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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttaacccactaaccttttagataaacatatagacactaactgtattccgtttgatggttattgcttctgttttacctcattggccattttccacagGTATGCCTCTGTTAGAGCAATTGAAACAAAATCTGCTGTGGATGATCAGCAATGGCTCACGTACTGGGTGCTGTACTCATTTATCACTCTATTCGAGCTC

Basic information

species Zea mays
transcript GRMZM2G130548_T02
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G130548_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os02g51290.2 (Oryza sativa), 3'ss of exon 2
gtaagttaacccactaaccttttagataaacatatagacactaactgtattccgtttgatggttattgcttctgttttacctcattggccattttccacagGTATGCCTCTGTTAGAGCAATTGAAACAAAATCTGCTGTGGATGATCAGCAATGGCTCACGTACTGGGTGCTGTACTCATTTATCACTCTATTCGAGCTC
||||||||  |||  |   | ||   ||   | ||| | ||  ||| | || | ||   | |||                || ||||| ||  ||  |||| ||||| |||||| |||| || ||||||||||||||||| |||||||||||||||||||| ||||||||| ||||||| |||||||||||||| ||||||
gtaagttactccagcactttcttttgtatgta-ataaatacatact-tcttgcattc--tagtt----------------ctgattggacaccttt-acagATATGCATCTGTTCGAGCGATAGAAACAAAATCTGCTGTAGATGATCAGCAATGGCTCACATACTGGGTGTTGTACTCGTTTATCACTCTATTTGAGCTC

upper sequence: GRMZM2G130548_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA04G33880.1 (Glycine max), 3'ss of exon 2
--------gtaagttaacccactaaccttttagataaacatatagacactaactgtattccgtttgatggttattgcttctgttttacctcattggccattttccacagGTATGCCTCTGTTAGAGCAATTGAAACAAAATCTGCTGTGGATGATCAGCAATGGCTCACGTACTGGGTGCTGTACTCATTTATCACTCTATTCGAGCTC
         | | ||  |    |    || |   | ||  ||| |      | || ||   | |||||  | || | || || |||   | | |     ||     ||| |||||||| ||||| |||||||| |  || ||| |||| ||||| |||||||||||||| || ||||| || ||||| || ||||| || || || || 
tgtttgtttttattttgctggttcttgttatgtgttaagctattgttggagaatgaata--gattgat--tcatggtttgtgatttctttgaataatgctt-----cagATATGCCTCGGTTAGGGCAATTGAGAGCAAGTCTCCTGTTGATGACCAGCAATGGCTCACTTATTGGGTTCTCTACTCCTTGATCACCCTCTTTGAACTT

upper sequence: GRMZM2G130548_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv17s0000g05990.t01 (Vitis vinifera), 3'ss of exon 2
gtaagttaacccactaaccttttagataaacatatagacactaactgtattccgtttgatgg-ttattgcttctgttttacctcattggccattttccacagGTATGCCTCTGTTAGAGCAATTGAAACAAAATCTGCTGTGGATGATCAGCAATGGCTCACGTACTGGGTGCTGTACTCATTTATCACTCTATTCGAGCTC
  | ||     |  |||  | |    | ||  | |      ||  | | |        || | ||    ||| ||||||       |||   | ||  |||| ||||||||  |||| |||||||| || || ||  |||| |||||||||||||||||||| ||||||||  |||| ||  | ||||| || |||||||||
-catgtatgttctataatatgtggtttgaatgtttgtgttttagttttctgagagaaaattgcttgaaacttttgttttggtgggctggtt-tctttgacagATATGCCTCAATTAGGGCAATTGAGACCAAGTCCCCTGTTGATGATCAGCAATGGCTCACATACTGGGTTTTGTATTCTATGATCACACTCTTCGAGCTC

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|211067671|gb|FL012971.1|FL012971
EST:     GCCTTTGGTTTCACTTGCGTATCCTCT                         GTATGCCTCTGTTAGAGCAATTGAAACAAAATCTGCTGTGGATGATCAGCA
genomic: GCCTTTGGTTTCACTTGCGTATCCTCTgtaagttaac ... ttttccacagGTATGCCTCTGTTAGAGCAATTGAAACAAAATCTGCTGTGGATGATCAGCA
EST: gi|211067676|gb|FL012976.1|FL012976
EST:     GCCTTTGGTTTCACTTGCGTATCCTCT                         GTATGCCTCTGTTAGAGCAATTGAAACAAAATCTGCTGTGGATGATCAGCA
genomic: GCCTTTGGTTTCACTTGCGTATCCTCTgtaagttaac ... ttttccacagGTATGCCTCTGTTAGAGCAATTGAAACAAAATCTGCTGTGGATGATCAGCA
EST: gi|211070406|gb|FL012981.1|FL012981
EST:     GCCTTTGGTTTCACTTGCGTATCCTCT                         GTATGCCTCTGTTAGAGCAATTGAAACAAAATCTGCTGTGGATGATCAGCA
genomic: GCCTTTGGTTTCACTTGCGTATCCTCTgtaagttaac ... ttttccacagGTATGCCTCTGTTAGAGCAATTGAAACAAAATCTGCTGTGGATGATCAGCA
EST: gi|211067666|gb|FL012966.1|FL012966
EST:     GCCTTTGGTTTCACTTGCGTATCCTCT                         GTATGCCTCTGTTAGAGCAATTGAAACAAAATCTGCTGTGGATGATCAGCA
genomic: GCCTTTGGTTTCACTTGCGTATCCTCTgtaagttaac ... ttttccacagGTATGCCTCTGTTAGAGCAATTGAAACAAAATCTGCTGTGGATGATCAGCA
EST: gi|211383033|gb|FK976891.1|FK976891
EST:     GCCTTTGGTTTCACTT-CGTATCCTCT                         GTATGCCTCTGTTAGAGCAATTGAAACAAAATCTGCTGTGGATGATCAGCA
genomic: GCCTTTGGTTTCACTTGCGTATCCTCTgtaagttaac ... ttttccacagGTATGCCTCTGTTAGAGCAATTGAAACAAAATCTGCTGTGGATGATCAGCA
EST: gi|211070407|gb|FL012982.1|FL012982
EST:     GCCTTTGGTTTCACTTGCGTATCCTCT                         GTATGCCTCTGTTAGAGCAATTGAAACAAAATCTGCTGTGGATGATCAGCA
genomic: GCCTTTGGTTTCACTTGCGTATCCTCTgtaagttaac ... ttttccacagGTATGCCTCTGTTAGAGCAATTGAAACAAAATCTGCTGTGGATGATCAGCA
EST: gi|211067664|gb|FL012964.1|FL012964
EST:     GCCTTTGGTTTCACTTGCGTATCCTCT                         GTATGCCTCTGTTAGAGCAATTGAAACAAAATCTGCTGTGGATGATCAGCA
genomic: GCCTTTGGTTTCACTTGCGTATCCTCTgtaagttaac ... ttttccacagGTATGCCTCTGTTAGAGCAATTGAAACAAAATCTGCTGTGGATGATCAGCA
EST: gi|211070409|gb|FL012984.1|FL012984
EST:     GCCTTTGGTTTCACTTGCGTATCCTCT                         GTATGCCTCTGTTAGAGCAATTGAAACAAAATCTGCTGTGGATGATCAGCA
genomic: GCCTTTGGTTTCACTTGCGTATCCTCTgtaagttaac ... ttttccacagGTATGCCTCTGTTAGAGCAATTGAAACAAAATCTGCTGTGGATGATCAGCA
EST: gi|211070408|gb|FL012983.1|FL012983
EST:     GCCTTTGGTTTCACTTGCGTATCCTCT                         GTATGCCTCTGTTAGAGCAATTGAAACAAAATCTGCTGTGGATGATCAGCA
genomic: GCCTTTGGTTTCACTTGCGTATCCTCTgtaagttaac ... ttttccacagGTATGCCTCTGTTAGAGCAATTGAAACAAAATCTGCTGTGGATGATCAGCA
EST: gi|211070404|gb|FL012979.1|FL012979
EST:     GCCTTTGGTTTCACTTGCGTATCCTCT                         GTATGCCTCTGTTAGAGCAATTGAAACAAAATCTGCTGTGGATGATCAGCA
genomic: GCCTTTGGTTTCACTTGCGTATCCTCTgtaagttaac ... ttttccacagGTATGCCTCTGTTAGAGCAATTGAAACAAAATCTGCTGTGGATGATCAGCA
EST: gi|211067670|gb|FL012970.1|FL012970
EST:     GCCTTTGGTTTCACTTGCGTATCCTCT                         GTATGCCTCTGTTAGAGCAATTGAAACAAAATCTGCTGTGGATGATCAGCA
genomic: GCCTTTGGTTTCACTTGCGTATCCTCTgtaagttaac ... ttttccacagGTATGCCTCTGTTAGAGCAATTGAAACAAAATCTGCTGTGGATGATCAGCA
EST: gi|211070403|gb|FL012978.1|FL012978
EST:     GCCTTTGGTTTCACTTGCGTATCCTCT                         GTATGCCTCTGTTAGAGCAATTGAAACAAAATCTGCTGTGGATGATCAGCA
genomic: GCCTTTGGTTTCACTTGCGTATCCTCTgtaagttaac ... ttttccacagGTATGCCTCTGTTAGAGCAATTGAAACAAAATCTGCTGTGGATGATCAGCA
EST: gi|211067663|gb|FL012963.1|FL012963
EST:     GCCTTTGGTTTCACTTGCGTATCCTCT                         GTATGCCTCTGTTAGAGCAATTGAAACAAAATCTGCTGTGGATGATCAGCA
genomic: GCCTTTGGTTTCACTTGCGTATCCTCTgtaagttaac ... ttttccacagGTATGCCTCTGTTAGAGCAATTGAAACAAAATCTGCTGTGGATGATCAGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtattccgtttgatggttattgcttctgttttacctcattggccattttccacagGTATGCCTCTGTTAGAGCAATTGAAACAAAATCTGCTGTGGATGATCAGCAATGGCTCACGTACTGGGTGCTGTACTCATTTATCACTCTATTCGAGCTC
       gtttgat  putative branch site (score: 5)
                                          ccattttcc  putative PPT
                          tgtttta  TA-rich tract