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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTGTGGGACACAATGATCAGAAAGTTCTTGTTCTTGCAGCTACAAATACACCTTATGCTCTAGACCAGgtaagaagaaaatagttctgtttacttatttttatcgtgattcaatgggatactgttttgattaatcaacttgtaattgcag

Basic information

species Glycine max
transcript GLYMA11G19120.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G19120.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os01g04814.3 (Oryza sativa), 5'ss of exon 4
GGTGTGGGACACAATGATCAGAAAGTTCTTGTTCTTGCAGCTACAAATACACCTTATGCTCTAGACCAGgtaagaagaaaatagttctgtttacttatttttatcgtgattcaatgggatactgt--tttgattaatcaactt-gtaattgcag----------------
||||| || || |||||| | ||||| || |||||||| |||||||| || || |||||||||||||||||   ||||| ||   |     |   |      ||   ||         || || |  ||  ||| | ||| || ||| || |                  
GGTGTTGGCCATAATGATGACAAAGTACTGGTTCTTGCTGCTACAAACACGCCATATGCTCTAGACCAGgttt-aagaagatctataaaactgtgttgcaccattcagaactgtcaaaattctcttgttccattgaacaatttagtacttacttaaatccattatctcag

upper sequence: GLYMA11G19120.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G088834_T01 (Zea mays), 5'ss of exon 4
GGTGTGGGACACAATGATCAGAAAGTTCTTGTTCTTGCAGCTACAAATACACCTTATGCTCTAGACCAGgtaagaagaaaatagttctgtttacttatttttatcgtgattcaatgggatac--tgttttgattaatcaacttg---taattgcag--------------
||||| || ||||||||| | ||||||||||||||||| || || ||||| || |||||||| |||||||| | || ||| | |     | | |   |  | |   |||| |||   | ||   | | |     | |||| ||     || |                  
GGTGTTGGTCACAATGATGATAAAGTTCTTGTTCTTGCTGCCACGAATACGCCATATGCTCTGGACCAGgttacaaaaaacttgccgaatattcc-gtcctgaagatgatgcaactagctagggtatctgtgcaagtcaaattagcccaagtttgaccaaatttatagtg

upper sequence: GLYMA11G19120.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G126860_T01 (Zea mays), 5'ss of exon 4
GGTGTGGGACACAATGATCAGAAAGTTCTTGTTCTTGCAGCTACAAATACACCTTATGCTCTAGACCAGgtaagaagaaaata----gttctgtttacttatttttatcgtgattcaatgg--gatactgttttgattaatcaacttgt-aattgcag------------------------------
||||| || || |||||| | ||||||||||||||||| || || ||||| || |||||||| |||||||| | || |||| |    || |  |||     | | ||| |   | |||      | |  |  |      || | ||||| ||   | |                              
GGTGTTGGTCATAATGATGATAAAGTTCTTGTTCTTGCTGCCACGAATACGCCATATGCTCTGGACCAGgttacaaaaaaaaaccacgtaccattttgcattgtatatagatttgcaaaaacaaaaagggaatgtccccattatcttgtgaaacactgtttagttctttggcatattcattgttgcag

upper sequence: GLYMA11G19120.1 (Glycine max), 5'ss of exon 4
lower sequence: AT2G27600.1 (Arabidopsis thaliana), 5'ss of exon 4
GGTGTGGGACACAATGATCAGAAAGTTCTTGTTCTTGCAGCTACAAATACACCTTATGCTCTAGACCAGgtaagaagaaaatagttctgtttacttatttttatcgtgattcaatgggatactgttttgattaatcaacttgtaattgcag
||||| |||||||||||| ||||||| ||||| |||||||| || |||||||| |||||||| || |||||  |||    |||   | | ||  || | | | |  |    || |   ||| ||||||| | | || |  | ||||| |||
GGTGTTGGACACAATGATGAGAAAGTACTTGTACTTGCAGCAACCAATACACCCTATGCTCTTGATCAGgt--gaaagtcataagacggcttggttctctattttctttgccagttaaatattgttttgttaactccatgt-taatttcag

upper sequence: GLYMA11G19120.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv06s0080g00160.t01 (Vitis vinifera), 5'ss of exon 4
GGTGTGGGACACAATGATCAGAAAGTTCTTGTTCTTGCAGCTACAAATACACCTTATGCTCTAGACCAGgtaagaagaaaatagttctgtttacttatttttatcg-tgattcaatggg-atactgttttgattaatcaacttgtaattgcag
||||| |||||||||||||||||||| ||||||||||| || |||||||| |||||||| || || |||||||   | | |        ||   || |  ||  |  | |    |      ||    | ||  |||   | | ||| || |||
GGTGTAGGACACAATGATCAGAAAGTCCTTGTTCTTGCCGCCACAAATACTCCTTATGCCCTGGATCAGgtaaaggggagactaaatgattggtttgtgatttccaataacaggacaactgtatctctctggctaacagattagtacttacag

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|254326206|gb|GR840798.1|GR840798
EST:     AGAAAGTTCTTGTTCTTGCAGCTACAAATACACCTTATGCTCTAGACCAG                         GCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
genomic: AGAAAGTTCTTGTTCTTGCAGCTACAAATACACCTTATGCTCTAGACCAGgtaagaagaa ... gtaattgcagGCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
EST: gi|207759130|gb|GD731697.1|GD731697
EST:     GCAGCTACAAATACACCTTATGCTCTAGACCAG                         GCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
genomic: GCAGCTACAAATACACCTTATGCTCTAGACCAGgtaagaagaa ... gtaattgcagGCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
EST: gi|193633531|gb|FK579673.1|FK579673
EST:     AGAAAGTTCTTGTTCTAGCAGCTACAAATACACCTTATGCTCTAGACCAG                         GCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
genomic: AGAAAGTTCTTGTTCTTGCAGCTACAAATACACCTTATGCTCTAGACCAGgtaagaagaa ... gtaattgcagGCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
EST: gi|193375619|gb|FK340458.1|FK340458
EST:     CTTGTTCTTGCAGCTACAAATACACCTTATGCTCTAGACCAG                         GCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
genomic: CTTGTTCTTGCAGCTACAAATACACCTTATGCTCTAGACCAGgtaagaagaa ... gtaattgcagGCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
EST: gi|193627936|gb|FK573204.1|FK573204
EST:     AGAAAGTTCTTGTTCTAGCAGCTACAAATACACCTTATGCTCTAGACCAG                         GCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
genomic: AGAAAGTTCTTGTTCTTGCAGCTACAAATACACCTTATGCTCTAGACCAGgtaagaagaa ... gtaattgcagGCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
EST: gi|207844673|gb|GD813556.1|GD813556
EST:     AGAAAGTTCTTGTTCTAGCAGCTACAAATACACCTTATGCTCTAGACCAG                         GCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
genomic: AGAAAGTTCTTGTTCTTGCAGCTACAAATACACCTTATGCTCTAGACCAGgtaagaagaa ... gtaattgcagGCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
EST: gi|308098773|gb|HO760514.1|HO760514
EST:     AGAAAGTTCTTGTTCTAGCAGCTACAAATACACCTTATGCTCTAGACCAG                         GCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
genomic: AGAAAGTTCTTGTTCTTGCAGCTACAAATACACCTTATGCTCTAGACCAGgtaagaagaa ... gtaattgcagGCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
EST: gi|193637649|gb|FK583524.1|FK583524
EST:     AGAAAGTTCTTGTTCTAGCAGCTACAAATACACCTTATGCTCTAGACCAG                         GCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
genomic: AGAAAGTTCTTGTTCTTGCAGCTACAAATACACCTTATGCTCTAGACCAGgtaagaagaa ... gtaattgcagGCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
EST: gi|193518520|gb|FK475699.1|FK475699
EST:     AGAAAGTTCTTGTTCTTGCGGCTACAAATACACCTTATGCTCTAGACCAG                         GCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
genomic: AGAAAGTTCTTGTTCTTGCAGCTACAAATACACCTTATGCTCTAGACCAGgtaagaagaa ... gtaattgcagGCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
EST: gi|193572413|gb|FK531404.1|FK531404
EST:     CAAATACACCTTATGCTCTAGACCAG                         GCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
genomic: CAAATACACCTTATGCTCTAGACCAGgtaagaagaa ... gtaattgcagGCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
EST: gi|193512438|gb|FK469034.1|FK469034
EST:     AAAG-TCTTGTTCTAGCAGCTACAAATACACCTTATGCTCTAGACCAG                         GCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
genomic: AAAGTTCTTGTTCTTGCAGCTACAAATACACCTTATGCTCTAGACCAGgtaagaagaa ... gtaattgcagGCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
EST: gi|12489948|gb|BG043469.1|BG043469
EST:     AGAAAGTTCTTGTTCTTGCAGCTACAAATACACCTTATGCTCTAGACCAG                         GCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
genomic: AGAAAGTTCTTGTTCTTGCAGCTACAAATACACCTTATGCTCTAGACCAGgtaagaagaa ... gtaattgcagGCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
EST: gi|193537758|gb|FK494107.1|FK494107
EST:     AGAAAGTTCTTGTTCTTGCAGCTACAAATACACCTTATGCTCTAGACCAG                         GCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
genomic: AGAAAGTTCTTGTTCTTGCAGCTACAAATACACCTTATGCTCTAGACCAGgtaagaagaa ... gtaattgcagGCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
EST: gi|193702900|gb|FK638772.1|FK638772
EST:     AAAGTTCTTGTTCTAGCAGCTACAAATACACCTTATGCTCTAGACCAG                         GCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
genomic: AAAGTTCTTGTTCTTGCAGCTACAAATACACCTTATGCTCTAGACCAGgtaagaagaa ... gtaattgcagGCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
EST: gi|9565843|gb|BE475352.1|BE475352
EST:     AGAAAGTTCTTGTTCTTGCAGCTACAAATACACCTTATGCTCTAGACCAG                         GCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
genomic: AGAAAGTTCTTGTTCTTGCAGCTACAAATACACCTTATGCTCTAGACCAGgtaagaagaa ... gtaattgcagGCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
EST: gi|193463727|gb|FK426979.1|FK426979
EST:     AGAAAGTTCTTGTTCTTGCAGCTACAAATACACCTTATGCTCTAGACCAG                         GCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
genomic: AGAAAGTTCTTGTTCTTGCAGCTACAAATACACCTTATGCTCTAGACCAGgtaagaagaa ... gtaattgcagGCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
EST: gi|193703290|gb|FK640044.1|FK640044
EST:     CTTGTTCTAGCAGCTACAAATACACCTTATGCTCTAGACCAG                         GCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
genomic: CTTGTTCTTGCAGCTACAAATACACCTTATGCTCTAGACCAGgtaagaagaa ... gtaattgcagGCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
EST: gi|23730472|gb|BU763325.1|BU763325
EST:     AGAAAGTTCTTGTTCTTGCAGCTACAAATACACCTTATGCTCTAGACCAG                         GCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
genomic: AGAAAGTTCTTGTTCTTGCAGCTACAAATACACCTTATGCTCTAGACCAGgtaagaagaa ... gtaattgcagGCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
EST: gi|193483589|gb|FK450634.1|FK450634
EST:     AGAAAGTTCTTGTTCTTGCAGCTACAAATACACCTTATGCTCTAGACCAG                         GCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
genomic: AGAAAGTTCTTGTTCTTGCAGCTACAAATACACCTTATGCTCTAGACCAGgtaagaagaa ... gtaattgcagGCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
EST: gi|208177341|gb|GD976902.1|GD976902
EST:     AGAAAGTTCTTGTTCTAGCAGCTACAAATACACCTTATGCTCTAGACCAG                         GCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
genomic: AGAAAGTTCTTGTTCTTGCAGCTACAAATACACCTTATGCTCTAGACCAGgtaagaagaa ... gtaattgcagGCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
EST: gi|193535346|gb|FK489552.1|FK489552
EST:     AGAAAGTTCTTGTTCTAGCAGCTACAAATACACCTTATGCTCTAGACCAG                         GCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
genomic: AGAAAGTTCTTGTTCTTGCAGCTACAAATACACCTTATGCTCTAGACCAGgtaagaagaa ... gtaattgcagGCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
EST: gi|193341104|gb|FK307940.1|FK307940
EST:     AGAAAGTTCTTGTTCTAGCAGCTACAAATACACCTTATGCTCTAGACCAG                         GCAATAAGGCGGCGTTTCGATAAGTGTATATACATACCCCTACCTGATTTA
genomic: AGAAAGTTCTTGTTCTTGCAGCTACAAATACACCTTATGCTCTAGACCAGgtaagaagaa ... gtaattgcagGCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
EST: gi|193622977|gb|FK572451.1|FK572451
EST:     AGAAAGTTCTTGTTCTTGCAGCTACAAACACACCTTATGCTCTAGACCAG                         GCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
genomic: AGAAAGTTCTTGTTCTTGCAGCTACAAATACACCTTATGCTCTAGACCAGgtaagaagaa ... gtaattgcagGCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
EST: gi|24137035|gb|BU927545.1|BU927545
EST:     AGAAAGTTCTTGTTCTTGCAGCTACAAATACACCTTATGCTCTAGACCAG                         GCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
genomic: AGAAAGTTCTTGTTCTTGCAGCTACAAATACACCTTATGCTCTAGACCAGgtaagaagaa ... gtaattgcagGCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
EST: gi|23730696|gb|BU763444.1|BU763444
EST:     AGAAAGTTCTTGTTCTTGCAGCTACAAATACACCTTATGCTCTAGACCAG                         GCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
genomic: AGAAAGTTCTTGTTCTTGCAGCTACAAATACACCTTATGCTCTAGACCAGgtaagaagaa ... gtaattgcagGCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
EST: gi|13312394|gb|BG406045.1|BG406045
EST:     AGAAAGTTCTTGTTCTTGCAGCTACAAATACACCTTATGCTCTAGACCAG                         GCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
genomic: AGAAAGTTCTTGTTCTTGCAGCTACAAATACACCTTATGCTCTAGACCAGgtaagaagaa ... gtaattgcagGCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
EST: gi|193436323|gb|FK399087.1|FK399087
EST:     AGAAAGTTCTTGTTCTAGCAGCTACAAATACACCTTATGCTCTAGACCAG                         GCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
genomic: AGAAAGTTCTTGTTCTTGCAGCTACAAATACACCTTATGCTCTAGACCAGgtaagaagaa ... gtaattgcagGCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
EST: gi|207778165|gb|GD748784.1|GD748784
EST:     AGAAAGTTCTTGTTCTAGCAGCTACAAATACACCTTATGCTCTAGACCAG                         GCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
genomic: AGAAAGTTCTTGTTCTTGCAGCTACAAATACACCTTATGCTCTAGACCAGgtaagaagaa ... gtaattgcagGCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
EST: gi|17023275|gb|BM094309.1|BM094309
EST:     AGAAAGTTCTTGTTCTTGCAGCTACAAATACACCTTATGCTCTAGACCAG                         GCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA
genomic: AGAAAGTTCTTGTTCTTGCAGCTACAAATACACCTTATGCTCTAGACCAGgtaagaagaa ... gtaattgcagGCAATAAGGCGGCGTTTCGATAAGCGTATATACATACCCCTACCTGATTTA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGTGTGGGACACAATGATCAGAAAGTTCTTGTTCTTGCAGCTACAAATACACCTTATGCTCTAGACCAGgtaagaagaaaatagttctgtttacttatttttatcgtgattcaatgggatactgttttgattaatcaacttgtaattgcag

- - - - - - - - - - - - - - - - - - GCAGCT