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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTCTAGGAGTTGAGAAGACCGCTTCTCAACAAGAAATAAAGAAGGCGTATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAGgtagtatctcaaccataaacatgaatgtttttctacaggcatttagtgcaaagtatctcaaatataatgttatatgttgctag

Basic information

species Zea mays
transcript GRMZM2G075485_T01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G075485_T02 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os02g10220.1 (Oryza sativa), 5'ss of exon 2
ATTCTAGGAGTTGAGAAGACCGCTTCTCAACAAGAAATAAAGAAGGCGTATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAGgtagtatctcaaccataaacatgaatgtttttctacaggcatttagtgcaaagtatctcaaatataatgttatatgttgctag
||  |||| ||||||| ||| ||||| || || |||||||||||||| |||||||| |||||  | || || || ||||| ||||||||||| |||||||||| ||||       |||         |||| | || | ||| ||||| |  | |||||| |    |||||| || ||  ||
ATCTTAGGGGTTGAGAGGACAGCTTCACAGCAGGAAATAAAGAAGGCTTATCACAAGTTGGCCTTACGTCTTCATCCAGACAAGAATCCTGGAGATGAGgtaggatcttgtttccaaa---------ttttttccatggattaagtgccatttgtctcaattgagctgttatgtgatgtcag

upper sequence: GRMZM2G075485_T02 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA19G32480.1 (Glycine max), 5'ss of exon 2
ATTCTAGGAGTTGAGAAGACCGCTTCTCAACAAGAAATAAAGAAGGCGTATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAGgtagtatctc----aaccataaacatgaatgtttttct-----acaggcatttagtgcaaagtatctcaaatataatgttatatgttgctag-----------
  ||| || || ||||  || || ||||| || |||||||||||||||||  |||| |||||  |||| || ||||| |||||||| ||||| ||||| |  ||   ||    | ||  | |    |   |||||       |||    || | ||| |  | | |    | |  |  ||   |                  
--TCTTGGCGTGGAGAGAACGGCGTCTCAGCAGGAAATAAAGAAGGCGTACTACAAGTTGGCGTTGCGGCTTCACCCCGATAAGAACCCTGGTGATGATGAGgtcattcttctagccgaatatgccatcattttttatattgacaaatgttaattgctagttttttttttttttttaataggagggatcgaatccgcaacct
















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|71757753|gb|DR955690.1|DR955690
EST:     ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAG                         GAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
genomic: ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAGgtagtatctc ... atgttgctagGAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
EST: gi|91870824|gb|EB401103.1|EB401103
EST:     ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAG                         GAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
genomic: ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAGgtagtatctc ... atgttgctagGAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
EST: gi|211337601|gb|FL103353.1|FL103353
EST:     ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAG                         GAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
genomic: ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAGgtagtatctc ... atgttgctagGAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
EST: gi|78116316|gb|DV534703.1|DV534703
EST:     ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAG                         GAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
genomic: ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAGgtagtatctc ... atgttgctagGAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
EST: gi|211337600|gb|FL103352.1|FL103352
EST:     ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAG                         GAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
genomic: ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAGgtagtatctc ... atgttgctagGAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
EST: gi|211339984|gb|FL103354.1|FL103354
EST:     ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAG                         GAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
genomic: ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAGgtagtatctc ... atgttgctagGAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
EST: gi|211342376|gb|FL103369.1|FL103369
EST:     ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAG                         GAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
genomic: ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAGgtagtatctc ... atgttgctagGAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
EST: gi|211339995|gb|FL103365.1|FL103365
EST:     ATCACAAATTGGCTCTGCGCCTCCACCCAGATNAGAATCCTGGGGATGAG                         GAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
genomic: ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAGgtagtatctc ... atgttgctagGAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
EST: gi|211337599|gb|FL103351.1|FL103351
EST:     ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAG                         GAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
genomic: ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAGgtagtatctc ... atgttgctagGAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
EST: gi|211339988|gb|FL103358.1|FL103358
EST:     ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAG                         GAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
genomic: ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAGgtagtatctc ... atgttgctagGAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
EST: gi|60341956|gb|DN208929.1|DN208929
EST:     ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAG                         GAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
genomic: ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAGgtagtatctc ... atgttgctagGAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
EST: gi|211339990|gb|FL103360.1|FL103360
EST:     ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAG                         GAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
genomic: ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAGgtagtatctc ... atgttgctagGAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
EST: gi|211342377|gb|FL103370.1|FL103370
EST:     ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAG                         GAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
genomic: ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAGgtagtatctc ... atgttgctagGAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
EST: gi|211339987|gb|FL103357.1|FL103357
EST:     TCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAAG                         GAAGCCAAAGAAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTG
genomic: TCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGA-Ggtagtatctc ... atgttgctagGAAGCCAAAGA-GAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTG
EST: gi|211339985|gb|FL103355.1|FL103355
EST:     ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAG                         GAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
genomic: ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAGgtagtatctc ... atgttgctagGAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
EST: gi|78074190|gb|DV502624.1|DV502624
EST:     ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAG                         GAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
genomic: ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAGgtagtatctc ... atgttgctagGAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
EST: gi|211337598|gb|FL103350.1|FL103350
EST:     ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAG                         GAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
genomic: ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAGgtagtatctc ... atgttgctagGAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
EST: gi|211339993|gb|FL103363.1|FL103363
EST:     ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAG                         GAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
genomic: ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAGgtagtatctc ... atgttgctagGAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
EST: gi|32909541|gb|CF014353.1|CF014353
EST:     ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAG                         GAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
genomic: ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAGgtagtatctc ... atgttgctagGAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
EST: gi|148958294|gb|EC904514.2|EC904514
EST:     ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAG                         GAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
genomic: ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAGgtagtatctc ... atgttgctagGAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
EST: gi|78117499|gb|DV535886.1|DV535886
EST:     ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAG                         GAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
genomic: ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAGgtagtatctc ... atgttgctagGAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
EST: gi|211337592|gb|FL103344.1|FL103344
EST:     ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAG                         GAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
genomic: ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAGgtagtatctc ... atgttgctagGAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
EST: gi|211342378|gb|FL103371.1|FL103371
EST:     ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAG                         GAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
genomic: ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAGgtagtatctc ... atgttgctagGAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
EST: gi|211339992|gb|FL103362.1|FL103362
EST:     ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAG                         GAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
genomic: ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAGgtagtatctc ... atgttgctagGAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
EST: gi|211337591|gb|FL103343.1|FL103343
EST:     ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAG                         GAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
genomic: ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAGgtagtatctc ... atgttgctagGAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
EST: gi|211339989|gb|FL103359.1|FL103359
EST:     ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAG                         GAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
genomic: ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAGgtagtatctc ... atgttgctagGAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
EST: gi|211337597|gb|FL103349.1|FL103349
EST:     ATCACAAATTGGCTCTGCGCCTCCACCCAGATNAGAATCCTGGGGATGAG                         GAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
genomic: ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAGgtagtatctc ... atgttgctagGAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
EST: gi|211339997|gb|FL103367.1|FL103367
EST:     ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAG                         GAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
genomic: ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAGgtagtatctc ... atgttgctagGAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
EST: gi|71772229|gb|DR970166.1|DR970166
EST:     ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAG                         GAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
genomic: ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAGgtagtatctc ... atgttgctagGAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
EST: gi|71435377|gb|DR816427.1|DR816427
EST:     ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAG                         GAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
genomic: ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAGgtagtatctc ... atgttgctagGAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
EST: gi|211025378|gb|FL421223.1|FL421223
EST:     ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAG                         GAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA
genomic: ATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAGgtagtatctc ... atgttgctagGAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGA

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 4 RNA-Seq libraries.


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 144

ATTCTAGGAGTTGAGAAGACCGCTTCTCAACAAGAAATAAAGAAGGCGTATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAGgtagtatctc ... atgttgctagGAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGAGATGTAGAGAAAAGAGCTTTATATGATGAGACTGGCATCACTGATGATG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 26

ATTCTAGGAGTTGAGAAGACCGCTTCTCAACAAGAAATAAAGAAGGCGTATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAGgtagtatctc ... atgttgctagGAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGAGATGTAGAGAAAAGAGCTTTATATGATGAGACTGGCATCACTGATGATG


Block sizes: 49 (upstream exon), 40 (downstream exon)
Score: 21

ATTCTAGGAGTTGAGAAGACCGCTTCTCAACAAGAAATAAAGAAGGCGTATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAGgtagtatctc ... atgttgctagGAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGAGATGTAGAGAAAAGAGCTTTATATGATGAGACTGGCATCACTGATGATG


Block sizes: 48 (upstream exon), 29 (downstream exon)
Score: 33

ATTCTAGGAGTTGAGAAGACCGCTTCTCAACAAGAAATAAAGAAGGCGTATCACAAATTGGCTCTGCGCCTCCACCCAGATAAGAATCCTGGGGATGAGgtagtatctc ... atgttgctagGAAGCCAAAGAGAAGTTTCAGCAGCTGCAGAAGGTTATATCCATTCTTGGAGATGTAGAGAAAAGAGCTTTATATGATGAGACTGGCATCACTGATGATG