGCTGGTTTTTCAGATCAG                         TGAAGGTATTCATCGAAGGTGGG
genomic: GCTCTAGATGGGCAATTGTTATGTCTCGTGGGGCTGGTTTTTCAGATCAGgtcttgtatt ... tgtatcccagTGAAGGTATTCATCGAAGGTGGG
EST: gi|193431762|gb|FK393784.1|FK393784
EST:     GCTCTAGATGGGCAATTGTTATGTCTCGTGGGGCTGGTTTTTCAGATCAG                         TGAAGGTATTCATCGAAGGTGGGA
genomic: GCTCTAGATGGGCAATTGTTATGTCTCGTGGGGCTGGTTTTTCAGATCAGgtcttgtatt ... tgtatcccagTGAAGGTATTCATCGAAGGTGGGA
EST: gi|193419321|gb|FK382327.1|FK382327
EST:     GCTCTAGATGGGCAATTGTTATGTCTCGTGGGGCTGGTTTT-CAGATCAG                         TGAAGGTATTCATCGAAGGTGGGA
genomic: GCTCTAGATGGGCAATTGTTATGTCTCGTGGGGCTGGTTTTTCAGATCAGgtcttgtatt ... tgtatcccagTGAAGGTATTCATCGAAGGTGGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtattctctccaaacttaatgccaggttgtggaacttgatttcttgtatcccagTGAAGGTATTCATCGAAGGTGGGATAATGGTTATCGCATCACCTCAACTGCTGCAACATGGGATCAAGCTGCTTTTGTTCTTAGTGTCCCAAGAAGAAAA
                                        tttcttgt  CT-rich tract
            aaacttaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtcttgtatttaaaaaattaattgtgattaaatatccttgtggcactgaaaaatcccatctgatttatgtattctctccaaacttaatgccaggttgtggaacttgatttcttgtatcccagTGAAGGTATTCATCGAAGGTGGGATAATGGTTATCGCATCACCTCAACTGCTGCAACATGGGATCAAGCTGCTTTTGTTCTTAGTGTCCCAAGAAGAAAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA