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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTACTAAAAGGTCGTAACGCATGGTATGGTCAGATGTTAGCTAAGGGTGAATTAAGCCCAGACATGGGTGACAGCATCAGTGGCAAAGGAATGATTCAGgtaagttcagtaattttccacttattagtaataagtgaaaagttattattttcttcccaacacctattctaaattccttaggtcactttcgaatgtacaa...

Basic information

species Glycine max
transcript GLYMA10G15900.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G15900.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os05g41590.1 (Oryza sativa), 5'ss of exon 3
TTTACTAAAAGGTCGTAACGCATGGTATGGTCAGATGTTAGCTAAGGGTGAATTAAGCCCAGACATGGGTGACAGCATCAGTGGCAAAGGAATGATTCAGgtaagttcagtaattttccacttattagtaataagtgaaaagttattattttcttcccaacacctattctaaat-tccttaggtcactttcgaatgtacaa----
  | || ||||||||||| ||||||||||| ||||  ||||||||||||||| | |  |  || ||||| ||||| ||||  |||||||| |  || |||||  ||   |  |  |||    |  |   |||   |  | | || |   | | ||       || | |    || | || || |    |  || | ||       
ACTGCTGAAAGGTCGTAATGCATGGTATGGGCAGAAATTAGCTAAGGGTGAACTGACTCTTGAAATGGGGGACAGTATCAAGGGCAAAGGGACTATCCAGgttggt---gctaccttcttaatgatgtaaatctttccatacttctgggtgtgtttttggtgccgaatagccatgtgctaagatttgctgtgattttatctttag

upper sequence: GLYMA10G15900.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os01g71280.1 (Oryza sativa), 5'ss of exon 4
TTTACTAAAAGGTCGTAACGCATGGTATGGTCAGATGTTAGCTAAGGGTGAATTAAGCCCAGACATGGGTGACAGCATCAGTGGCAAAGGAATGATTCAGgtaagttcagtaattttccacttattagtaataagtgaaaagttattattttcttcccaacacctattctaaattccttaggtc---actttcgaatg-tacaa----------------------------------------
| | || |||||||| || || |||||||| || ||| |||| ||||| ||| | ||||| |||||||| ||||||||||  || || || ||||||||||| |  |||  ||  |   ||| |||| |  |      ||||||||     | ||      |  | |    ||| |   | |||   |||| | || | ||  |                                        
TCTCCTGAAAGGTCGCAATGCGTGGTATGGGCAAATGCTAGCGAAGGGAGAACTGAGCCCTGACATGGGCGACAGCATCAAGGGGAAGGGGATGATTCAGgttatctcataaaact---actcattatt--ttccccgaaagttatatgaattttgagcgtatttttgaagaatgctggaagtcaaaacttgcaaaagatatcacatcatcctggatataacctgttcacttttcactctacag

upper sequence: GLYMA10G15900.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G090747_T02 (Zea mays), 5'ss of exon 4
TTTACTAAAAGGTCGTAACGCATGGTATGGTCAGATGTTAGCTAAGGGTGAATTAAGCCCAGACATGGGTGACAGCATCAGTGGCAAAGGAATGATTCAGgtaagttcagtaattttccacttattagtaataagtgaaaagttattattttcttccca----acacctattctaaattccttaggtcactttcgaatgtacaa
 ||  | ||||||||||| ||||||||||| |||| ||||||||| |||||||| |    ||| ||||||||||| || |  || ||||| |  ||||||||| |  |  | | |||      |  |  ||      || |  |       | | || |    |  | | |  | ||||     | |  | ||| | |  |   
ATTGTTGAAAGGTCGTAATGCATGGTATGGGCAGAAGTTAGCTAAAGGTGAATTGACATTAGAAATGGGTGACAGTATTAAAGGAAAAGGGACCATTCAGgtatgcccttttaattttggtcgacaacgaaacttcaaagaactgcatgaatatgcctaaatgaatcatgtgatgaattatcctgttgccgttccatttcag--

upper sequence: GLYMA10G15900.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G173195_T01 (Zea mays), 5'ss of exon 3
TTTACTAAAAGGTCGTAACGCATGGTATGGTCAGATGTTAGCTAAGGGTGAATTAAGCCCAGACATGGGTGACAGCATCAGTGGCAAAGGAATGATTCAGgtaagttcagt-aattttccacttat-tagtaataagtg-----aaaagtta--ttattttcttcccaacacctattctaaattccttaggtcactttcgaatgtacaa-----
  | || |||||||| || ||||||||||| |||| |||||||||||| ||| | |  | ||| ||||| ||||||||||  |||||||| |  || |||||  || | |  ||    ||| ||    | |   ||||      ||| |  |  |   |||      ||| | ||  ||| || |  |   ||   ||||  | |   |     
ACTGCTGAAAGGTCGCAATGCATGGTATGGGCAGAAGTTAGCTAAGGGAGAACTGACTCTAGAAATGGGGGACAGCATCAAGGGCAAAGGGACTATCCAGgtttgtgctgccaacccaccatttggacaatgtgaagtttgcttaaatgccaggtgccttttgcttaaacgcttaggctatatgc--tgattcttattcgtttctgtgatctag

upper sequence: GLYMA10G15900.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G155348_T01 (Zea mays), 5'ss of exon 4
TTTACTAAAAGGTCGTAACGCATGGTATGGTCAGATGTTAGCTAAGGGTGAATTAAGCCCAGACATGGGTGACAGCATCAGTGGCAAAGGAATGATTCAGgtaagttcagtaattttccacttattagtaataagtgaaaagttattattttcttcccaacacctattctaaattccttaggtcactttcgaatgtacaa-----
| |  |||||||||| || ||||||||||| || ||| | || ||||| || || || || ||||||||||| || ||||  || || |||||||||||||||| |  | | | |||   |||   | |      ||     || | |     |  | ||   ||||| ||   | ||     |  | |||||| |         
TCTCTTAAAAGGTCGCAATGCATGGTATGGGCAAATGCTTGCCAAGGGAGAGTTGAGTCCTGACATGGGTGATAGTATCAAGGGGAAGGGAATGATTCAGgtaa-tggaatgacttttttctttccattttgtcttgttttattctgagaagatgtcaaag--ctattatag--tactacatccgttctcgaatatttgtcgccc

upper sequence: GLYMA10G15900.1 (Glycine max), 5'ss of exon 3
lower sequence: AT2G41540.2 (Arabidopsis thaliana), 5'ss of exon 4
TTTACTAAAAGGTCGTAACGCATGGTATGGTCAGATGTTAGCTAAGGGTGAATTAAGCCCAGACATGGGTGACAGCATCAGTGGCAAAGGAATGATTCAGgtaagttcagtaattttccacttattagtaataagtgaaaagttattattttcttcccaacacctattctaaattccttaggtcactttcgaatgtacaa
 ||| ||||||| ||||| |||||||| ||||| ||| | || ||||||||| |||    |||||||||||| ||||| || ||||| |||||||||||||||  |    |  |    ||     | | || ||||   || |     ||||  |  |        || | |     |  | |   | | ||||      
CTTATTAAAAGGACGTAATGCATGGTACGGTCAAATGCTGGCAAAGGGTGAAATAAATAGAGACATGGGTGATAGCATAAGCGGCAAGGGAATGATTCAGgtacttaatctgttagaacaaagccttgaaagaagtttgaaat----gttttggtatctgttttgcttatgaggatgtgggatttttgttgaatag----

upper sequence: GLYMA10G15900.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv08s0007g09000.t01 (Vitis vinifera), 5'ss of exon 3
TTTACTAAAAGGTCGTAACGCATGGTATGGTCAGATGTTAGCTAAGGGTGAATTAAGCCCAGACATGGGTGACAGCATCAGTGGCAAAGGAATGATTCAGgtaagttcagtaattttccacttattagtaat--aagtgaaaagttattattttcttcccaacacctat--tctaaattccttaggtcactttcgaatgtacaa
  |  | ||||| || || || |||||||| || |||||||| ||||| ||| | ||||  ||||||||||| ||||| |||||||| |||||||||||||||       | ||| |  ||||   |  | |  || ||  ||   | ||||||||||     |  | |  ||  ||   |||   | | |||| |        
CCTGTTGAAAGGCCGCAATGCGTGGTATGGCCAAATGTTAGCCAAGGGGGAACTGAGCCTGGACATGGGTGATAGCATTAGTGGCAAGGGAATGATTCAGgtattggtcatgattctttacttggcaacagttcaactgggaaaacaatattttcttctttggaattgtcatcagaacctcttgccttattttccag-------

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTTACTAAAAGGTCGTAACGCATGGTATGGTCAGATGTTAGCTAAGGGTGAATTAAGCCCAGACATGGGTGACAGCATCAGTGGCAAAGGAATGATTCAGgtaagttcagtaattttccacttattagtaataagtgaaaagttattattttcttcccaacacctattctaaattccttaggtcactttcgaatgtacaa

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttcttccc