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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTATCAGGAGATTTTGACCGATCCAAGTTATGCTGGTCAGTTTGTCCTAATGACCAATCCTCATATTGGGAACACTGGCGTTAATCCTGgtttgttacttctctacttgagagatttaatatgccttttttttttgacaatttagcatgaaatgaagtataatgctcttacag

Basic information

species Zea mays
transcript GRMZM2G029573_T01
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G029573_T01 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os02g47850.3 (Oryza sativa), 5'ss of exon 4
CTATCAGGAGATTTTGACCGATCCAAGTTATGCTGGTCAGTTTGTCCTAATGACCAATCCTCATATTGGGAACACTGGCGTTAATCCTGgtttgttacttctctact---tgagagatttaatatgccttt-tttttttgacaattt--agcatgaaatgaagtataatgctcttacag
 ||||| ||||||||||| |||||||| ||||||||||| |||||||| |||||||| || |||||||| |||||||| ||||||||||||  ||  ||| |||| |     | |    | |||||      |||     | |  ||  |   |  ||  || || ||||||| | |||
GTATCAAGAGATTTTGACTGATCCAAGCTATGCTGGTCAATTTGTCCTCATGACCAACCCACATATTGGAAACACTGGTGTTAATCCTGgtccgtatcttttctattagtcaataatcatgatatgatgccatttccacaatagcttgtaagttttaacaaattagaatgctcatgcag

upper sequence: GRMZM2G029573_T01 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA04G39390.1 (Glycine max), 5'ss of exon 3
CTATCAGGAGATTTTGACCGATCCAAGTTATGCTGGTCAGTTTGTCCTAATGACCAATCCTCATATTGGGAACACTGGCGTTAATCCTGgtt--tgttacttctctacttgagagatttaatatgccttttttttttgacaatttagcatgaaatgaagtataatgc---tcttacag
 ||||| || |||||||| ||||| ||||||||||| |||||||| || ||||| || || ||||||||||| |||||| | |||  |||||  ||||   | |||| || | |    |  |    |  | |  |||||     |   |  || |  | | |  | |   | || |||
GTATCAAGAAATTTTGACTGATCCTAGTTATGCTGGCCAGTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTGgttagtgtttactttctaattcaaatgagtcttgaatcgatgtggtttgaagccatttgaaaaactctacttttgttcactttttccag

upper sequence: GRMZM2G029573_T01 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA06G15510.1 (Glycine max), 5'ss of exon 3
CTATCAGGAGATTTTGACCGATCCAAGTTATGCTGGTCAGTTTGTCCTAATGACCAATCCTCATATTGGGAACACTGGCGTTAATCCTGgtttgttact--tctctacttga---gagatttaatatgccttttttttttgacaatttagcatgaaatgaagtataatgctcttacag
 ||||| || |||||||| ||||| ||||||||||| |||||||| || ||||| ||||| |||||||||||||||||| | |||  ||||| |||  |  | |||| || |   |||  || |   |   |  ||    | || || |  |     |   |  | |   | || |||
GTATCAAGAAATTTTGACAGATCCTAGTTATGCTGGCCAGTTTGTGCTCATGACAAATCCACATATTGGGAACACTGGCATAAATTTTGgttagtttttattttctaattcaaatgagtcttgaatcgatgtggttggaagccatttgaaaactgtgttttggttcacttttttccag

upper sequence: GRMZM2G029573_T01 (Zea mays), 5'ss of exon 4
lower sequence: GLYMA05G32190.1 (Glycine max), 5'ss of exon 3
CTATCAGGAGATTTTGACCGATCCAAGTTATGCTGGTCAGTTTGTCCTAATGACCAATCCTCATATTGGGAACACTGGCGTTAATCCTGgt------ttgttacttct-ctacttgagagatttaatatgccttttttttttgacaatttagcatgaaa----tgaagtataatgctcttacag----
 ||||| || ||| | || ||||| |||||||||||||||||||| || ||||| ||||| |||||||| |||||||| || |||  ||||      ||  || || |  || || |    | |   ||   | || ||       || ||  |   |     |||| | | |||| | ||| |    
GTATCAAGAAATTCTAACAGATCCTAGTTATGCTGGTCAGTTTGTACTGATGACAAATCCACATATTGGTAACACTGGTGTAAATTTTGgtaagtatttaatatttatattattttaagtctcttgaatatttgttcttggaagtcatctaaaacctaccttctgaattctgatgcacctactgccag

upper sequence: GRMZM2G029573_T01 (Zea mays), 5'ss of exon 4
lower sequence: AT3G27740.2 (Arabidopsis thaliana), 5'ss of exon 3
CTATCAGGAGATTTTGACCGATCCAAGTTATGCTGGTCAGTTTGTCCTAATGACCAATCCTCATATTGGGAACACTGGCGTTAATCCTGgtttgttac--ttctctacttgagagatttaatatgccttttttttttgacaatttagcatgaaatgaagtataatgctcttacag---------------
 ||||| || ||||| || ||||| ||||||||||| |||||||| |||||||| || || || ||||| || ||||| || |||||||||  ||  |  ||    |  |     ||  | || |   || | || | |   |||   || | ||   ||| |    | ||  ||               
GTATCAAGAAATTTTAACTGATCCTAGTTATGCTGGGCAGTTTGTGCTAATGACAAACCCACAAATTGGTAATACTGGTGTCAATCCTGgtaagtggcagtttcgaaactttcgtatacactaggaacttatgttctcaatgtttcttattacattt-gtaaatgtttgttgtagatgatgaagaatctg

upper sequence: GRMZM2G029573_T01 (Zea mays), 5'ss of exon 4
lower sequence: AT3G27740.1 (Arabidopsis thaliana), 5'ss of exon 3
CTATCAGGAGATTTTGACCGATCCAAGTTATGCTGGTCAGTTTGTCCTAATGACCAATCCTCATATTGGGAACACTGGCGTTAATCCTGgtttgttac--ttctctacttgagagatttaatatgccttttttttttgacaatttagcatgaaatgaagtataatgctcttacag
 ||||| || ||||| || ||||| ||||||||||| |||||||| |||||||| || || || ||||| || ||||| || |||||||||  ||  |  ||    |  |     ||  | || |   || | || | |   |||   || | ||   ||| |    | ||  ||
GTATCAAGAAATTTTAACTGATCCTAGTTATGCTGGGCAGTTTGTGCTAATGACAAACCCACAAATTGGTAATACTGGTGTCAATCCTGgtaagtggcagtttcgaaactttcgtatacactaggaacttatgttctcaatgtttcttattacattt-gtaaatgtttgttgtag

upper sequence: GRMZM2G029573_T01 (Zea mays), 5'ss of exon 4
lower sequence: Vv04s0044g00550.t01 (Vitis vinifera), 5'ss of exon 3
CTATCAGGAGATTTTGACCGATCCAAGTTATGCTGGTCAGTTTGTCCTAATGACCAATCCTCATATTGGGAACACTGGCGTTAATCCTGgtttgttacttctctacttgagagatttaatatgccttttttttttgacaatttagcatgaaatgaagtataatgctct-tacag
 |||||||| ||| | || || || ||||||||||||||||| ||| ||||||| ||||| |||||||| ||||| || || |||  ||||  |  | ||   || ||   | ||||   |  | | | ||  |  || |||||  |  ||||  ||     | | ||   |||
ATATCAGGAAATTCTTACAGACCCTAGTTATGCTGGTCAGTTCGTCTTAATGACAAATCCACATATTGGCAACACGGGGGTAAATTTTGgtaggggaatttcttaattctaatatttg-caaccttgtgttggtaaactatttaaaactaaatacagatcgcttccctgcccag

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|211516234|gb|FL052551.1|FL052551
EST:     GTTTGTCCTAATGACCAATCCTCATATTGGGAACACTGGCGTTAATCCTG                         ATGATGAAGAATCAAACCAATGTTTTCTTGGTGGCTTAATCATAAGAA
genomic: GTTTGTCCTAATGACCAATCCTCATATTGGGAACACTGGCGTTAATCCTGgtttgttact ... gctcttacagATGATGAAGAATCAAACCAATGTTTTCTTGGTGGCTTAATCATAAGAA
EST: gi|31355937|gb|CD440294.1|CD440294
EST:     GTTTGTCCTAATGACCAATCCTCATATTGGGAACACTGGCGTTAATCCTG                         ATGATGAAGAATCAAACCAATGTTTTCTTGGTGGCTTAATCATAAGAAATC
genomic: GTTTGTCCTAATGACCAATCCTCATATTGGGAACACTGGCGTTAATCCTGgtttgttact ... gctcttacagATGATGAAGAATCAAACCAATGTTTTCTTGGTGGCTTAATCATAAGAAATC
EST: gi|211516229|gb|FL052546.1|FL052546
EST:     GTTTGTCCTAATGACCAATCCTCATATTGGGAACACTGGCGTTNATCCTG                         ATGATGAAGAATCAAACCAATGTTTTCTTGGTGGCTTAATCA
genomic: GTTTGTCCTAATGACCAATCCTCATATTGGGAACACTGGCGTTAATCCTGgtttgttact ... gctcttacagATGATGAAGAATCAAACCAATGTTTTCTTGGTGGCTTAATCA
EST: gi|31361816|gb|CD446173.1|CD446173
EST:     GTTTGTCCTAATGACCAATCCTCATATTGGGAACACTGGCGTTAATCCTG                         ATGATGAAGAATCAAACCAATGTTTTCTTGGTGGCTTAATCATAAGAAATC
genomic: GTTTGTCCTAATGACCAATCCTCATATTGGGAACACTGGCGTTAATCCTGgtttgttact ... gctcttacagATGATGAAGAATCAAACCAATGTTTTCTTGGTGGCTTAATCATAAGAAATC
EST: gi|211516233|gb|FL052550.1|FL052550
EST:     GTTTGTCCTAATGACCAATCCTCATATTGGGAACACTGGCGTTAATCCTG                         ATGATGAAGAATCAAACCAATGTTTTCTTGGTGGCTTAATCATAAGAAATC
genomic: GTTTGTCCTAATGACCAATCCTCATATTGGGAACACTGGCGTTAATCCTGgtttgttact ... gctcttacagATGATGAAGAATCAAACCAATGTTTTCTTGGTGGCTTAATCATAAGAAATC
EST: gi|211087677|gb|FL052574.1|FL052574
EST:     GTTTGTCCTAATGACCAATCCTCATATTGGGAACACTGGCGTTAATCCTG                         ATGATGAAGAATCAAACCAATG
genomic: GTTTGTCCTAATGACCAATCCTCATATTGGGAACACTGGCGTTAATCCTGgtttgttact ... gctcttacagATGATGAAGAATCAAACCAATG
EST: gi|89248122|gb|DY619908.1|DY619908
EST:     GTTTGTCCTAATGACCAATCCTCATATTGGGAACACTGGCGTTAATCCTG                         ATGATGAAGAATCAAACCAATGTTTTCTTGGTGGCTTAATCATAAGAAATC
genomic: GTTTGTCCTAATGACCAATCCTCATATTGGGAACACTGGCGTTAATCCTGgtttgttact ... gctcttacagATGATGAAGAATCAAACCAATGTTTTCTTGGTGGCTTAATCATAAGAAATC
EST: gi|148969434|gb|EE020234.2|EE020234
EST:     GTTTGTCCTAATGACCAATCCTCATATTGGGAACACTGGCGTTAATCCTG                         ATGATGAAGAATCAAACCAATGTTTTCTTGGTGGCTTAATCATAAGAAATC
genomic: GTTTGTCCTAATGACCAATCCTCATATTGGGAACACTGGCGTTAATCCTGgtttgttact ... gctcttacagATGATGAAGAATCAAACCAATGTTTTCTTGGTGGCTTAATCATAAGAAATC
EST: gi|211518587|gb|FL052555.1|FL052555
EST:     GTTTGTCCTAATGACCAATCCTCATATTGGGAACACTGGCGTTAATCCTG                         ATGATGAAGAATCAAACCAATGTTTTCTTGGTGGCTTAATCATAAGAAATC
genomic: GTTTGTCCTAATGACCAATCCTCATATTGGGAACACTGGCGTTAATCCTGgtttgttact ... gctcttacagATGATGAAGAATCAAACCAATGTTTTCTTGGTGGCTTAATCATAAGAAATC
EST: gi|211516232|gb|FL052549.1|FL052549
EST:     GTTTGTCCTAATGACCAATCCTCATATTGGGAACACTGGCGTTAATCCTG                         ATGATGAAGAATCAAACCAATGTTTTCT-GGTGGCTTAATCATAAGAAATC
genomic: GTTTGTCCTAATGACCAATCCTCATATTGGGAACACTGGCGTTAATCCTGgtttgttact ... gctcttacagATGATGAAGAATCAAACCAATGTTTTCTTGGTGGCTTAATCATAAGAAATC
EST: gi|211289807|gb|FL254557.1|FL254557
EST:     GTTTGTCCTAATGACCAATCCTCATATTGGGAACACTGGCGTTAATCCTG                         ATGATGAAGAATCAAACCAATGTTT-CTTGGTGGCTTAATCATAAGAAATC
genomic: GTTTGTCCTAATGACCAATCCTCATATTGGGAACACTGGCGTTAATCCTGgtttgttact ... gctcttacagATGATGAAGAATCAAACCAATGTTTTCTTGGTGGCTTAATCATAAGAAATC
EST: gi|71764310|gb|DR962247.1|DR962247
EST:     GTTTGTCCTAATGACCAATCCTCATATTGGGAACACTGGCGTTAATCCTG                         ATGATGAAGAATCAAACCAATGTTTTCTTGGTGGCTTAATCATAAGAAATC
genomic: GTTTGTCCTAATGACCAATCCTCATATTGGGAACACTGGCGTTAATCCTGgtttgttact ... gctcttacagATGATGAAGAATCAAACCAATGTTTTCTTGGTGGCTTAATCATAAGAAATC
EST: gi|211518589|gb|FL052557.1|FL052557
EST:     GTTTGTCCTAATGACCAATCCTCATATTGGGAACACTGGCGTTAATCCTG                         ATGATGAAGAATCAAACCAATGTTTTCTTGGTGGCTTAATCATAAGAAATC
genomic: GTTTGTCCTAATGACCAATCCTCATATTGGGAACACTGGCGTTAATCCTGgtttgttact ... gctcttacagATGATGAAGAATCAAACCAATGTTTTCTTGGTGGCTTAATCATAAGAAATC
EST: gi|211087673|gb|FL052570.1|FL052570
EST:     GTTTGTCCTAATGACCAATCCTCATATTGGGAACACTGGCGTTAATCCTG                         ATGATGAAGAATCAAACCAATGTTTTC
genomic: GTTTGTCCTAATGACCAATCCTCATATTGGGAACACTGGCGTTAATCCTGgtttgttact ... gctcttacagATGATGAAGAATCAAACCAATGTTTTC
EST: gi|211287670|gb|FL254548.1|FL254548
EST:     GTTTGTCCTAATGACCAATCCTCATATTGGGAACACTGGCGTTAATCCTG                         ATGATGAAGAATCAAACCAATGTTTTCTTGGTGGCTTAATCATAAGAAATC
genomic: GTTTGTCCTAATGACCAATCCTCATATTGGGAACACTGGCGTTAATCCTGgtttgttact ... gctcttacagATGATGAAGAATCAAACCAATGTTTTCTTGGTGGCTTAATCATAAGAAATC
EST: gi|211518596|gb|FL052564.1|FL052564
EST:     GTTTGTCCTAATGACCAATCCTCATATTGGGAACACTGGCGTTTATCCTG                         ATGATGAAGAATCAAA
genomic: GTTTGTCCTAATGACCAATCCTCATATTGGGAACACTGGCGTTAATCCTGgtttgttact ... gctcttacagATGATGAAGAATCAAA
EST: gi|211287675|gb|FL254553.1|FL254553
EST:     GTTTGTCCTAATGACCAATCCTCATATTGGGAACACTGGCGTTAATCCTG                         ATGATGAAGAATCAAACCAATGTTTTCTTGGTGGGCTTAATCATAAG
genomic: GTTTGTCCTAATGACCAATCCTCATATTGGGAACACTGGCGTTAATCCTGgtttgttact ... gctcttacagATGATGAAGAATCAAACCAATGTTTTCTTGGTGG-CTTAATCATAAG