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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAGGGTTTGGATGCAAGACTTAAAGAGATCAGGAGTTACCTTGACCTTGTTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAGgtttgtttatcatattcttgcttagtaaatgctgattatttggctttgttatcaattggttcttgaatcttgattaagtattttctgctggtccacattt...

Basic information

species Glycine max
transcript GLYMA11G34980.1
intron # 7
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 7
lower sequence: AT5G05780.1 (Arabidopsis thaliana), 5'ss of exon 7
GAAGGGTTTGGATGCAAGACTTAAAGAGATCAGGAGTTACCTTGACCTTGTTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAGgtttgtttatcatattcttgcttagtaaatgctgattatttggctttgttatcaattggttcttgaatcttga---ttaagtattttctgctggtccacattt-----------------------------------------------------------------
|||||| ||||||||| | |||   |||||| ||||||| ||||||||||| || || |||||||| ||  |||||||||||||  | |||||||| |||||| |   |  |||||   | || ||   | |||| | ||     || |    ||    ||    ||| |  |    || || ||||  |||  |  | || |                                                                 
GAAGGGGTTGGATGCACGTCTTCGGGAGATCCGGAGTTATCTTGACCTTGTAATCGAAGGAAAGCTCCCTCTAAACCATGAGATTTTATACCATCTACAGgttaga--actatatttccgtttcgt--gttctgaattttacaaattatggagaaactatttgacaatgtccaaacctatgtgttttgcgctctttaaaatattctagtcactgtctctgctgttggttgatttcgtctaatgaaatatattctcgtaaaatcgacag

upper sequence: GLYMA11G34980.1 (Glycine max), 5'ss of exon 7
lower sequence: AT3G11270.1 (Arabidopsis thaliana), 5'ss of exon 7
GAAGGGTTTGGATGCAAGACTTAAAGAGATCAGGAGTTACCTTGACCTTGTTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAGgtttgtttatca--tattcttgcttagtaaat----gctgattat----ttggctttgttatcaattggttcttgaatcttgattaagtattttctgctggtccacattt------------------
|||||| ||||||||| |||||   |||||| ||| ||||||||||||||| || || ||||| || |||||||||||||| ||| | |||||||| |||||     | | |  | |  |||  ||||| |      ||| || |    || | ||| || ||| |   | | ||| |  |  | | |  | ||| |||       ||                    
GAAGGGATTGGATGCACGACTTCGGGAGATCCGGACTTACCTTGACCTTGTAATCGAAGGAAAACTCCCATTAAACCATGAAATCTTATACCATCTTCAGgtaacacttttaattgtagttgactagtagaatcaaactggttttcgtgtttgtttttttctcagt--atccgtgactgctagtaaggattattcagctaaattgaatactcttttgcaaatctgtag
















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|254323156|gb|GR835764.1|GR835764
EST:     TTATTGATGGAAAGCTTCCATTAA-CCATGAGATCCTGTACCATCTGCAG                         GATGTGTTTAACCTGCTACCAA
genomic: TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAGgtttgtttat ... atttttttagGATGTGTTTAACCTGCTACCAA
EST: gi|208217759|gb|GE016057.1|GE016057
EST:     TTATTGATGGAAAGCTTCCATTAAACCNTGAGATCCTGTACCATCTGCAG                         GATGTGTTTAACCNGCTACCAAATCTTAATGTTGCTGATCTTAT
genomic: TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAGgtttgtttat ... atttttttagGATGTGTTTAACCTGCTACCAAATCTTAATGTTGCTGATCTTAT
EST: gi|208311610|gb|GE109434.1|GE109434
EST:     TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAG                         GATGTGTTTAACCTGCTACCAAATCTTAATGTTGCTGATCTTATCAAGGCT
genomic: TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAGgtttgtttat ... atttttttagGATGTGTTTAACCTGCTACCAAATCTTAATGTTGCTGATCTTATCAAGGCT
EST: gi|207829987|gb|GD801903.1|GD801903
EST:     GATGGAAAGTCTTCCATTAAACCATGAGATCCTGTACCATCTGCAG                         GATGTGTTTAACCTGCTACCAAATCTTAATGTTGCTGATCTTATCAAGGCT
genomic: GATGGAAAG-CTTCCATTAAACCATGAGATCCTGTACCATCTGCAGgtttgtttat ... atttttttagGATGTGTTTAACCTGCTACCAAATCTTAATGTTGCTGATCTTATCAAGGCT
EST: gi|58016090|gb|CX702832.1|CX702832
EST:     TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAG                         GATGTGTTTAACCTGCTACCAAATCTTAATGTTGCTGATCTTATCAAGGCT
genomic: TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAGgtttgtttat ... atttttttagGATGTGTTTAACCTGCTACCAAATCTTAATGTTGCTGATCTTATCAAGGCT
EST: gi|15662128|gb|BI699499.1|BI699499
EST:     TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAG                         GATGTGTTTAACCTGCTACCAAATCTTAATGTTGCTGATCTTATCAAGGCT
genomic: TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAGgtttgtttat ... atttttttagGATGTGTTTAACCTGCTACCAAATCTTAATGTTGCTGATCTTATCAAGGCT
EST: gi|12774685|gb|BG239612.1|BG239612
EST:     TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAG                         GATGTGTTTAACCTGCTACCAAATCTTAATGTTGCTGATCTTATCAA
genomic: TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAGgtttgtttat ... atttttttagGATGTGTTTAACCTGCTACCAAATCTTAATGTTGCTGATCTTATCAA
EST: gi|207802987|gb|GD773500.1|GD773500
EST:     TTATTGATGGAAAGTTTCCATTAAACCATGAGATCCTGTACCATCTGCAG                         GATGTGTTTAACCTGCTACCAAATCTTAA
genomic: TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAGgtttgtttat ... atttttttagGATGTGTTTAACCTGCTACCAAATCTTAA
EST: gi|254323157|gb|GR835765.1|GR835765
EST:     TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAG                         GATGTGTTTAACCTGCTACCAAATCTTAATGTTGCTGATCTTATCAAGGCT
genomic: TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAGgtttgtttat ... atttttttagGATGTGTTTAACCTGCTACCAAATCTTAATGTTGCTGATCTTATCAAGGCT
EST: gi|207684747|gb|GD664706.1|GD664706
EST:     TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAG                         GATGTGTTTAACCTGCTACCAAATCTTAATGTTGCTGATCTTATCAAGGCT
genomic: TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAGgtttgtttat ... atttttttagGATGTGTTTAACCTGCTACCAAATCTTAATGTTGCTGATCTTATCAAGGCT
EST: gi|58017218|gb|CX703960.1|CX703960
EST:     TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAG                         GATGTGTTTAACCTGCTACCAAATCTTAATGTTGCTGATCTTATCAAGGCT
genomic: TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAGgtttgtttat ... atttttttagGATGTGTTTAACCTGCTACCAAATCTTAATGTTGCTGATCTTATCAAGGCT
EST: gi|208073938|gb|GD867771.1|GD867771
EST:     TTACTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAG                         GATGTGTTTAACCTGCTACCAAATCTTAATGTTGCTGATCTTATCAAGGCT
genomic: TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAGgtttgtttat ... atttttttagGATGTGTTTAACCTGCTACCAAATCTTAATGTTGCTGATCTTATCAAGGCT
EST: gi|5058103|gb|AI736579.1|AI736579
EST:     TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAG                         GATGTGTTTAACCTGCTACCANATCTTAATGTTGCTGATCTTATCAAGGCT
genomic: TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAGgtttgtttat ... atttttttagGATGTGTTTAACCTGCTACCAAATCTTAATGTTGCTGATCTTATCAAGGCT
EST: gi|208099388|gb|GD898833.1|GD898833
EST:     TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAG                         GATGTGTTTAACCTGCTACCAAATCTTAATGTTGCTGATCTTA
genomic: TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAGgtttgtttat ... atttttttagGATGTGTTTAACCTGCTACCAAATCTTAATGTTGCTGATCTTA
EST: gi|193497576|gb|FK460808.1|FK460808
EST:     GAGATCCTGTACCATCTGCAG                         GATGTGTTTAACCTGCTACCAAATCTTAATGTTGCTGATCTTATCAAGGCT
genomic: GAGATCCTGTACCATCTGCAGgtttgtttat ... atttttttagGATGTGTTTAACCTGCTACCAAATCTTAATGTTGCTGATCTTATCAAGGCT
EST: gi|58017413|gb|CX704155.1|CX704155
EST:     TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAG                         GATGTGTTTAACCTGCTACCAAATCTTAATGTTGCTGATCTTATCAAGGCT
genomic: TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAGgtttgtttat ... atttttttagGATGTGTTTAACCTGCTACCAAATCTTAATGTTGCTGATCTTATCAAGGCT
EST: gi|58023179|gb|CX709920.1|CX709920
EST:     TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAG                         GATGTGTTTAACCTGCTACCAAATCTTAATGTTGCTGATCTTATCAAGGCT
genomic: TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAGgtttgtttat ... atttttttagGATGTGTTTAACCTGCTACCAAATCTTAATGTTGCTGATCTTATCAAGGCT
EST: gi|207716253|gb|GD697559.1|GD697559
EST:     CCATTAAACCATGAGATCCTGTACCATCTGCAG                         GATGTGTTTAACCTGCTACCAAATCTTAATGTTGCTGATCTTATCAAGGCT
genomic: CCATTAAACCATGAGATCCTGTACCATCTGCAGgtttgtttat ... atttttttagGATGTGTTTAACCTGCTACCAAATCTTAATGTTGCTGATCTTATCAAGGCT
EST: gi|207841941|gb|GD816317.1|GD816317
EST:     TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAG                         GATGTGTTTAACCTGCTACCAAATCTTAATGTTGCTGATCTTATCAAGGCT
genomic: TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAGgtttgtttat ... atttttttagGATGTGTTTAACCTGCTACCAAATCTTAATGTTGCTGATCTTATCAAGGCT
EST: gi|193371957|gb|FK334600.1|FK334600
EST:     CCTGTACCATCTTTGTCAG                         GATGTGTTTAACCTGCTACCAAATCTTAATGTTGCTGATCTTATCAAGGC
genomic: CCTGTACCATC--TG-CAGgtttgtttat ... atttttttagGATGTGTTTAACCTGCTACCAAATCTTAATGTTGCTGATCTTATCAAGGC
EST: gi|207740941|gb|GD714319.1|GD714319
EST:     TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAG                         GATGTGTTTAACCTGCTACCAAATCTTAATGTTGCTGATCTTATCAAGGCT
genomic: TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAGgtttgtttat ... atttttttagGATGTGTTTAACCTGCTACCAAATCTTAATGTTGCTGATCTTATCAAGGCT
EST: gi|151411180|gb|EV280991.1|EV280991
EST:     TTATTGATGGAAAGCTTCCATTAA-CCATGAGATCCTGTACCATCTGCAG                         -ATGTGTTTA-CCTGCTACCAAATCT-A-TGT-GCTGATC
genomic: TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAGgtttgtttat ... atttttttagGATGTGTTTAACCTGCTACCAAATCTTAATGTTGCTGATC
EST: gi|207720695|gb|GD701738.1|GD701738
EST:     CCATTAAACCATGAGATCCTGTACCATCTGCAG                         GATGTGTTTAACCTGCTACCAAATCTTAATGTTGCTGATCTTATCAAGGCT
genomic: CCATTAAACCATGAGATCCTGTACCATCTGCAGgtttgtttat ... atttttttagGATGTGTTTAACCTGCTACCAAATCTTAATGTTGCTGATCTTATCAAGGCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAAGGGTTTGGATGCAAGACTTAAAGAGATCAGGAGTTACCTTGACCTTGTTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAGgtttgtttatcatattcttgcttagtaaatgctgattatttggctttgttatcaattggttcttgaatcttgattaagtattttctgctggtccacattt

- - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG