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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtttactcattaccctaactctgattttttttcttctaccaagattatcagtagacaattatttaccggctcatgaatgtttcaatttcttccaagcagATGTAGCAACTCACAGTCAGGAGACCTGACAAAGGCAGATAGGGCAGTTGATGGAATTTTTGGGTTCGGACAGCATCAACTGTCTGTAATTTCGCAACTT

Basic information

species Zea mays
transcript GRMZM2G133029_T01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G133029_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os01g56930.2 (Oryza sativa), 3'ss of exon 3
---------tgtttactcattaccctaactctgattttttttcttctaccaagattatcagtagacaattatttaccggctcatgaatgtttcaatttcttccaagcagATGTAGCAACTCACAGTCAGGAGACCTGACAAAGGCAGATAGGGCAGTTGATGGAATTTTTGGGTTCGGACAGCATCAACTGTCTGTAATTTCGCAACTT
         | | |  |||||||||||||  |||  ||| ||  |   |    || |||||||     ||||| |  | || |||||| | | ||||  ||  || |||||||||||||||||||||||||||| |||||||| |||| |||||||||||||| ||||||||||| ||||||||||| ||||||||  | || ||||| 
gtgcatttttttattttcattaccctaacagtgaactttgttgcttcgc----atgatcagta-----ttattcattgtctgatgaatatgttaattcttttgaaacagATGTAGCAACTCACAGTCAGGAGACTTGACAAAGACAGACAGGGCAGTTGATGGGATTTTTGGGTTTGGACAGCATCAGCTGTCTGTTGTCTCACAACTG

upper sequence: GRMZM2G133029_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA10G07270.1 (Glycine max), 3'ss of exon 3
tgtttact-cat-taccctaactctgattttttttcttctaccaagattatcagtagacaattatttaccggctcatgaatgtttcaatttcttccaagcagATGTAGCAACTCACAGTCAGGAGACCTGACAAAGGCAGATAGGGCAGTTGATGGAATTTTTGGGTTCGGACAGCATCAACTGTCTGTAATTTCGCAACTT
 |||| || ||| |||||| |   | || ||  |  |  ||  | || | |    |      | || |  |   |     ||  | | | | ||  || ||| |||||||     ||||| |||||  |||| ||| |||||| |||||||||||||||||||||||| || |     |  || |||||  | || ||| | 
agttttctgcatataccctcatgtttatgttaatagt--tagtatgaatttttccattttggttttaaatgagactgttttggatgactgtattggaaacagGTGTAGCATTAGTCAGTCTGGAGATTTGACTAAGACAGATAAGGCAGTTGATGGAATTTTTGGGTTTGGCCCTGGACCTCTATCTGTTGTATCACAATTG

upper sequence: GRMZM2G133029_T01 (Zea mays), 3'ss of exon 3
lower sequence: Vv06s0061g01030.t01 (Vitis vinifera), 3'ss of exon 3
-tgtttactcattaccct-----aactctgattttttttcttctaccaagattatcagtagacaattatttaccggctcatgaatgtttcaattt----------cttccaagcagATGTAGCAACTCACAGTCAGGAGACCTGACAAAGGCAGATAGGGCAGTTGATGGAATTTTTGGGTTCGGACAGCATCAACTGTCTGTAATTTCGCAACTT
 ||      ||| |  ||     | ||||||   |||   |   |   |  ||||   | | |  ||  |   |   |   |||    |  ||||           |   |  ||| ||||||| ||||||| | || ||| |||||||| ||||  ||||||||||||| ||||||||||| || || ||  |  ||||||| || || ||| | 
gtgagctaccatgaatctgtcaaacctctgagagtttagatggcagttatgttattt-tggccttttgctcttcttgtttggaactcattgatttgggtgatgggttatgagacagGTGTAGCATCTCACAGACTGGGGACTTGACAAAGTCAGACCGGGCAGTTGATGGGATTTTTGGGTTTGGTCAACAGGATATGTCTGTTATCTCACAAATG

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|32928121|gb|CF032933.1|CF032933
EST:     GTCATGGGAAACGAGCAGACCGCCAATTCGTCTGCCTCTATTGTTTTCGG                         ATGTAGCAACTCACAGTCAGGAGACCTGACAAAGGCAGATAGGGCAGTTGA
genomic: GTCATGGGAAACGAGCAGACCGCCAATTCGTCTGCCTCTATTGTTTTCGGgtacagtttc ... ttccaagcagATGTAGCAACTCACAGTCAGGAGACCTGACAAAGGCAGATAGGGCAGTTGA
EST: gi|149087990|gb|EE177209.2|EE177209
EST:     GTCATGGGAAACGAGCAGACCGCCAATTCGTCTGCCTCTATTGTTTTCGG                         ATGTAGCAACTCACAGTCAGGAGACCTGACAAAGGCAGATAGGGCAGTTGA
genomic: GTCATGGGAAACGAGCAGACCGCCAATTCGTCTGCCTCTATTGTTTTCGGgtacagtttc ... ttccaagcagATGTAGCAACTCACAGTCAGGAGACCTGACAAAGGCAGATAGGGCAGTTGA
EST: gi|19058043|gb|BM736710.1|BM736710
EST:     GTCATGGGAAACGAGCAGACCGCCAATTCGTCTGCCTCTATTGGTTTCGG                         ATGTAGCAACTCACAGTCAGGAGACCTGACAAAGGCAGATAGGGCAGTTGA
genomic: GTCATGGGAAACGAGCAGACCGCCAATTCGTCTGCCTCTATTGTTTTCGGgtacagtttc ... ttccaagcagATGTAGCAACTCACAGTCAGGAGACCTGACAAAGGCAGATAGGGCAGTTGA
EST: gi|87153408|gb|DY398197.1|DY398197
EST:     GTCATGGGAAACGAGCAGACCGCCAATTCGTCTGCCTCTATTGTTTTCGG                         ATGTAGCAACTCACAGTCAGGAGACCTGACAAAGGCAGATAGGGCAGTTGA
genomic: GTCATGGGAAACGAGCAGACCGCCAATTCGTCTGCCTCTATTGTTTTCGGgtacagtttc ... ttccaagcagATGTAGCAACTCACAGTCAGGAGACCTGACAAAGGCAGATAGGGCAGTTGA
EST: gi|74234970|gb|DT642884.1|DT642884
EST:     GTCATGGGAAACGAGCAGACCGCCAATTCGTCTGCCTCTATTGTTTTCGG                         ATGTAGCAACTCACAGTCAGGAGACCTGACAAAGGCAGATAGGGCAGTTGA
genomic: GTCATGGGAAACGAGCAGACCGCCAATTCGTCTGCCTCTATTGTTTTCGGgtacagtttc ... ttccaagcagATGTAGCAACTCACAGTCAGGAGACCTGACAAAGGCAGATAGGGCAGTTGA
EST: gi|19436559|gb|BM952969.1|BM952969
EST:     GTCATGGGAAACGAGCAGACCGCCAATTCGTCTGCCTCTATNGTTTTCGG                         ATGTAGCAACTCACAGTCAGGAGACCTGACAAAGGCAGATAGGGCAGTTGA
genomic: GTCATGGGAAACGAGCAGACCGCCAATTCGTCTGCCTCTATTGTTTTCGGgtacagtttc ... ttccaagcagATGTAGCAACTCACAGTCAGGAGACCTGACAAAGGCAGATAGGGCAGTTGA
EST: gi|149096290|gb|EE182005.2|EE182005
EST:     GTCATGGGAAACGAGCAGACCGCCAATTCGTCTGCCTCTATTGTTTTCGG                         ATGTAGCAACTCACAGTCAGGAGACCTGACAAAGGCAGATAGGGCAGTTGA
genomic: GTCATGGGAAACGAGCAGACCGCCAATTCGTCTGCCTCTATTGTTTTCGGgtacagtttc ... ttccaagcagATGTAGCAACTCACAGTCAGGAGACCTGACAAAGGCAGATAGGGCAGTTGA
EST: gi|22491523|gb|BU051446.1|BU051446
EST:     GTCATGGGAAACGAGCAGACCGCCAATTCGTCTGCCTCTATTGTTTTCGG                         ATGTAGCAACTCACAGTCAGGAGACCTGACAAAGGCAGATAGGGCAGTTGA
genomic: GTCATGGGAAACGAGCAGACCGCCAATTCGTCTGCCTCTATTGTTTTCGGgtacagtttc ... ttccaagcagATGTAGCAACTCACAGTCAGGAGACCTGACAAAGGCAGATAGGGCAGTTGA
EST: gi|148983003|gb|EE028898.2|EE028898
EST:     GTCATGGGAAACGAGCAGACCGCCAATTCGTCTGCCTCTATTGTTTTCGG                         ATGTAGCAACTCACAGTCAGGGAGACCTGACAAAGGCAGATAGGGCAGTTG
genomic: GTCATGGGAAACGAGCAGACCGCCAATTCGTCTGCCTCTATTGTTTTCGGgtacagtttc ... ttccaagcagATGTAGCAACTCACAGTCAGG-AGACCTGACAAAGGCAGATAGGGCAGTTG
EST: gi|149044646|gb|EE047618.2|EE047618
EST:     GTCATGGGAAACGAGCAGACCGCCAATTCGTCTGCCTCTATTGTTTTCGG                         ATGTAGCAACTCACAGTCAGGAGACCTGACAAAGGCAGATAGGGCAGTTGA
genomic: GTCATGGGAAACGAGCAGACCGCCAATTCGTCTGCCTCTATTGTTTTCGGgtacagtttc ... ttccaagcagATGTAGCAACTCACAGTCAGGAGACCTGACAAAGGCAGATAGGGCAGTTGA
EST: gi|148940293|gb|EC885075.2|EC885075
EST:     GTCATGGGAAACGAGCAGACCGCCAATTCGTCTGCCTCTATTGTTTTCGG                         ATGTAGCAACTCACAGTCAGGAGACCTGACAAAGGCAGATAGGGCAGTTGA
genomic: GTCATGGGAAACGAGCAGACCGCCAATTCGTCTGCCTCTATTGTTTTCGGgtacagtttc ... ttccaagcagATGTAGCAACTCACAGTCAGGAGACCTGACAAAGGCAGATAGGGCAGTTGA
EST: gi|60339993|gb|DN206966.1|DN206966
EST:     GTCATGGGAAACGAGCAGACCGCCAATTCGTCTGCCTCTATTGTTTTCGG                         ATGTAGCAACTCACAGTCAGGAGACCTGACAAAGGCAGATAGGGCAGTTGA
genomic: GTCATGGGAAACGAGCAGACCGCCAATTCGTCTGCCTCTATTGTTTTCGGgtacagtttc ... ttccaagcagATGTAGCAACTCACAGTCAGGAGACCTGACAAAGGCAGATAGGGCAGTTGA
EST: gi|19436231|gb|BM952641.1|BM952641
EST:     GTCATGGGAAACGAGCAGACCGCCAATTCGTCTGCCTCTATTGTTTTCGG                         ATGTAGCAACTCACAGTCAGGAGACCTGACAAAGGCAGATAGGGCAGTTGA
genomic: GTCATGGGAAACGAGCAGACCGCCAATTCGTCTGCCTCTATTGTTTTCGGgtacagtttc ... ttccaagcagATGTAGCAACTCACAGTCAGGAGACCTGACAAAGGCAGATAGGGCAGTTGA
EST: gi|211449626|gb|FL035070.1|FL035070
EST:     GTCATGGGAAACGAGCAGACCGCCAATTCGTCTGCCTCTATTGTTTTCGG                         ATGTAGCAACTCACAGTCAGGAGACCTGACAAAGGCAGATAGGGCAGTTGA
genomic: GTCATGGGAAACGAGCAGACCGCCAATTCGTCTGCCTCTATTGTTTTCGGgtacagtttc ... ttccaagcagATGTAGCAACTCACAGTCAGGAGACCTGACAAAGGCAGATAGGGCAGTTGA
EST: gi|19351139|gb|BM895671.1|BM895671
EST:     GTCATGGGAAACGAGCAGACCGCCAATTCGTCTGCCTCTATTGTTTTCGG                         ATGTAGCAACACACAAACAGGAGACCTGACAAAGGCAGATAGGGCAGTTGA
genomic: GTCATGGGAAACGAGCAGACCGCCAATTCGTCTGCCTCTATTGTTTTCGGgtacagtttc ... ttccaagcagATGTAGCAACTCACAGTCAGGAGACCTGACAAAGGCAGATAGGGCAGTTGA
EST: gi|148966491|gb|EE017508.2|EE017508
EST:     GTCATGGGAAACGAGCAGACCGCCAATTCGTCTGCCTCTATTGTTTTCGG                         ATGTAGCAACTCACAGTCAGGAGACCTGACAAAGGCAGATAGGGCAGTTGA
genomic: GTCATGGGAAACGAGCAGACCGCCAATTCGTCTGCCTCTATTGTTTTCGGgtacagtttc ... ttccaagcagATGTAGCAACTCACAGTCAGGAGACCTGACAAAGGCAGATAGGGCAGTTGA
EST: gi|148961307|gb|EE012032.2|EE012032
EST:     GTCATGGGAAACGAGCAGACCGCCAATTCGTCTGCCTCTATTGTTTTCGG                         ATGTAGCAACTCACAGTCAGGAGACCTGACAAAGGCAGATAGGGCAGTTGA
genomic: GTCATGGGAAACGAGCAGACCGCCAATTCGTCTGCCTCTATTGTTTTCGGgtacagtttc ... ttccaagcagATGTAGCAACTCACAGTCAGGAGACCTGACAAAGGCAGATAGGGCAGTTGA
EST: gi|149108251|gb|EE292593.2|EE292593
EST:     GTCATGGGAAACGAGCAGACCGCCAATTCGTCTGCCTCTATTGTTTTCGG                         ATGTAGCAACTCACAGTCAGGAGACCTGACAAAGGCAGATAGGGCAGTTGA
genomic: GTCATGGGAAACGAGCAGACCGCCAATTCGTCTGCCTCTATTGTTTTCGGgtacagtttc ... ttccaagcagATGTAGCAACTCACAGTCAGGAGACCTGACAAAGGCAGATAGGGCAGTTGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatcagtagacaattatttaccggctcatgaatgtttcaatttcttccaagcagATGTAGCAACTCACAGTCAGGAGACCTGACAAAGGCAGATAGGGCAGTTGATGGAATTTTTGGGTTCGGACAGCATCAACTGTCTGTAATTTCGCAACTT
                                   tttcaatttcttcc  CT-rich tract
       tagacaattattta  TA-rich tract