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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAACAAGACTGACCTTGCTCCTGCAATTGGGGCTGATTTGGCAGTCATGCAGCGGGATGCTCTGCGGATGAGAGATGGAGGGCCATTTGTCTTTGCACAGgttagttaagtacattatttgtcggcttagtagtttttaaattttaaattgctgcctaattctcttaatgccatgcccattggtatatccaagtttcagc...

Basic information

species Glycine max
transcript GLYMA08G08970.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G08970.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os05g49050.1 (Oryza sativa), 5'ss of exon 6
AAACAAGACTGACCTTGCTCCTGCAATTGGGGCTGATTTGGCAGTCATGCAGCGGGATGCTCTGCGGATGAGAGATGGAGGGCCATTTGTCTTTGCACAGgtt----agttaagtacat-tatttgtcggcttagtagtttttaaattttaa--attgctgcctaattctcttaatgccatg----cccattggtatatccaagtttcagc----------
||||||||| |||||||| || ||| |||| |||||  |||| || ||| | || ||||| || || ||| | || |||||||| ||||||||||||||||||    | | ||  | |   ||||||    ||  |||      ||  ||||     ||||   |    |   |  | |||     |  |||   | || |   ||| |            
AAACAAGACAGACCTTGCACCAGCAGTTGGAGCTGACCTGGCTGTAATGGAACGAGATGCGCTTCGCATGCGGGAAGGAGGGCCTTTTGTCTTTGCACAGgttcagtattaaaccatacacatttgttccttttttagcgggggaaaattaacagaagctgatgataattgcaagggacatagctccatatttacacatgcttattttacactgcttccag

upper sequence: GLYMA08G08970.1 (Glycine max), 5'ss of exon 5
lower sequence: AT2G34470.1 (Arabidopsis thaliana), 5'ss of exon 6
AAACAAGACTGACCTTGCTCCTGCAATTGGGGCTGATTTGGCAGTCATGCAGCGGGATGCTCTGCGGATGAGAGATGGAGGGCCATTTGTCTTTGCACAGgttagttaagtacattatttgtcggcttagtagtttttaaattttaaattgctgcctaattctcttaatgccatgcccattggtatatccaagtttcagc--
||||||||||||||||||  | ||  |||||||||| ||  | |||||| |  ||||| | || || ||| | ||||||||||||||||||||||| |||||| |  |  | ||  |    |  | ||  |   || || |     |||  |  | || | ||   ||     |   | |||  ||  | ||   |  ||  
AAACAAGACTGACCTTGCAGCAGCTGTTGGGGCTGACTTATCGGTCATGGAAAGGGATTCACTACGCATGCGTGATGGAGGGCCATTTGTCTTTGCTCAGgttcgccatcttcagaa---atatgtttcatcacttatataacc--aatgac--cttagtacttacaaaagagtcttctttg--attactaaacattggcag

upper sequence: GLYMA08G08970.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv10s0003g03120.t01 (Vitis vinifera), 5'ss of exon 10
AAACAAGACTGACCTTGCTCCTGCAATTGGGGCTGATTTGGCAGTCATGCAGCGGGATGCTCTGCGGATGAGAGATGGAGGGCCATTTGTCTTTGCACAGgttagttaagtacattatttgtcggcttagtagtttttaaattttaaattgctgcctaattctcttaatgccatgcccatt-ggtatatccaagtttcagc---
|||||||||||||||||| || ||| |||| ||||| |||||||| ||| |||| ||| | || |||||| ||||||||||||||||| ||||||| |||||   || | || ||  ||| |    ||  |   |   ||||||  | | ||    |     | | | || |||    |   ||| |  ||||   ||  |   
AAACAAGACTGACCTTGCACCAGCAGTTGGAGCTGACTTGGCAGTGATGGAGCGTGATTCACTTCGGATGCGAGATGGAGGGCCATTTATCTTTGCTCAGgtacattgattagatcctttttt--tttctttcatagcaaatttccagtagcattttg--catatcattgacataaataaaaggttttaccaatcctcttctat

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|207820243|gb|GD790065.1|GD790065
EST:     TCTTTGCACAG                         GTGAAGCATAAGATTGGAGTAGAAGAAATTGGGAATCTTGTCTTGCAGGCA
genomic: TCTTTGCACAGgttagttaag ... gtatgtgcagGTGAAGCATAAGATTGGAGTAGAAGAAATTGGGAATCTTGTCTTGCAGGCA
EST: gi|208160488|gb|GD960436.1|GD960436
EST:     AGCGGGATGCTCTGCGGATGAGAGATGGAGGGCCATTTGTCTTTGCACAG                         GTGAAGCATAAAGATTGGAGTAGA
genomic: AGCGGGATGCTCTGCGGATGAGAGATGGAGGGCCATTTGTCTTTGCACAGgttagttaag ... gtatgtgcagGTGAAGCATAA-GATTGGAGTAGA
EST: gi|207848775|gb|GD818806.1|GD818806
EST:     TGTCTTTGCACAG                         GTGAAGCATAAGATTGGAGTAGAAGAAATTGGGAATCTTGTCTTGCAGGCA
genomic: TGTCTTTGCACAGgttagttaag ... gtatgtgcagGTGAAGCATAAGATTGGAGTAGAAGAAATTGGGAATCTTGTCTTGCAGGCA
EST: gi|208262403|gb|GE059162.1|GE059162
EST:     AGCGGGATGCTCTGCGGATGAGAGATGGAGGGCCATTTGTCTTTGCACAG                         GTGAAGCATAAGATTGGAGTAGAAGAAATTGGGAATCTTGTCTTGCAGGCA
genomic: AGCGGGATGCTCTGCGGATGAGAGATGGAGGGCCATTTGTCTTTGCACAGgttagttaag ... gtatgtgcagGTGAAGCATAAGATTGGAGTAGAAGAAATTGGGAATCTTGTCTTGCAGGCA
EST: gi|26268544|gb|CA819607.1|CA819607
EST:     ATGCTCTGCGGATGAGAGATGGAGGGCCATTTGTCTTTGCACAG                         GTGAAGCATAAGATTGGAGTAGAAGAAATTGGGAATCTTGTCTTGCAGGCA
genomic: ATGCTCTGCGGATGAGAGATGGAGGGCCATTTGTCTTTGCACAGgttagttaag ... gtatgtgcagGTGAAGCATAAGATTGGAGTAGAAGAAATTGGGAATCTTGTCTTGCAGGCA
EST: gi|14516547|gb|BI095219.1|BI095219
EST:     AGCGGGATGCTCTGCGGATGAGAGATGGAGGGCCATTTGTCTTTGCACAG                         GTGAAGCATAAGATTGGAGTAGAAGAAATTGGGAATCTTGTCTTGCAGGCA
genomic: AGCGGGATGCTCTGCGGATGAGAGATGGAGGGCCATTTGTCTTTGCACAGgttagttaag ... gtatgtgcagGTGAAGCATAAGATTGGAGTAGAAGAAATTGGGAATCTTGTCTTGCAGGCA
EST: gi|208040501|gb|GD841287.1|GD841287
EST:     TGTCTTTGCACAG                         GTGAAGCATAAGATTGGAGTAGAAGAAATTGGGAATCTTGTCTTGCAGGCA
genomic: TGTCTTTGCACAGgttagttaag ... gtatgtgcagGTGAAGCATAAGATTGGAGTAGAAGAAATTGGGAATCTTGTCTTGCAGGCA
EST: gi|7146948|gb|AW508870.1|AW508870
EST:     AGCGGGATGCTCTGCGGATGAGAGATGGAGGGCCATTTGTCTTTGCACAG                         GTGAAGCATAAGATTGGAGTAGAAGAGATTGGGAATCTTGTCTTGCAGGCA
genomic: AGCGGGATGCTCTGCGGATGAGAGATGGAGGGCCATTTGTCTTTGCACAGgttagttaag ... gtatgtgcagGTGAAGCATAAGATTGGAGTAGAAGAAATTGGGAATCTTGTCTTGCAGGCA
EST: gi|207844542|gb|GD816589.1|GD816589
EST:     CATTTGTCTTTGCACAG                         GTGAAGCATAAGATTGGAGTAGAAGAAATTGGGAATCTTGTCTTGCAGGCA
genomic: CATTTGTCTTTGCACAGgttagttaag ... gtatgtgcagGTGAAGCATAAGATTGGAGTAGAAGAAATTGGGAATCTTGTCTTGCAGGCA
EST: gi|31311386|gb|CD396589.1|CD396589
EST:     AGCGGGATGCTCTGCGGATGAGAGATGGAGGGCCATTTGTCTTTGCACAG                         GTGAAGCATAAGATTGGAGTAGAAGAAATTGGGAATCTTGTCTTGCAGGCA
genomic: AGCGGGATGCTCTGCGGATGAGAGATGGAGGGCCATTTGTCTTTGCACAGgttagttaag ... gtatgtgcagGTGAAGCATAAGATTGGAGTAGAAGAAATTGGGAATCTTGTCTTGCAGGCA
EST: gi|193583433|gb|FK538885.1|FK538885
EST:     GGCCATTTGTCTTTGCACAG                         GTGAAGCATAAGATTGGAGTAGAAGAAATTGGGAATCTTGTCTTGCAGGCA
genomic: GGCCATTTGTCTTTGCACAGgttagttaag ... gtatgtgcagGTGAAGCATAAGATTGGAGTAGAAGAAATTGGGAATCTTGTCTTGCAGGCA
EST: gi|9259040|gb|BE347187.1|BE347187
EST:     AGCGGGATGCTCTGCGGATGAGAGATGGAGGGCCATNTGTCTTTGCACAG                         GTGAAGCCATA-GAATGGAGTAGAAGAAATTGGGAATCCTGTCTTG
genomic: AGCGGGATGCTCTGCGGATGAGAGATGGAGGGCCATTTGTCTTTGCACAGgttagttaag ... gtatgtgcagGTGAAGC-ATAAGATTGGAGTAGAAGAAATTGGGAATCTTGTCTTG
EST: gi|209714519|gb|BW659156.1|BW659156
EST:     AGCGGGATGCTCTGCGGATGAGAGATGGAGGGCCATTTGTCTTTGCACAG                         GTGAAGCATAAGATTGGAGTAGAAGAAATTGGGAATCTTGTCTTGCAGGCA
genomic: AGCGGGATGCTCTGCGGATGAGAGATGGAGGGCCATTTGTCTTTGCACAGgttagttaag ... gtatgtgcagGTGAAGCATAAGATTGGAGTAGAAGAAATTGGGAATCTTGTCTTGCAGGCA
EST: gi|193444492|gb|FK409804.1|FK409804
EST:     TGTCTTTGCACAG                         GTGAAGCATAAGATTGGAGTAGAAGAAATTGGGAATCTTGTCTTGCAGGCA
genomic: TGTCTTTGCACAGgttagttaag ... gtatgtgcagGTGAAGCATAAGATTGGAGTAGAAGAAATTGGGAATCTTGTCTTGCAGGCA
EST: gi|193724751|gb|FK658511.1|FK658511
EST:     AGCGGGATGCTCTGCGGATGAGAGATGGAGGGCCATTTGTCTTTGCACAG                         GTGAAGCATAAGA
genomic: AGCGGGATGCTCTGCGGATGAGAGATGGAGGGCCATTTGTCTTTGCACAGgttagttaag ... gtatgtgcagGTGAAGCATAAGA
EST: gi|193470672|gb|FK436487.1|FK436487
EST:     GCGGGATGCTCTGCGGATGAGAGATGGAGGGCCATTTGTCTTTGCACAG                         GTGAAGCATAAGATTGGAGTAGAAGAAATTGGGAATCTTGTCTTGCAGGCA
genomic: GCGGGATGCTCTGCGGATGAGAGATGGAGGGCCATTTGTCTTTGCACAGgttagttaag ... gtatgtgcagGTGAAGCATAAGATTGGAGTAGAAGAAATTGGGAATCTTGTCTTGCAGGCA
EST: gi|208272569|gb|GE067923.1|GE067923
EST:     AGCGGGATGCTCTGCGGATGAGAGATGGAGGGCCATTTGTCTTTGCACAG                         GTGAAGCATAAGATTGGAGTAGAAGAAATTGGGAATCTTGTCTTGCAGGCA
genomic: AGCGGGATGCTCTGCGGATGAGAGATGGAGGGCCATTTGTCTTTGCACAGgttagttaag ... gtatgtgcagGTGAAGCATAAGATTGGAGTAGAAGAAATTGGGAATCTTGTCTTGCAGGCA
EST: gi|193516884|gb|FK473012.1|FK473012
EST:     GTCTTTGCACAG                         GTGAAGCATAAGATTGGAGTAGAAGAAATTGGGAATCTTGTCTTGCAGGCA
genomic: GTCTTTGCACAGgttagttaag ... gtatgtgcagGTGAAGCATAAGATTGGAGTAGAAGAAATTGGGAATCTTGTCTTGCAGGCA
EST: gi|193605585|gb|FK559013.1|FK559013
EST:     GTCTTTGCACAG                         GTGAAGCATAAGATTGGAGTAGAAGAAATTGGGAATCTTGTCTTGCAGGCA
genomic: GTCTTTGCACAGgttagttaag ... gtatgtgcagGTGAAGCATAAGATTGGAGTAGAAGAAATTGGGAATCTTGTCTTGCAGGCA
EST: gi|207689958|gb|GD673527.1|GD673527
EST:     TGTCTTTGCACAG                         GTGAAGCATAAGATTGGAGTAGAAGAAATTGGGAATCTTGTCTTGCAGGCA
genomic: TGTCTTTGCACAGgttagttaag ... gtatgtgcagGTGAAGCATAAGATTGGAGTAGAAGAAATTGGGAATCTTGTCTTGCAGGCA
EST: gi|207703456|gb|GD685850.1|GD685850
EST:     AGCGGGATGCTCTGCGGATGAGAGATGGAGGGCCATTTGTCTTTGCACAG                         GTGAAGCATAAGATTGGAGTAGAAGAAATTGGGAATCTTGTCTTGCAGGCA
genomic: AGCGGGATGCTCTGCGGATGAGAGATGGAGGGCCATTTGTCTTTGCACAGgttagttaag ... gtatgtgcagGTGAAGCATAAGATTGGAGTAGAAGAAATTGGGAATCTTGTCTTGCAGGCA
EST: gi|207710551|gb|GD690787.1|GD690787
EST:     AGCGGGATGCTCTGCGGATGAGAGATGGAGGGCCATTTGTCTTTGCACAG                         GTGAAGCATAAGATTGGAGTAGAAGAAA
genomic: AGCGGGATGCTCTGCGGATGAGAGATGGAGGGCCATTTGTCTTTGCACAGgttagttaag ... gtatgtgcagGTGAAGCATAAGATTGGAGTAGAAGAAA
EST: gi|208279748|gb|GE078420.1|GE078420
EST:     AGCGGGATGCTCTGCGGATGAGAGATGGAGGGCCATTTGTCTTTGCACAG                         GTGAAGCATAAGATTGGAGTAGAAGAAATTGGGAATCTTGTCTTGCAGGCA
genomic: AGCGGGATGCTCTGCGGATGAGAGATGGAGGGCCATTTGTCTTTGCACAGgttagttaag ... gtatgtgcagGTGAAGCATAAGATTGGAGTAGAAGAAATTGGGAATCTTGTCTTGCAGGCA
EST: gi|193553488|gb|FK510027.1|FK510027
EST:     AGCGGGATGCTCTGCGGATGAGAGATGGAGGGCCATTTGTCTTTGCACAG                         GTGAAGCATAAG
genomic: AGCGGGATGCTCTGCGGATGAGAGATGGAGGGCCATTTGTCTTTGCACAGgttagttaag ... gtatgtgcagGTGAAGCATAAG
EST: gi|193525739|gb|FK481146.1|FK481146
EST:     CCATTTGTCTTTGCACAG                         GTGAAGCATAAGATTGGAGTAGAAGAAATTGGGAATCTTGTCTTGCAGGCA
genomic: CCATTTGTCTTTGCACAGgttagttaag ... gtatgtgcagGTGAAGCATAAGATTGGAGTAGAAGAAATTGGGAATCTTGTCTTGCAGGCA
EST: gi|15287542|gb|BI471433.1|BI471433
EST:     AGCGGGATGCTCTGCGGATGAGAGATGGAGGGCCATTTGTCTTTGCACAG                         GTGAAGCATAAGATTGGAGTAGAAGAAATTGGGAATCTTGTCTTGCAGGCA
genomic: AGCGGGATGCTCTGCGGATGAGAGATGGAGGGCCATTTGTCTTTGCACAGgttagttaag ... gtatgtgcagGTGAAGCATAAGATTGGAGTAGAAGAAATTGGGAATCTTGTCTTGCAGGCA
EST: gi|193519544|gb|FK473615.1|FK473615
EST:     AGCGGGATGCTCTGCGGATGAGAGATGGAGGGCCATTTGTCTTTGCACAG                         GTGAAGCATAAGATTGGAGTAGAAGAAATTGGGAATCTTGTCTTGCAGGCA
genomic: AGCGGGATGCTCTGCGGATGAGAGATGGAGGGCCATTTGTCTTTGCACAGgttagttaag ... gtatgtgcagGTGAAGCATAAGATTGGAGTAGAAGAAATTGGGAATCTTGTCTTGCAGGCA
EST: gi|209703998|gb|BW667960.1|BW667960
EST:     AGCGGGATGCTCTGCGGATGAGAGATGGAGGGCCATTTGTCTTTGCACAG                         GTGAAGCATAAGATTGGAGTAGAAGAAATTGGGAATCTTGTCTTGCAGGCA
genomic: AGCGGGATGCTCTGCGGATGAGAGATGGAGGGCCATTTGTCTTTGCACAGgttagttaag ... gtatgtgcagGTGAAGCATAAGATTGGAGTAGAAGAAATTGGGAATCTTGTCTTGCAGGCA
EST: gi|31462779|gb|CD404807.1|CD404807
EST:     AGCGGGATGCTCTGCGGATGAGAGATGGAGGGCCATTTGTCTTTGCACAG                         GTGAAGCATAAGATTGGAGTAGAAGAAATTGCCCCTCTTGTCTTGCAGGCA
genomic: AGCGGGATGCTCTGCGGATGAGAGATGGAGGGCCATTTGTCTTTGCACAGgttagttaag ... gtatgtgcagGTGAAGCATAAGATTGGAGTAGAAGAAATTGGGAATCTTGTCTTGCAGGCA
EST: gi|10256481|gb|BE824247.1|BE824247
EST:     AGCGGGATGCTCTGCGGATGAGAGATGGAGGGCCATTTGTCTTTGCACAG                         GTGAAGCATAAGATTGGAGTAGAAGAAATTGGGAATCTTGTCTTGCAGGCA
genomic: AGCGGGATGCTCTGCGGATGAGAGATGGAGGGCCATTTGTCTTTGCACAGgttagttaag ... gtatgtgcagGTGAAGCATAAGATTGGAGTAGAAGAAATTGGGAATCTTGTCTTGCAGGCA
EST: gi|193531102|gb|FK487917.1|FK487917
EST:     TGTCTTTGCACAG                         GTGAAGCATAAGATTGGAGTAGAAGAAAATTGGGAATCTTGTCTTGCAGGC
genomic: TGTCTTTGCACAGgttagttaag ... gtatgtgcagGTGAAGCATAAGATTGGAGTAGAAG-AAATTGGGAATCTTGTCTTGCAGGC
EST: gi|193314119|gb|FK281754.1|FK281754
EST:     TGCTCTGCGGTATGAGAGATGGAGGGCCATTTGTCTTTGCACAG                         GTGAAGCATAAGATTGGAGTAGAAGAAATTGGGAATCTTGTCTTGCAGGCA
genomic: TGCTCTGCGG-ATGAGAGATGGAGGGCCATTTGTCTTTGCACAGgttagttaag ... gtatgtgcagGTGAAGCATAAGATTGGAGTAGAAGAAATTGGGAATCTTGTCTTGCAGGCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAACAAGACTGACCTTGCTCCTGCAATTGGGGCTGATTTGGCAGTCATGCAGCGGGATGCTCTGCGGATGAGAGATGGAGGGCCATTTGTCTTTGCACAGgttagttaagtacattatttgtcggcttagtagtttttaaattttaaattgctgcctaattctcttaatgccatgcccattggtatatccaagtttcagc

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG