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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tctctgctggtttctggataaaaaaattattcatgcttaagtcattggtcaagatccacattcttcttctgctaactctgcatcttcttcaataatgcagCTGCCAGAGCCTTTCGGATTCATTTTCACATGGTTTGCTGCTTTGCCCCTAATATTGTTCTTAGCGCAGTCATTGACTAAGGCTATAGTCCAGGATTTTT

Basic information

species Zea mays
transcript GRMZM5G896082_T01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G896082_T03 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os03g64020.2 (Oryza sativa), 3'ss of exon 5
tctctgctggtttctggataaaaaaattattcatgcttaagtcattggtcaagatccacattcttcttctgctaactctgca-tcttcttcaataa-tgcagCTGCCAGAGCCTTTCGGATTCATTTTCACATGGTTTGCTGCTTTGCCCCTAATATTGTTCTTAGCGCAGTCATTGACTAAGGCTATAGTCCAGGATTTTT
  |    |  |||     |     ||||| | ||  |  | | | |  |  |    ||  || |||  |     |||| | | ||||  | || || |||||||||||||||||||||| ||||||||||||||||||||||||||||| |||||||||||| |||| |||||  | ||||| || |||||  | || || |
-gtaaattctttttcctttcttccaattaattat--tcgactgactatttga----catgtttttcccc-----actcggtaatctttatgaacaaatgcagCTGCCAGAGCCTTTCGGTTTCATTTTCACATGGTTTGCTGCTTTGCCTCTAATATTGTTCATAGCACAGTCGATAACTAATGCCATAGTGAACGACTTCT

upper sequence: GRMZM5G896082_T03 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA05G03730.1 (Glycine max), 3'ss of exon 7
tctctgctggtttctggataaaaaaattattcatgcttaagtcattggtcaagatccacattcttcttctgctaactctgcatcttcttcaat----aatgcagCTGCCAGAGCCTTTCGGATTCATTTTCACATGGTTTGCTGCTTTGCCCCTAATATTGTTCTTAGCGCAGTCATTGACTAAGGCTATAGTCCAGGATTTTT
  ||| |   |  |     ||  ||||  ||    |||||  ||||    || ||    |   ||  |    | |      || || |  | |    | |||||||||| ||||||||  | ||||||||||| |||||||||||| | ||||| ||  |||   |||| | |||| | || || || || ||  | || ||| 
attcttcacatcacatagaaatgaaatagttt---cttaaa-cattaaagaatattattacaattaatgcaattataacagatgttatgaattgttgagtgcagCTGCCGGAGCCTTTTAGTTTCATTTTCACTTGGTTTGCTGCTGTTCCCCTCATTGTGTGGATAGCTCTGTCACTAACAAATGCCATTGTAAAAGACTTTG

upper sequence: GRMZM5G896082_T03 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA17G14240.1 (Glycine max), 3'ss of exon 7
tctctgctggtttctggataaaaaaattattcatgcttaagtcattggtcaagatccacattcttcttctgctaactctgcatcttcttcaat----aatgcagCTGCCAGAGCCTTTCGGATTCATTTTCACATGGTTTGCTGCTTTGCCCCTAATATTGTTCTTAGCGCAGTCATTGACTAAGGCTATAGTCCAGGATTTTT
  ||| |   |  |     ||  ||||  ||      | || |||| |  || ||    |   ||  |    | |      || || |  | |    | |||||||||| ||||||||  | ||||||||||| |||||||||||| | ||||| ||  |||   |||| | |||| |||| || || || ||  | || ||| 
attcttcacatcacatagaaatgaaatagttt----cttagacattagaaaatattattacaattaatgcaattataacagatgttatgaattgttgagtgcagCTGCCGGAGCCTTTTAGTTTCATTTTCACTTGGTTTGCTGCTGTTCCCCTCATTGTGTGGATAGCTCTGTCACTGACAAATGCCATTGTAAAAGACTTTG

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|32849671|gb|CD989352.1|CD989352
EST:     GTTCTTTTTCATTGATGAATTGACTGGTTTTGAGATCAATGTATTCCAG                         CTGCCAGAGCCTTTCGGATTCATTTTCACATGGTTTGCTGCTTTGCCCCTA
genomic: GTTCTTTTTCATTGATGAATTGACTGGTTTTGAGATCAATGTGTTCCAGgtcagtgtct ... aataatgcagCTGCCAGAGCCTTTCGGATTCATTTTCACATGGTTTGCTGCTTTGCCCCTA
EST: gi|71325794|gb|DR799576.1|DR799576
EST:     GTTCTTTTTCATTGATGAATTGACTGGTTTTGAGATCAATGTGTTCCAG                         CTGCCAGAGCCTTTCGGATTCATTTTCACATGGTTTGCTGC
genomic: GTTCTTTTTCATTGATGAATTGACTGGTTTTGAGATCAATGTGTTCCAGgtcagtgtct ... aataatgcagCTGCCAGAGCCTTTCGGATTCATTTTCACATGGTTTGCTGC
EST: gi|148959398|gb|EC905432.2|EC905432
EST:     GTTCTTTTTCATTGATGAATTGACTGGTTTTGAGATCAATGTGTTCCAG                         CTGCCAAAGCCTTTCGGATTCATTTTCACATGGTTGGCTG
genomic: GTTCTTTTTCATTGATGAATTGACTGGTTTTGAGATCAATGTGTTCCAGgtcagtgtct ... aataatgcagCTGCCAGAGCCTTTCGGATTCATTTTCACATGGTTTGCTG
EST: gi|78092904|gb|DV521278.1|DV521278
EST:     GTTCTTTTTCATTGATGAATTGACTGGTTTTGAGATCAATGTGTTCCAG                         CTGCCAGAGCCTTTCGGATTCATTTTCACATGGTTTGCTGCTTTGCCCCTA
genomic: GTTCTTTTTCATTGATGAATTGACTGGTTTTGAGATCAATGTGTTCCAGgtcagtgtct ... aataatgcagCTGCCAGAGCCTTTCGGATTCATTTTCACATGGTTTGCTGCTTTGCCCCTA
EST: gi|71449206|gb|DR830256.1|DR830256
EST:     GTTCTTTTTCATTGATGAATTGACTGGTTTTGAGATCAATGTGTTCCAG                         CTGCCAGAGCCTTTCGGATTCATTTTCACATGGTTTGCTGCTTTGCCCCTA
genomic: GTTCTTTTTCATTGATGAATTGACTGGTTTTGAGATCAATGTGTTCCAGgtcagtgtct ... aataatgcagCTGCCAGAGCCTTTCGGATTCATTTTCACATGGTTTGCTGCTTTGCCCCTA
EST: gi|78092903|gb|DV521277.1|DV521277
EST:     TTCATTGATGAATTGACTGGTTTTGAGATCAATGTGTTCCAG                         CTGCCAGAGCCTTTCGGATTCATTTTCACATGGTTTGCTGCTTTGCCCCTA
genomic: TTCATTGATGAATTGACTGGTTTTGAGATCAATGTGTTCCAGgtcagtgtct ... aataatgcagCTGCCAGAGCCTTTCGGATTCATTTTCACATGGTTTGCTGCTTTGCCCCTA
EST: gi|74239749|gb|DT647663.1|DT647663
EST:     GTTCTTTTTCATTGATGAATTGACTGGTTTTGAGATCAATGTGTTCCAG                         CTGCCAGAGCCTTTCGGATTCATTTTCACATGGTTTGCTGCTTTGCCCCTA
genomic: GTTCTTTTTCATTGATGAATTGACTGGTTTTGAGATCAATGTGTTCCAGgtcagtgtct ... aataatgcagCTGCCAGAGCCTTTCGGATTCATTTTCACATGGTTTGCTGCTTTGCCCCTA
EST: gi|93014353|gb|EB639873.1|EB639873
EST:     GTTCTTTTTCATTGATGAATTGACTGGTTTTGAGATCAATGTGTTCCAG                         CTGCCAGAGCCTTTCGGATTCATTTTCACATGGTTTGCTGCTTTGCCCCTA
genomic: GTTCTTTTTCATTGATGAATTGACTGGTTTTGAGATCAATGTGTTCCAGgtcagtgtct ... aataatgcagCTGCCAGAGCCTTTCGGATTCATTTTCACATGGTTTGCTGCTTTGCCCCTA
EST: gi|71773101|gb|DR971019.1|DR971019
EST:     GTTCTTTTTCATTGATGAATTGACTGGTTTTGAGATCAATGTGTTCCAG                         CTGCCAGAGCCTTTCGGATTCATTTTCACATGGTTTGCTGCTTTGCCCCTA
genomic: GTTCTTTTTCATTGATGAATTGACTGGTTTTGAGATCAATGTGTTCCAGgtcagtgtct ... aataatgcagCTGCCAGAGCCTTTCGGATTCATTTTCACATGGTTTGCTGCTTTGCCCCTA
EST: gi|149097127|gb|EE182939.2|EE182939
EST:     GTTCTTTTTCATTGATGAATTGACTGGTTTTGAGATCAATGTGTTCCAG                         CTGCCAGAGCCTTTCGGATTCATTTTCACATGGTTTGCTGCTTTTGCCCCT
genomic: GTTCTTTTTCATTGATGAATTGACTGGTTTTGAGATCAATGTGTTCCAGgtcagtgtct ... aataatgcagCTGCCAGAGCCTTTCGGATTCATTTTCACATGGTTTGCTGCTTT-GCCCCT
EST: gi|13316197|gb|BG410644.1|BG410644
EST:     GTTCTTTTTCATTGATGAATTGACTGGTTTTGAGATCAATGTGTTCCAG                         CTGCCAGAGCCTTTCGGATTCATTTTCACATGGTTTGCTGCTTTGCCCCTA
genomic: GTTCTTTTTCATTGATGAATTGACTGGTTTTGAGATCAATGTGTTCCAGgtcagtgtct ... aataatgcagCTGCCAGAGCCTTTCGGATTCATTTTCACATGGTTTGCTGCTTTGCCCCTA
EST: gi|149058763|gb|EE156781.2|EE156781
EST:     GTTCTTTTTCATTGATGAATTGACTGGTTTTGAGATCAATGTGTTCCAG                         CTGCCAGAGCCTTTCGGATTCATTTTCACATGGTTTGCTG
genomic: GTTCTTTTTCATTGATGAATTGACTGGTTTTGAGATCAATGTGTTCCAGgtcagtgtct ... aataatgcagCTGCCAGAGCCTTTCGGATTCATTTTCACATGGTTTGCTG
EST: gi|71322554|gb|DR797954.1|DR797954
EST:     GTTCTTTTTCATTGATGAATTGACTGGTTTTGAGATCAATGTGTTCCAG                         CTGCCAGAGCCTTTCGGATTCATTTTCACATGGTTTGCTGCTTTGCCCTCT
genomic: GTTCTTTTTCATTGATGAATTGACTGGTTTTGAGATCAATGTGTTCCAGgtcagtgtct ... aataatgcagCTGCCAGAGCCTTTCGGATTCATTTTCACATGGTTTGCTGCTTTGCCC-CT
EST: gi|71775245|gb|DR973123.1|DR973123
EST:     GTTCTTTTTCATTGATGAATTGACTGGTTTTGAGATCAATGTGTTCCAG                         CTGCCAGAGCCTTTCGGAATCATTTTCACATGGTTTGCTGCTTTGCCC
genomic: GTTCTTTTTCATTGATGAATTGACTGGTTTTGAGATCAATGTGTTCCAGgtcagtgtct ... aataatgcagCTGCCAGAGCCTTTCGGATTCATTTTCACATGGTTTGCTGCTTTGCCC
EST: gi|71763483|gb|DR961420.1|DR961420
EST:     GTTCTTTTTCATTGATGAATTGACTGGTTTTGAGATCAATGTGTTCCAG                         CTGCCAGAGCCTTTCGGATTCATTTTCACATGGTTTGCTGCTTTGCCCCTA
genomic: GTTCTTTTTCATTGATGAATTGACTGGTTTTGAGATCAATGTGTTCCAGgtcagtgtct ... aataatgcagCTGCCAGAGCCTTTCGGATTCATTTTCACATGGTTTGCTGCTTTGCCCCTA
EST: gi|13516143|gb|BG518419.1|BG518419
EST:     GTTCTTTTTCATTGATGAATTGACTGGTTTTGAGATCAATGTGTTCCAG                         CTGCCAGAGCCTTTCGGATTCATTTTCACATGGTTTGCTGCTTTGCCCCTA
genomic: GTTCTTTTTCATTGATGAATTGACTGGTTTTGAGATCAATGTGTTCCAGgtcagtgtct ... aataatgcagCTGCCAGAGCCTTTCGGATTCATTTTCACATGGTTTGCTGCTTTGCCCCTA
EST: gi|149058762|gb|EE156780.2|EE156780
EST:     TCAAGGTGTTCCAG                         CTGCCCGGAG-CTTTCGGAATTCATTTTCACATGGTTTGCTGCTTTGCCCC
genomic: TCAATGTGTTCCAGgtcagtgtct ... aataatgcagCTG-CCAGAGCCTTTCGG-ATTCATTTTCACATGGTTTGCTGCTTTGCCCC
EST: gi|149011246|gb|EE042332.2|EE042332
EST:     GTTCTTTTTTCATTGATGAATTGACTGGTTTTGAGATCAATGTGTTCCAG                         CTGCCAGAGCCTTTCGGATTCATTTTCACATGGTTTGCTGC
genomic: GTTCTTTTT-CATTGATGAATTGACTGGTTTTGAGATCAATGTGTTCCAGgtcagtgtct ... aataatgcagCTGCCAGAGCCTTTCGGATTCATTTTCACATGGTTTGCTGC
EST: gi|78107802|gb|DV526220.1|DV526220
EST:     GTTCTTTTTCATTGATGAATTGACTGGTTTTGAGATCAATGTGTTCCAG                         CTGCCAGAGCCTTTCGGAATCATTTTCACATGTTTTGCTGCTTTGCCCCTA
genomic: GTTCTTTTTCATTGATGAATTGACTGGTTTTGAGATCAATGTGTTCCAGgtcagtgtct ... aataatgcagCTGCCAGAGCCTTTCGGATTCATTTTCACATGGTTTGCTGCTTTGCCCCTA
EST: gi|148949267|gb|EC894710.2|EC894710
EST:     GTTCTTTTTCATTGATGAATTGACTGGTTTTGAGATCAATGTGTTCCAG                         CTGCCAGAGCCTTTCGGATTCATTTTCACATGGTTTGCTGCTTTGCCCCTA
genomic: GTTCTTTTTCATTGATGAATTGACTGGTTTTGAGATCAATGTGTTCCAGgtcagtgtct ... aataatgcagCTGCCAGAGCCTTTCGGATTCATTTTCACATGGTTTGCTGCTTTGCCCCTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggtcaagatccacattcttcttctgctaactctgcatcttcttcaataatgcagCTGCCAGAGCCTTTCGGATTCATTTTCACATGGTTTGCTGCTTTGCCCCTAATATTGTTCTTAGCGCAGTCATTGACTAAGGCTATAGTCCAGGATTTTT
                        tgctaac  putative branch site (score: 1)
                                     tcttcttca  putative PPT
                                          ttcaataat  TA-rich tract