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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTATGTTCACAGTAAAATCATGATTGTTGATGATTGTATTACTTTGATTGGATCTGCTAATATTAATGATAGGAGCTTACTTGGCTCCAGAGATTCTGAGgtacagttccatacccttttctgctcatatgctgcacgagtttgattaggggtttagattactacattctctatctcattttatgaatcttcattgaatt...

Basic information

species Glycine max
transcript GLYMA15G16270.1
intron # 16
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G16270.1 (Glycine max), 5'ss of exon 16
lower sequence: LOC_Os05g29050.1 (Oryza sativa), 5'ss of exon 15
GTATGTTCACAGTAAAATCATGATTGTTGATGATTGTATTACTTTGATTGGATCTGCTAATATTAATGATAGGAGCTTACTTGGCTCCAGAGATTCTGAGgtacagtt---ccatacccttttctgctc---------atatgctgcacg--agtttgattaggggttta-----gattactacattctctat----ctcattttatgaatcttcattgaatt----------------------------------------------------------------
 ||||| ||||||||  | |||||  |||||||  | || || ||||||||||| ||||| || |||||||| ||||| ||||| || |||||||||||||||   ||    ||||  | | | | | |          || | |||||   |  |||  | |   | |      || || |   || || ||       ||||  | |||    | |   ||                                                                
TTATGTCCACAGTAAGTTGATGATAATTGATGACCGCATCACATTGATTGGATCAGCTAACATAAATGATAGAAGCTTGCTTGGATCAAGAGATTCTGAGgtatgcttttctcatattcctgtgtccactatattttggtacgttgcaccttaacttgtatggttatctgatgaggagtatttgcttttcaattaactctatttggtaaatggcaaatcgcttacatcaagtaatgttttaatgttggatgtcgattatctgatagtttacccttgtcaccttgtag

upper sequence: GLYMA15G16270.1 (Glycine max), 5'ss of exon 16
lower sequence: GRMZM2G066485_T01 (Zea mays), 5'ss of exon 15
GTATGTTCACAGTAAAATCATGATTGTTGATGATTGTATTACTTTGATTGGATCTGCTAATATTAATGATAGGAGCTTACTTGGCTCCAGAGATTCTGAGgtacagttccatacccttt---tctgctc------atatgctgcacgag---tttgattag-gggtttagattactacattctctatctcattttatgaatcttcattgaatt-------------------------------------------------------------------------------------
 ||||| || || ||  | ||||| ||||||||  | || || |||||||| || ||||||||||||||||| ||||| ||||| || ||||| || ||||||        || |  ||   |   |||      ||| |   || |||    || ||||  | ||  |  | | |  |   |  | || | || | |||| ||  ||  ||                                                                                      
TTATGTACATAGCAAGTTAATGATAGTTGATGACCGCATCACATTGATTGGCTCAGCTAATATTAATGATAGAAGCTTGCTTGGATCAAGAGACTCCGAGgtatgcacttgtatcagttagatgcactccgtgaaataagaatcaagagacacttcattactgagtacatctaattttaaagtagagctaacttga-gaatattttttccatcgcgcaatggacattctttgtactaagttaagagcaaataccttgtattgtgctggagttatgatgcctccccttccaccttgtag

upper sequence: GLYMA15G16270.1 (Glycine max), 5'ss of exon 16
lower sequence: GRMZM2G158008_T01 (Zea mays), 5'ss of exon 6
GTATGTTCACAGTAAAATCATGATTGTTGATGATTGTATTACTTTGATTGGATCTGCTAATATTAATGATAGGAGCTTACTTGGCTCCAGAGATTCTGAGgtacagttccatacccttttctgctcatatgctgcacgagtttgattaggggtttagattactacattctctatct-cattttatgaatcttcattgaatt--------
 ||||| ||||||||| | |||||| |||||||| | ||  | |||||||| || || || || |||||||| ||||| ||||| || || ||||||||||||            ||| | || |   ||| ||| |   ||| |  |  |   |    | ||  | | | | | |        |  || | |   |  |         
ATATGTGCACAGTAAATTGATGATTATTGATGATCGCATGGCATTGATTGGCTCAGCCAACATAAATGATAGAAGCTTGCTTGGATCTAGGGATTCTGAGgtatga---------cttgtatgtttgcatggtgctctttttttaacatagaaatgaccttctcaaatttttgtatgtgcacagtatatatgctccggctccatgcagg

upper sequence: GLYMA15G16270.1 (Glycine max), 5'ss of exon 16
lower sequence: AT3G16785.1 (Arabidopsis thaliana), 5'ss of exon 16
GTATGTTCACAGTAAAATCATGATTGTTGATGATTGTATTACTTTGATTGGATCTGCTAATATTAATGATAGGAGCTTACTTGGCTCCAGAGATTCTGAGgtacagttccatacccttttctgctcatatgctgcacgagtttgattaggggtttagattactacattctctatctcattttatgaatcttcattgaatt-------
|||||||||||||||||||||||| ||||||||  ||  | | |||||||||||||| |||||||| ||  |||| || |||||||| ||||||||||||||    ||  |  | | |   | ||  | ||||   | |   |||||        ||  || | ||| ||  |    |   |    ||| | || |||         
GTATGTTCACAGTAAAATCATGATAGTTGATGACCGTGCTGCATTGATTGGATCTGCCAATATTAACGACCGGAGTTTGCTTGGCTCAAGAGATTCTGAGgtcatattttactcacgtactttct--tgtgctaagcaa---tgatttccaaa--agcctatttcatacttgaaactaaggtgaagatcataatagaaaacaaaaag

upper sequence: GLYMA15G16270.1 (Glycine max), 5'ss of exon 16
lower sequence: Vv05s0077g01830.t01 (Vitis vinifera), 5'ss of exon 17
GTATGTTCACAGTAAAATCATGATTGTTGATGATTGTATTACTTTGATTGGATCTGCTAATATTAATGATAGGAGCTTACTTGGCTCCAGAGATTCTGAGgta-cagttc-catacccttttctgctcatatgctgcacgagtttgattaggggtttagattactacattctctatctcattttatgaatcttcattgaatt--
|||||| || || ||||||||||| |||||||| || |  || ||||||||||| ||||| |||||||||||||| || ||||| || ||||||||||||||| || ||| ||  |     | ||||  ||| ||  |    ||    ||  |||| |   | |      ||  | |  ||  ||||    |  |   ||    
GTATGTGCATAGCAAAATCATGATAGTTGATGACTGCACAACCTTGATTGGATCCGCTAACATTAATGATAGGAGTTTGCTTGGATCAAGAGATTCTGAGgtatcacttctcaagcatccctttgctt-tatact-tattcattcttctacaggttcatgcttcagag--ctaaaacctatcatatgtgattaaaaaaaaaacc

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTATGTTCACAGTAAAATCATGATTGTTGATGATTGTATTACTTTGATTGGATCTGCTAATATTAATGATAGGAGCTTACTTGGCTCCAGAGATTCTGAGgtacagttccatacccttttctgctcatatgctgcacgagtttgattaggggtttagattactacattctctatctcattttatgaatcttcattgaatt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cccttttc