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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGAAAAGGGATGTTGTTGCCACTATTGTTTATGAGCTTATGCCAAATCCTTCTGACCACAAgtaagtattgaactcttggcattattatattgttagttgatttttttatatccttcaatgccattcatttatgttgtgtgcatcaaggaggctagcaagt...

Basic information

species Glycine max
transcript GLYMA13G29400.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G29400.1 (Glycine max), 5'ss of exon 8
lower sequence: LOC_Os01g37832.1 (Oryza sativa), 5'ss of exon 8
TTGAAAAGGGATGTTGTTGCCACTATTGTTTATGAGCTTATGCCAAATCCTTCTGACCACAAgtaagtattgaactcttggcattatt-atattgttagttgatttttttatatccttcaatgccattcatttatgttgtgtgcatcaaggaggctagcaagt-
   |||||||||||||| ||||| ||||| |||||  | ||||| ||||| ||||| |||||||||||  | |    |||  | || | || |  ||  ||  ||||   |      |   ||  |||  | ||   | | |  |  |  ||   ||  ||   
AACAAAAGGGATGTTGTGGCCACAATTGTGTATGAAATAATGCCTAATCCATCTGATCACAAgtaagttattatgatttgaaactactcatgtcatttattttttttaaaaagagactatttgttatt--tctaccatttctaaaatagtgaaattatgaaagg

upper sequence: GLYMA13G29400.1 (Glycine max), 5'ss of exon 8
lower sequence: GRMZM2G090647_T04 (Zea mays), 5'ss of exon 7
TTGAAAAGGGATGTTGTTGCCACTATTGTTTATGAGCTTATGCCAAATCCTTCTGACCACAAgtaagtattgaactcttggcattatt--atattgttagttgatttttttatatccttcaatgccattcatttatgttgtgtgcatcaaggaggctagcaagt
   ||||||||||| ||||| || ||||| |||||  | ||||| ||||||||||| ||||||||||  |||   |  | |   || |  || ||     |  | | |  ||  |  | || |  ||       |  ||                |||   || 
AACAAAAGGGATGTAGTTGCAACAATTGTATATGAAGTCATGCCCAATCCTTCTGATCACAAgtaagctttgttataattgatctacttaatgtttcacatcaagtctacta-gtagtacagttgcacaagggaaattttataatgctgtatgacctaaatag-

upper sequence: GLYMA13G29400.1 (Glycine max), 5'ss of exon 8
lower sequence: AT2G25950.1 (Arabidopsis thaliana), 5'ss of exon 8
TTGAAAAGGGATGTTGTTGCCACTATTGTTTATGAGCTTATGCCAAATCCTTCTGACCACAAgtaagtattgaactcttggcattattatattgttagttgatttttttatatccttcaatgccattcatt-tatgttgtgtgcatcaaggaggctagcaagt
|||||||| ||||||||||| || || || |||||| |||  ||||||||||| || |||||||||    |||| |||   |   ||||  |  ||  ||  | | |  |||||||||| |  ||  |  | | ||||  ||                     
TTGAAAAGAGATGTTGTTGCGACAATCGTATATGAGATTAGACCAAATCCTTCAGATCACAAgtaaac-ctgaa-tctcaaccaaattac-tctttctttcgtatgtgaatatccttcagttacaaactctgtttgtttggtag-------------------

upper sequence: GLYMA13G29400.1 (Glycine max), 5'ss of exon 8
lower sequence: Vv04s0008g00760.t01 (Vitis vinifera), 5'ss of exon 8
TTGAAAAGGGATGTTGTTGCCACTATTGTTTATGAGCTTATGCCAAATCCTTCTGACCACAAgtaagt-attgaactcttggcattattatattgttagttgatttttttatatccttcaatg-ccattcatttatgttgtgtgcatcaaggaggctagcaagt----
|||||  ||||||||||||| || || || |||||  |||  |||||||||||||| ||||||||||| ||||     ||| | | ||   || |||  |  || ||    |   ||||||      || |||| || | |   |||  |  ||      |  |    
TTGAAGCGGGATGTTGTTGCAACAATCGTGTATGAAATTACTCCAAATCCTTCTGATCACAAgtaagtcattg----tttgccttcatgggatggttt-tgaatgttcagttgctcttcaacaattgttgatttgtgct-taaacatacattagttctttacatcatg

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|193358429|gb|FK324999.1|FK324999
EST:     GTTGTTGCCACTATTGTTTATGAGCTTATGCCAAATCCTTCTGACCACAA                         GACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTTA
genomic: GTTGTTGCCACTATTGTTTATGAGCTTATGCCAAATCCTTCTGACCACAAgtaagtattg ... tattttgtagGACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTTA
EST: gi|254315528|gb|GR825337.1|GR825337
EST:     GTTGTTGCCACTATTGTTTATGAGCTTATGCCAAATCCTTCTGACCACAA                         GACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTTA
genomic: GTTGTTGCCACTATTGTTTATGAGCTTATGCCAAATCCTTCTGACCACAAgtaagtattg ... tattttgtagGACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTTA
EST: gi|254342188|gb|GR853325.1|GR853325
EST:     GTTGTTGCCACTATTGTTTATGAGCTTATGCCAAATCCTTCTGACCACAA                         GACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTTA
genomic: GTTGTTGCCACTATTGTTTATGAGCTTATGCCAAATCCTTCTGACCACAAgtaagtattg ... tattttgtagGACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTTA
EST: gi|11690379|gb|BF598055.1|BF598055
EST:     GTTGTTGCCACTATTGTTTATGAGCTTATGCCAAATCCTTCTGACCACAA                         GACACGTGCTGAAAGTGGAGGGGGTCTNTCTCACATAGAATGAAATAGTTA
genomic: GTTGTTGCCACTATTGTTTATGAGCTTATGCCAAATCCTTCTGACCACAAgtaagtattg ... tattttgtagGACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTTA
EST: gi|254317765|gb|GR826749.1|GR826749
EST:     GTTGTTGCCACTATTGTTTATGAGCTTATGCCAAATCCTTCTGACCACAA                         GACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTTA
genomic: GTTGTTGCCACTATTGTTTATGAGCTTATGCCAAATCCTTCTGACCACAAgtaagtattg ... tattttgtagGACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTTA
EST: gi|18039284|gb|BM307578.1|BM307578
EST:     GTTGTTGCCACTATTGTTTATGAGCTTATGCCAAATCCTTCTGACCACAA                         GACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTTA
genomic: GTTGTTGCCACTATTGTTTATGAGCTTATGCCAAATCCTTCTGACCACAAgtaagtattg ... tattttgtagGACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTTA
EST: gi|151402759|gb|EV272572.1|EV272572
EST:     GTTGTTGCCACTATTGTTTATGAGCTTATGCCAAATCCTTCTGACCACAA                         GACACGTGCTGAAGGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTTA
genomic: GTTGTTGCCACTATTGTTTATGAGCTTATGCCAAATCCTTCTGACCACAAgtaagtattg ... tattttgtagGACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTTA
EST: gi|193649690|gb|FK595371.1|FK595371
EST:     TGCCAAATCCTTCTTGACCACAA                         GACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTT
genomic: TGCCAAATCCTTC-TGACCACAAgtaagtattg ... tattttgtagGACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTT
EST: gi|208291455|gb|GE096721.1|GE096721
EST:     GTTGTTGCCACTATTGTTTATGAGCTTATGCCAAATCCTCCTGACCACAA                         GACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTTA
genomic: GTTGTTGCCACTATTGTTTATGAGCTTATGCCAAATCCTTCTGACCACAAgtaagtattg ... tattttgtagGACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTTA
EST: gi|193718876|gb|FK649570.1|FK649570
EST:     TGCCAAATCCTTCTGACCACAA                         GACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTTA
genomic: TGCCAAATCCTTCTGACCACAAgtaagtattg ... tattttgtagGACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTTA
EST: gi|208253800|gb|GE055554.1|GE055554
EST:     GTTGTTGCCACTATTGTTTATGAGCTTATGCCAAATCCTTCTGACCACAA                         GACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTTA
genomic: GTTGTTGCCACTATTGTTTATGAGCTTATGCCAAATCCTTCTGACCACAAgtaagtattg ... tattttgtagGACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTTA
EST: gi|254317766|gb|GR826750.1|GR826750
EST:     GTTGTTGCCACTATTGTTTATGAGCTTATGCCAAATCCTTCTGACCACAA                         GACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTTA
genomic: GTTGTTGCCACTATTGTTTATGAGCTTATGCCAAATCCTTCTGACCACAAgtaagtattg ... tattttgtagGACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTTA
EST: gi|193467983|gb|FK431752.1|FK431752
EST:     TGCCAAATCCTTCTTGACCACAA                         GACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTT
genomic: TGCCAAATCCTTC-TGACCACAAgtaagtattg ... tattttgtagGACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTT
EST: gi|193702683|gb|FK638723.1|FK638723
EST:     TGCCAAATCCTTCTTGTCCTACAA                         GACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTT
genomic: TGCCAAATCCTTC-TGACC-ACAAgtaagtattg ... tattttgtagGACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTT
EST: gi|193425337|gb|FK389940.1|FK389940
EST:     GTTGTTGCCACTATTGTTTATGAGCTTATGCCAAATCCTTCTGACCACAA                         GACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTTA
genomic: GTTGTTGCCACTATTGTTTATGAGCTTATGCCAAATCCTTCTGACCACAAgtaagtattg ... tattttgtagGACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTTA
EST: gi|192294103|gb|FG986192.1|FG986192
EST:     GTTGTTGCCACTATTGTTTATGAGCTTATGCCAAATCCTTCTGACCACAA                         GACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTTA
genomic: GTTGTTGCCACTATTGTTTATGAGCTTATGCCAAATCCTTCTGACCACAAgtaagtattg ... tattttgtagGACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTTA
EST: gi|208132249|gb|GD930280.1|GD930280
EST:     GTTGTTGCCACTATTGTTTATGAGCTTATGCCAAATCCTTCTGACCACAA                         GACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTTA
genomic: GTTGTTGCCACTATTGTTTATGAGCTTATGCCAAATCCTTCTGACCACAAgtaagtattg ... tattttgtagGACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTTA
EST: gi|208112804|gb|GD908763.1|GD908763
EST:     TTATGAGCTTATGCCAAATCCTTCTGACCACAA                         GACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTTA
genomic: TTATGAGCTTATGCCAAATCCTTCTGACCACAAgtaagtattg ... tattttgtagGACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTTA
EST: gi|208279955|gb|GE079621.1|GE079621
EST:     CCTTCTGACCACAA                         GACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTTA
genomic: CCTTCTGACCACAAgtaagtattg ... tattttgtagGACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTTA
EST: gi|151393588|gb|EV263463.1|EV263463
EST:     GTTGTTGCCACTATTGTTTATGAGCTTATGCCAAATCCTTCTGACCACAA                         GACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTTA
genomic: GTTGTTGCCACTATTGTTTATGAGCTTATGCCAAATCCTTCTGACCACAAgtaagtattg ... tattttgtagGACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTTA
EST: gi|193338173|gb|FK303856.1|FK303856
EST:     GTTGTTGCCACTATTGTTTATGAGCTTATGCCAAATCCTTCTGACCACAA                         GACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTTA
genomic: GTTGTTGCCACTATTGTTTATGAGCTTATGCCAAATCCTTCTGACCACAAgtaagtattg ... tattttgtagGACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTTA
EST: gi|254342187|gb|GR853324.1|GR853324
EST:     GTTGTTGCCACTATTGTTTATGAGCTTATGCCAAATCCTTCTGACCACAA                         GACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTTA
genomic: GTTGTTGCCACTATTGTTTATGAGCTTATGCCAAATCCTTCTGACCACAAgtaagtattg ... tattttgtagGACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTTA
EST: gi|207774164|gb|GD743286.1|GD743286
EST:     TGAGCTTATGCCAAATCCTTCTGACCACAA                         GACACGTGCTGAAAGTGGGAGGGGGTCTTTCTCACATAGAATGAAATAGTT
genomic: TGAGCTTATGCCAAATCCTTCTGACCACAAgtaagtattg ... tattttgtagGACACGTGCTGAAAGT-GGAGGGGGTCTTTCTCACATAGAATGAAATAGTT
EST: gi|193629810|gb|FK574978.1|FK574978
EST:     TGCCAAATCCTTCTGACCACAA                         GACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTTA
genomic: TGCCAAATCCTTCTGACCACAAgtaagtattg ... tattttgtagGACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTTA
EST: gi|51336638|gb|CO980504.1|CO980504
EST:     GTTGTTGCCACTATTGTTTATGAGCTTATGCCAAATCCTTCTGACCACAA                         GACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTTA
genomic: GTTGTTGCCACTATTGTTTATGAGCTTATGCCAAATCCTTCTGACCACAAgtaagtattg ... tattttgtagGACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTTA
EST: gi|151412116|gb|EV281928.1|EV281928
EST:     GTTGTTGCCACTATTGTTTATGAGCTTATGCCAAATCCTTCTGACCACAA                         GACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTTA
genomic: GTTGTTGCCACTATTGTTTATGAGCTTATGCCAAATCCTTCTGACCACAAgtaagtattg ... tattttgtagGACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTTA
EST: gi|12773661|gb|BG238588.1|BG238588
EST:     GTTGTTGCCACTATTGTTTATGAGCTTATGCCAAATCCTTCTGACCACAA                         GACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTTA
genomic: GTTGTTGCCACTATTGTTTATGAGCTTATGCCAAATCCTTCTGACCACAAgtaagtattg ... tattttgtagGACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTTA
EST: gi|11275065|gb|BF325388.1|BF325388
EST:     GTTGTTGCCACTATTGTTTATGAGCTTATGCCAAATCCTTCTGACCACAA                         GACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTTA
genomic: GTTGTTGCCACTATTGTTTATGAGCTTATGCCAAATCCTTCTGACCACAAgtaagtattg ... tattttgtagGACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTTA
EST: gi|208271333|gb|GE067877.1|GE067877
EST:     GTTGTTGCCACTATTGTTTATGAGCTTATGCCAAATCCTTCTGACCACAA                         GACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTTA
genomic: GTTGTTGCCACTATTGTTTATGAGCTTATGCCAAATCCTTCTGACCACAAgtaagtattg ... tattttgtagGACACGTGCTGAAAGTGGAGGGGGTCTTTCTCACATAGAATGAAATAGTTA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTGAAAAGGGATGTTGTTGCCACTATTGTTTATGAGCTTATGCCAAATCCTTCTGACCACAAgtaagtattgaactcttggcattattatattgttagttgatttttttatatccttcaatgccattcatttatgttgtgtgcatcaaggaggctagcaagt

- - - - - - - - - - - - - - - -  GAGCTT