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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAGGGTTTGGATGCAAGACTTAAAGAGATCAGGGGTTACCTTGACCTTGTTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAGgtttgtttctcatattcttgcttagtaaatgctgattatttggctttgttatcaattggttcttgaatcttgattaagtattttctgctggtccataatt...

Basic information

species Glycine max
transcript GLYMA18G03360.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G03360.1 (Glycine max), 5'ss of exon 7
lower sequence: AT5G05780.1 (Arabidopsis thaliana), 5'ss of exon 7
GAAGGGTTTGGATGCAAGACTTAAAGAGATCAGGGGTTACCTTGACCTTGTTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAGgtt-------tgtttc----tcatattcttg-cttagtaaatgctg-----attatttggctttgtt---atcaattggttcttgaatcttga-------ttaagtatt--ttctgctggtccataatt-----------------------------------
|||||| ||||||||| | |||   |||||| || |||| ||||||||||| || || |||||||| ||  |||||||||||||  | |||||||| ||||||       | ||||    || | ||||    ||   ||||  ||     | |||||| |  |||    | | ||  ||| |    |||| |        ||   | |   ||||||| |   | |||                                   
GAAGGGGTTGGATGCACGTCTTCGGGAGATCCGGAGTTATCTTGACCTTGTAATCGAAGGAAAGCTCCCTCTAAACCATGAGATTTTATACCATCTACAGgttagaactatatttccgtttcgtgttctgaattttacaaattatggagaaactatttgacaatgtccaaacctatgtgttttgcgctctttaaaatattctagtcactgtctctgctgttggttgatttcgtctaatgaaatatattctcgtaaaatcgacag

upper sequence: GLYMA18G03360.1 (Glycine max), 5'ss of exon 7
lower sequence: AT3G11270.1 (Arabidopsis thaliana), 5'ss of exon 7
GAAGGGTTTGGATGCAAGACTTAAAGAGATCAGGGGTTACCTTGACCTTGTTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAGgtttgtttctca--tattcttgcttagtaaat----gctgattat----ttggctttgttatcaattggttcttgaatcttgattaagtattttctgctggtcc--ataatt----------------
|||||| ||||||||| |||||   |||||| ||  ||||||||||||||| || || ||||| || |||||||||||||| ||| | |||||||| |||||     | | |  | |  |||  ||||| |      ||| || |    || | ||| || ||| |   | | ||| |  |  | | |  | ||| |||       ||| |                 
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|209702245|gb|BW664636.1|BW664636
EST:     TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAG                         GACGTGTTTAACCTGCTACCAAATCTCAATGTTGCTGATCTTATCAAGGCT
genomic: TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAGgtttgtttct ... atgtttttagGACGTGTTTAACCTGCTACCAAATCTCAATGTTGCTGATCTTATCAAGGCT
EST: gi|208327316|gb|GE118086.1|GE118086
EST:     TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAG                         GACGTGTTTTAACCTGCTACCAAAT
genomic: TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAGgtttgtttct ... atgtttttagGACGTGTTT-AACCTGCTACCAAAT
EST: gi|193510568|gb|FK468074.1|FK468074
EST:     TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAG                         GACGTGTTTAACCTGCTACCAAATCTCAATGTTGCTGATCTTATCAAGGCT
genomic: TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAGgtttgtttct ... atgtttttagGACGTGTTTAACCTGCTACCAAATCTCAATGTTGCTGATCTTATCAAGGCT
EST: gi|209700576|gb|BW670404.1|BW670404
EST:     TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAG                         GACGTGTTTAACCTGCTACCAAATCTCAATGTTGCTGATCTTATCAAGGCT
genomic: TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAGgtttgtttct ... atgtttttagGACGTGTTTAACCTGCTACCAAATCTCAATGTTGCTGATCTTATCAAGGCT
EST: gi|151409423|gb|EV279231.1|EV279231
EST:     GCTTCCATTAAACCATGAGATCCTGTACCATCTGCAG                         GACGTGTTTAACCTGCTACCAAATCTCAATGTTGCTGATCTTATCAAGGCT
genomic: GCTTCCATTAAACCATGAGATCCTGTACCATCTGCAGgtttgtttct ... atgtttttagGACGTGTTTAACCTGCTACCAAATCTCAATGTTGCTGATCTTATCAAGGCT
EST: gi|208298675|gb|GE089816.1|GE089816
EST:     TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAG                         GACGTGTTTAACCTGCTACCAAATCTCAATGTTGCTGATCTTATCAAGGCT
genomic: TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAGgtttgtttct ... atgtttttagGACGTGTTTAACCTGCTACCAAATCTCAATGTTGCTGATCTTATCAAGGCT
EST: gi|193349343|gb|FK316501.1|FK316501
EST:     TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAG                         GACGTGTTTAACCTGCTACCAAATCTCAATGTTGCTGATCTTATCAAGGCT
genomic: TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAGgtttgtttct ... atgtttttagGACGTGTTTAACCTGCTACCAAATCTCAATGTTGCTGATCTTATCAAGGCT
EST: gi|208075033|gb|GD875530.1|GD875530
EST:     TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAG                         GACGTGTTTAACCTGCTACCAAATCTCAATGTTGCTGATCTTATCAAGGCT
genomic: TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAGgtttgtttct ... atgtttttagGACGTGTTTAACCTGCTACCAAATCTCAATGTTGCTGATCTTATCAAGGCT
EST: gi|208278052|gb|GE073939.1|GE073939
EST:     TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAG                         GACGTGTTTAACCTGCTACCAAATCTCAATGTTGCTGGTCTTATCAAGGCT
genomic: TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAGgtttgtttct ... atgtttttagGACGTGTTTAACCTGCTACCAAATCTCAATGTTGCTGATCTTATCAAGGCT
EST: gi|208271783|gb|GE069139.1|GE069139
EST:     TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAG                         GACGTGTTTAACCTGCTACCA
genomic: TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAGgtttgtttct ... atgtttttagGACGTGTTTAACCTGCTACCA
EST: gi|193690072|gb|FK631849.1|FK631849
EST:     TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAG                         GACGTGTTTAACCTGCTACCAAATCTCAATGTTGCTGATCTTATCAAGGCT
genomic: TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAGgtttgtttct ... atgtttttagGACGTGTTTAACCTGCTACCAAATCTCAATGTTGCTGATCTTATCAAGGCT
EST: gi|208336616|gb|GE135076.1|GE135076
EST:     TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAG                         GACGTGTTTAACCTGCTACCAAATCTCAATGTTGCTGATCTTATCAAGGCT
genomic: TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAGgtttgtttct ... atgtttttagGACGTGTTTAACCTGCTACCAAATCTCAATGTTGCTGATCTTATCAAGGCT
EST: gi|208221059|gb|GE020729.1|GE020729
EST:     TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAG                         GACGTGTTTAACCTGCTACCAAATCTCAATGTTGCTGATCTTATCAAGGCT
genomic: TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAGgtttgtttct ... atgtttttagGACGTGTTTAACCTGCTACCAAATCTCAATGTTGCTGATCTTATCAAGGCT
EST: gi|208311173|gb|GE102977.1|GE102977
EST:     TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAG                         GACGTGTTTAACCTGCTACCAAATCTCAATGTTGCTGATCTTATCAAGGCT
genomic: TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAGgtttgtttct ... atgtttttagGACGTGTTTAACCTGCTACCAAATCTCAATGTTGCTGATCTTATCAAGGCT
EST: gi|193401209|gb|FK370152.1|FK370152
EST:     TATTTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAG                         GACGTGTTTAACCTGCTACCAAATCTCAATGTTGCTGATCTTATCAAGGCT
genomic: TA-TTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAGgtttgtttct ... atgtttttagGACGTGTTTAACCTGCTACCAAATCTCAATGTTGCTGATCTTATCAAGGCT
EST: gi|208202192|gb|GD998319.1|GD998319
EST:     TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAG                         GACGTGTTTAACCTGCTACCAAATCTCAATGTTGCTGATCTTATCAAGGCT
genomic: TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAGgtttgtttct ... atgtttttagGACGTGTTTAACCTGCTACCAAATCTCAATGTTGCTGATCTTATCAAGGCT
EST: gi|208083366|gb|GD883960.1|GD883960
EST:     TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAG                         GACGTGTTTAACCTGCTACCAAATCTCAATGTTGCTGATCTTATCAAGGCT
genomic: TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAGgtttgtttct ... atgtttttagGACGTGTTTAACCTGCTACCAAATCTCAATGTTGCTGATCTTATCAAGGCT
EST: gi|193357719|gb|FK320565.1|FK320565
EST:     TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAG                         GACGTGTTTAACCTGCTACCAAATCTCAATGTTGCTGATCTTATCAAGGCT
genomic: TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAGgtttgtttct ... atgtttttagGACGTGTTTAACCTGCTACCAAATCTCAATGTTGCTGATCTTATCAAGGCT
EST: gi|193425604|gb|FK391691.1|FK391691
EST:     TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAG                         GATGTGTTTAACCTGCTACCAAATCT
genomic: TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAGgtttgtttct ... atgtttttagGACGTGTTTAACCTGCTACCAAATCT
EST: gi|193421468|gb|FK389627.1|FK389627
EST:     TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAG                         GACGTGTTTAACCTGCTACCAAATCTCAATGTTGCTGATCTTATCAAGGCT
genomic: TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAGgtttgtttct ... atgtttttagGACGTGTTTAACCTGCTACCAAATCTCAATGTTGCTGATCTTATCAAGGCT
EST: gi|214006383|gb|DB985759.1|DB985759
EST:     TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAG                         GACGTGTTTAACCTGCTACCAAATCTCAATGTTGCTGATCTTATCAAGGCT
genomic: TTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAGgtttgtttct ... atgtttttagGACGTGTTTAACCTGCTACCAAATCTCAATGTTGCTGATCTTATCAAGGCT
EST: gi|193406522|gb|FK371827.1|FK371827
EST:     GAGATCCTGTACCTATTCTGCAG                         GACGTGTTTAACCTGCTACCAAATCTCAATGTTGCTGATCTTATCAAGGC
genomic: GAGATCCTGTACC-A-TCTGCAGgtttgtttct ... atgtttttagGACGTGTTTAACCTGCTACCAAATCTCAATGTTGCTGATCTTATCAAGGC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAAGGGTTTGGATGCAAGACTTAAAGAGATCAGGGGTTACCTTGACCTTGTTATTGATGGAAAGCTTCCATTAAACCATGAGATCCTGTACCATCTGCAGgtttgtttctcatattcttgcttagtaaatgctgattatttggctttgttatcaattggttcttgaatcttgattaagtattttctgctggtccataatt

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