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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGAAAACCAATGATATGATGCTGGTAATATACCTCTCGTCTCTCATTAGAAGTGTAATAGCACTCCACAACTTGATTAACAACAAGgtgagatacactcccctaaattttgctgcatgtatcattgatgtttgctgattactttatattttggatttgttatcatattatgaaaataacagttttg...

Basic information

species Glycine max
transcript GLYMA11G34980.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G34980.1 (Glycine max), 5'ss of exon 9
lower sequence: AT5G05780.1 (Arabidopsis thaliana), 5'ss of exon 9
TGAAAACCAATGATATGATGCTGGTAATATACCTCTCGTCTCTCATTAGAAGTGTAATAGCACTCCACAACTTGATTAACAACAAGgtgagatac--actcccctaaattttgctgcatgtatcattgatgtttgctgattactttatattttggatttgttatcatattatgaaaataacagttttg
||||||| ||||| |||||||| || || || || || || |||||| | |||||||| || |||||||||||||| ||||||||||| ||||    |||   ||   | |  | |||   |  | ||   ||  ||||  |||  || || ||    || |    | ||                  
TGAAAACAAATGACATGATGCTCGTTATCTATCTATCATCCCTCATTCGGAGTGTAATTGCGCTCCACAACTTGATCAACAACAAGgttagatctttactttactctctctcacggcacacaataatgtgatt--ctga--actaaatcttgtga---tgatgctgtgtttcag--------------

upper sequence: GLYMA11G34980.1 (Glycine max), 5'ss of exon 9
lower sequence: AT3G11270.2 (Arabidopsis thaliana), 5'ss of exon 9
TGAAAACCAATGATATGATGCTGGTAATATACCTCTCGTCTCTCATTAGAAGTGTAATAGCACTCCACAACTTGATTAACAACAAGgtgagatacactcccctaaattttgctgcatgtatcattgatgtttg--ctgattactttatattttggatttgttatcatattatgaaaataaca-gttttg-
| ||||| ||||| |||||||| ||||| ||||| || || || ||  |||||||||| || |||||||  ||||| ||||||||||| ||||| ||   | |   | |   |   | | |  | | || |||   ||| |    | |||     ||||||| |  || | ||   ||   | ||||   
TAAAAACAAATGACATGATGCTCGTAATCTACCTTTCTTCGCTTATCCGAAGTGTAATCGCCCTCCACAGTTTGATCAACAACAAGgtaagatagaccatcatc--tctctatttctctctagtaggtgattgatttgaatttgctctatgcaaaatttgttttgttaatctgtggatgctatgtttcag
















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|208245928|gb|GE050666.1|GE050666
EST:     TCATTAGAAGTGTAATAGCACTCCACAACTTGATTAACAACAAG                         ATGCTTAACAAGGAACATGAACGGGCAGAAGACTCGAAAACAGTTACAGTG
genomic: TCATTAGAAGTGTAATAGCACTCCACAACTTGATTAACAACAAGgtgagataca ... atgatttcagATGCTTAACAAGGAACATGAACGGGCAGAAGACTCGAAAACAGTTACAGTG
EST: gi|207829987|gb|GD801903.1|GD801903
EST:     CGTCTCTCATTAGAAGTGTAATAGCACTCCACAACTTAATTAACAACAAG                         ATGCTTAACAAGGAACATGAACGGGCAGAAGACTCGAAAACAGTTACAGTG
genomic: CGTCTCTCATTAGAAGTGTAATAGCACTCCACAACTTGATTAACAACAAGgtgagataca ... atgatttcagATGCTTAACAAGGAACATGAACGGGCAGAAGACTCGAAAACAGTTACAGTG
EST: gi|193469364|gb|FK437642.1|FK437642
EST:     CGTCTCTCATTAGAAGTGTAATAGCACTCCACAACTTGATTAACAACAAG                         ATGCTTAACAAGGAACATGAACGGGCAGAAGACTCGAAAACAGTTACAGTG
genomic: CGTCTCTCATTAGAAGTGTAATAGCACTCCACAACTTGATTAACAACAAGgtgagataca ... atgatttcagATGCTTAACAAGGAACATGAACGGGCAGAAGACTCGAAAACAGTTACAGTG
EST: gi|58016090|gb|CX702832.1|CX702832
EST:     CGTCTCTCATTAGAAGTGTAATAGCACTCCACAACTTGATTAACAACAAG                         ATGCTTAACAAGGAACATGAACGGGCAGAAGACTCGAAAACAGTTACAGTG
genomic: CGTCTCTCATTAGAAGTGTAATAGCACTCCACAACTTGATTAACAACAAGgtgagataca ... atgatttcagATGCTTAACAAGGAACATGAACGGGCAGAAGACTCGAAAACAGTTACAGTG
EST: gi|15662128|gb|BI699499.1|BI699499
EST:     CGTCTCTCATTAGAAGTGTAATAGCACTCCACAACTTGATTAACAACAAG                         ATGCTTAACAAGGAACATGAACGGGCAGAAGACTCGAAAACAGTTACAGTG
genomic: CGTCTCTCATTAGAAGTGTAATAGCACTCCACAACTTGATTAACAACAAGgtgagataca ... atgatttcagATGCTTAACAAGGAACATGAACGGGCAGAAGACTCGAAAACAGTTACAGTG
EST: gi|254323157|gb|GR835765.1|GR835765
EST:     CGTCTCTCATTAGAAGTGTAATAGCACTCCACAACTTGATTAACAACAAG                         ATGCTTAACAAGGAACATGAACGGGCAGAAGACTCGAAAACAGTTACAGTG
genomic: CGTCTCTCATTAGAAGTGTAATAGCACTCCACAACTTGATTAACAACAAGgtgagataca ... atgatttcagATGCTTAACAAGGAACATGAACGGGCAGAAGACTCGAAAACAGTTACAGTG
EST: gi|193472484|gb|FK434869.1|FK434869
EST:     CGTCTCTCATTAGAAGTGTAATAGCACTCCACAACTTGATTAACAACAAG                         ATGCTTAACAAGGAACATGAACGGGCAGAAGACTCGAAAACAGTTACAGTG
genomic: CGTCTCTCATTAGAAGTGTAATAGCACTCCACAACTTGATTAACAACAAGgtgagataca ... atgatttcagATGCTTAACAAGGAACATGAACGGGCAGAAGACTCGAAAACAGTTACAGTG
EST: gi|208197313|gb|GE001545.1|GE001545
EST:     CGTCTCTCATTAGAAGTGTAATAGCACTCCACAACTTGATTAACAACAAG                         ATGCTTAACAAGGAACATGGACGGGCAGAAGACTCGAAAACAGTTACAGTG
genomic: CGTCTCTCATTAGAAGTGTAATAGCACTCCACAACTTGATTAACAACAAGgtgagataca ... atgatttcagATGCTTAACAAGGAACATGAACGGGCAGAAGACTCGAAAACAGTTACAGTG
EST: gi|58017218|gb|CX703960.1|CX703960
EST:     CGTCTCTCATTAGAAGTGTAATAGCACTCCACAACTTGATTAACAACAAG                         ATGCTTAACAAGGAACATGAACGGGCAGAAGACTCGAAAACAGTTACAGTG
genomic: CGTCTCTCATTAGAAGTGTAATAGCACTCCACAACTTGATTAACAACAAGgtgagataca ... atgatttcagATGCTTAACAAGGAACATGAACGGGCAGAAGACTCGAAAACAGTTACAGTG
EST: gi|193662667|gb|FK603217.1|FK603217
EST:     CGTCTCTCATTAGAAGTGTAATAGCACTCCACAACTTGATTAACAACAAG                         ATGCTTAACAAGGAACATGAACGGGCAGAAGACTCGAAAACAGTTACAGTG
genomic: CGTCTCTCATTAGAAGTGTAATAGCACTCCACAACTTGATTAACAACAAGgtgagataca ... atgatttcagATGCTTAACAAGGAACATGAACGGGCAGAAGACTCGAAAACAGTTACAGTG
EST: gi|193453916|gb|FK419545.1|FK419545
EST:     CGTCTCTCATTAGAAGTGTAATAGCACTCCACAACTTGATTAACAACAAG                         ATGCTTAACAAGGAACATGAACGGGCAGAAGACTCGAAAACAGTTACAGTG
genomic: CGTCTCTCATTAGAAGTGTAATAGCACTCCACAACTTGATTAACAACAAGgtgagataca ... atgatttcagATGCTTAACAAGGAACATGAACGGGCAGAAGACTCGAAAACAGTTACAGTG
EST: gi|5058103|gb|AI736579.1|AI736579
EST:     CGTCTCTCATTAGAAGTGTAATAGCACTCCACAACTTGATTAACAACAAG                         ATGCTTAACAAGGAACATGAACGGGCAGAAGACTCGAAAACAGTTACAGTG
genomic: CGTCTCTCATTAGAAGTGTAATAGCACTCCACAACTTGATTAACAACAAGgtgagataca ... atgatttcagATGCTTAACAAGGAACATGAACGGGCAGAAGACTCGAAAACAGTTACAGTG
EST: gi|14258393|gb|BG881301.1|BG881301
EST:     CGTCTCTCATTAGAAGTGTAATAGCACTCCACAACTTGATTAACAACAAG                         ATGCTTAACAAGGAACATGAACGGGCAGAAGACTCGAAAACAGTTACAGTG
genomic: CGTCTCTCATTAGAAGTGTAATAGCACTCCACAACTTGATTAACAACAAGgtgagataca ... atgatttcagATGCTTAACAAGGAACATGAACGGGCAGAAGACTCGAAAACAGTTACAGTG
EST: gi|208341631|gb|GE136695.1|GE136695
EST:     CTTGATTAACAACAAG                         ATGCTTAACAAGGAGCATGAACGGGCAGAAGACTCGAAAACAGTTACAGTG
genomic: CTTGATTAACAACAAGgtgagataca ... atgatttcagATGCTTAACAAGGAACATGAACGGGCAGAAGACTCGAAAACAGTTACAGTG
EST: gi|193434343|gb|FK401069.1|FK401069
EST:     GTCTCTCATTAGAAGTGTAATAGCACTCCACAAACTTGATTAACAACAAG                         ATGCTTAACAAGGAACATGAACGGGCAGAAGACTCGAAAACAGTTACAGTG
genomic: GTCTCTCATTAGAAGTGTAATAGCACTCCAC-AACTTGATTAACAACAAGgtgagataca ... atgatttcagATGCTTAACAAGGAACATGAACGGGCAGAAGACTCGAAAACAGTTACAGTG
EST: gi|193497576|gb|FK460808.1|FK460808
EST:     CGTCTCTCATTAGAAGTGTAATAGCGCTCCACAACTTGATTAACAACAAG                         ATGCTTAACAAGGAACATGAACGGGCAGAAGACTCGAAAACAGTTACTGTG
genomic: CGTCTCTCATTAGAAGTGTAATAGCACTCCACAACTTGATTAACAACAAGgtgagataca ... atgatttcagATGCTTAACAAGGAACATGAACGGGCAGAAGACTCGAAAACAGTTACAGTG
EST: gi|58017413|gb|CX704155.1|CX704155
EST:     CGTCTCTCATTAGAAGTGTAATAGCACTCCACAACTTGATTAACAACAAG                         ATGCTTAACAAGGAACATGAACGGGCAGAAGACTCGAAAACAGTTACAGTG
genomic: CGTCTCTCATTAGAAGTGTAATAGCACTCCACAACTTGATTAACAACAAGgtgagataca ... atgatttcagATGCTTAACAAGGAACATGAACGGGCAGAAGACTCGAAAACAGTTACAGTG
EST: gi|58023179|gb|CX709920.1|CX709920
EST:     CGTCTCTCATTAGAAGTGTAATAGCACTCCACAACTTGATTAACAACAAG                         ATGCTTAACAAGGAACATGAACGGGCAGAAGACTCGAAAACAGTTACAGTG
genomic: CGTCTCTCATTAGAAGTGTAATAGCACTCCACAACTTGATTAACAACAAGgtgagataca ... atgatttcagATGCTTAACAAGGAACATGAACGGGCAGAAGACTCGAAAACAGTTACAGTG
EST: gi|207716253|gb|GD697559.1|GD697559
EST:     CGTCTCTCATTAGAAGTGTAATAGCACTCCACAACTTGATTAACAACAAG                         ATGCTTAACAAGGAACATGAACGGGCAGAAGACTCGAAAACAGTTACAGTG
genomic: CGTCTCTCATTAGAAGTGTAATAGCACTCCACAACTTGATTAACAACAAGgtgagataca ... atgatttcagATGCTTAACAAGGAACATGAACGGGCAGAAGACTCGAAAACAGTTACAGTG
EST: gi|207841941|gb|GD816317.1|GD816317
EST:     CGTCTCTCATTAGAGGTGTAATAGCACTCCACAACTTGATTAACAACAAG                         ATGCTTAACAAGGAACATGAACGGGCAGAAGACTCGAAAACAGTTA
genomic: CGTCTCTCATTAGAAGTGTAATAGCACTCCACAACTTGATTAACAACAAGgtgagataca ... atgatttcagATGCTTAACAAGGAACATGAACGGGCAGAAGACTCGAAAACAGTTA
EST: gi|193651261|gb|FK598996.1|FK598996
EST:     CGTCTCTCATTAGAAGTGTAATAGCACTCCACAACTTGATTAACAACAAG                         ATGCTTAACAAGGAACATGAACGGGCAGAAGACTCGAAAACAGTTACAGTG
genomic: CGTCTCTCATTAGAAGTGTAATAGCACTCCACAACTTGATTAACAACAAGgtgagataca ... atgatttcagATGCTTAACAAGGAACATGAACGGGCAGAAGACTCGAAAACAGTTACAGTG
EST: gi|207720695|gb|GD701738.1|GD701738
EST:     CGTCTCTCATTAGAAGTGTAATAGCACTCCACAACTTGATTAACAACAAG                         ATGCTTAACAAGGAACATGAACGGGCAGAAGACTCGAAAACAGTTACAGTG
genomic: CGTCTCTCATTAGAAGTGTAATAGCACTCCACAACTTGATTAACAACAAGgtgagataca ... atgatttcagATGCTTAACAAGGAACATGAACGGGCAGAAGACTCGAAAACAGTTACAGTG
EST: gi|208231147|gb|GE034358.1|GE034358
EST:     CGTCTCTCATTAGAAGTGTAATAGCACTCCACAACTTGATTAACAACAAG                         ATGCTTAACAAGGAACATGAACGG
genomic: CGTCTCTCATTAGAAGTGTAATAGCACTCCACAACTTGATTAACAACAAGgtgagataca ... atgatttcagATGCTTAACAAGGAACATGAACGG

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGAAAACCAATGATATGATGCTGGTAATATACCTCTCGTCTCTCATTAGAAGTGTAATAGCACTCCACAACTTGATTAACAACAAGgtgagatacactcccctaaattttgctgcatgtatcattgatgtttgctgattactttatattttggatttgttatcatattatgaaaataacagttttg

- - - - - - - - - - - - - - - - - - - - - - -  AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctcccct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaaaataa