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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtcttacttatcaccagtgttattaaaaactacatttaaacgtgacaaccatgtatatcggttagtctcttatcagttatcacatactaacgtgtataggcaaagcatgacaacgcatagatgtagtttgatctgctgtagttgaccatgatgtgtcgtaacaatcgcagGATCTGGAATGGGGGCAGCAGCTGTGTTCGAGCGGGGAGACGCGGTGGATGGACTCTCCAACGTGAGGGACATCCAGGCACATAATTTTCTGTCTAAGGA

Basic information

species Zea mays
transcript GRMZM5G848768_T03
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G848768_T04 (Zea mays), 3'ss of exon 12
lower sequence: LOC_Os02g57260.1 (Oryza sativa), 3'ss of exon 13
gttagtcttacttatcaccagtgttattaaaaactacatttaaacgtgacaaccatgtatatcggttagtctcttatcagttatcacatactaacgtgtataggcaaagcatgacaacgcatagatgtagtttgatctgctgtagttgaccatgatgtgtcgtaacaatcgcagGATCTGGAATGGGGGCAGCAGCTGTGTTCGAGCGGGGAGACGCGGTGGATGGACTCTCCAACGTGAGGGACATCCAGGCACATAATTTTCTGTCTAAGGA
                                             ||||   |  | | | | | ||  ||| |   |||            || |  |  | | |   |  |       |      |    |  | ||   ||||     |  |||  | | |    | ||||||||||| |||||||||||||||||||| |||||||| ||| |||| ||   | |||| |||||| |  ||    ||   ||   || |  |   || | 
---------------------------------------------gtgagttctttttctctggatttctctgtgtgcaggag---------aatgcatgcaagtagccctcgttgttaaacttccatgacatcttgtgtactagtatgtaactatgcat-gaattggttgcagGATCTGGCATGGGGGCAGCAGCTGTGTTTGAGCGGGGTGACTCGGTCGACCAATTCTCAAACGTGCGCCACCATTAGCGGCAGTTTTCTAAGAGAAATGC
















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|18650311|gb|BM499130.1|BM499130
EST:     GAAGCGCCGGGGCAGAGACTGCAGATTTGGTGTTGTCACCATGTGTATCG                         GATCTGGAATGGGGGCAGCAGCTGTGTTCGAGCGGGGAGACG
genomic: GAAGCGCCGGGGCAGAGACTGCAGATTTGGTGTTGTCACCATGTGTATCGgttagtctta ... acaatcgcagGATCTGGAATGGGGGCAGCAGCTGTGTTCGAGCGGGGAGACG
EST: gi|211292683|gb|FL176851.1|FL176851
EST:     GAAGCGCCGGGGCAGAGACTGCAGATTTGGTGTTGTCACCATGTGTATCG                         GATCTGGAATGGGGGCAGCAGCTGTGTTCGAGCGGGGAGACGNCG-TGGAT
genomic: GAAGCGCCGGGGCAGAGACTGCAGATTTGGTGTTGTCACCATGTGTATCGgttagtctta ... acaatcgcagGATCTGGAATGGGGGCAGCAGCTGTGTTCGAGCGGGGAGACG-CGGTGGAT
EST: gi|101394624|gb|EB819247.1|EB819247
EST:     GAAGCGCCGGGGCAGAGACTGCAGATTTGGTGTTGTCACCATGTGTATCG                         GATCTGGAATGGGGGCAGCAGCTGTGTTCGAGCGGGGAGACGCGGTGGATG
genomic: GAAGCGCCGGGGCAGAGACTGCAGATTTGGTGTTGTCACCATGTGTATCGgttagtctta ... acaatcgcagGATCTGGAATGGGGGCAGCAGCTGTGTTCGAGCGGGGAGACGCGGTGGATG
EST: gi|148946680|gb|EC891943.2|EC891943
EST:     GAAGCGCCGGGGCAGAGACTGCAGATTTGGTGTTGTCACCATGTGTATCG                         GATCTGGAATGGGGGCAGCAGCTGTGTTCGAGCGGGGAGACGCGGTGGATG
genomic: GAAGCGCCGGGGCAGAGACTGCAGATTTGGTGTTGTCACCATGTGTATCGgttagtctta ... acaatcgcagGATCTGGAATGGGGGCAGCAGCTGTGTTCGAGCGGGGAGACGCGGTGGATG
EST: gi|74238395|gb|DT646309.1|DT646309
EST:     GAAGCGCCGGGGCAGAGACTGCAGATTTGGTGTTGTCACCATGTGTATCG                         GATCTGGAATGGGGGCAGCAGCTGTGTTCGAGCGGGGAGACGCGGTGGATG
genomic: GAAGCGCCGGGGCAGAGACTGCAGATTTGGTGTTGTCACCATGTGTATCGgttagtctta ... acaatcgcagGATCTGGAATGGGGGCAGCAGCTGTGTTCGAGCGGGGAGACGCGGTGGATG
EST: gi|7031294|gb|AW461032.1|AW461032
EST:     GAAGCGCCGGGGCAGAGACTGCAGATTTGGTGTTGTCACCATGTGTATCG                         GATCTGGAATGGGGGCAGCAGCTGTGTTCGAGCGGGGAGACGCGGTGGATG
genomic: GAAGCGCCGGGGCAGAGACTGCAGATTTGGTGTTGTCACCATGTGTATCGgttagtctta ... acaatcgcagGATCTGGAATGGGGGCAGCAGCTGTGTTCGAGCGGGGAGACGCGGTGGATG
EST: gi|111195424|gb|EE293559.1|EE293559
EST:     GAAGCGCCGGGGCAGAGACTGCAGATTTGGTGTTGTCACCATGTGTATCG                         GATCTGGAATGGGGGCAGCAGCTGTGTTCGAGCGGGGAGACGCGGTGGATG
genomic: GAAGCGCCGGGGCAGAGACTGCAGATTTGGTGTTGTCACCATGTGTATCGgttagtctta ... acaatcgcagGATCTGGAATGGGGGCAGCAGCTGTGTTCGAGCGGGGAGACGCGGTGGATG
EST: gi|149076676|gb|EE165319.2|EE165319
EST:     GAAGCGCCGGGGCAGAGACTGCAGATTTGGTGTTGTCACCATGTGTATCG                         GATCTGGAATGGGGGCAGCAGCTGTGTTCGAGCGGGGAGACGCGGTGGATG
genomic: GAAGCGCCGGGGCAGAGACTGCAGATTTGGTGTTGTCACCATGTGTATCGgttagtctta ... acaatcgcagGATCTGGAATGGGGGCAGCAGCTGTGTTCGAGCGGGGAGACGCGGTGGATG
EST: gi|60345789|gb|DN212762.1|DN212762
EST:     GAAGCGCCGGGGCAGAGACTGCAGATTTGGTGTTGTCACCATGTGTATCG                         GATCTGGAATGGGGGCAGCAGCTGTGTTCGAGCGGGGAGACGCGGTGGATG
genomic: GAAGCGCCGGGGCAGAGACTGCAGATTTGGTGTTGTCACCATGTGTATCGgttagtctta ... acaatcgcagGATCTGGAATGGGGGCAGCAGCTGTGTTCGAGCGGGGAGACGCGGTGGATG
EST: gi|88752432|gb|DY536573.1|DY536573
EST:     GAAGCGCCGGGGCAGAGACTGCAGATTTGGTGTTGTCACCATGTGTATCG                         GATCTGGAATGGGG-CAGCAGCTGTGTTCGAGCGGGGAGACGCGGTGGATG
genomic: GAAGCGCCGGGGCAGAGACTGCAGATTTGGTGTTGTCACCATGTGTATCGgttagtctta ... acaatcgcagGATCTGGAATGGGGGCAGCAGCTGTGTTCGAGCGGGGAGACGCGGTGGATG
EST: gi|149100616|gb|EE186704.2|EE186704
EST:     GAAGCGCCGGGGCAGAGACTGCAGATTTGGTGTTGTCACCATGTGTATCG                         GATCTGGAATGGGGGCAGCAGCTGTGTTCGAGCGGGGAGACGCGGTGGATG
genomic: GAAGCGCCGGGGCAGAGACTGCAGATTTGGTGTTGTCACCATGTGTATCGgttagtctta ... acaatcgcagGATCTGGAATGGGGGCAGCAGCTGTGTTCGAGCGGGGAGACGCGGTGGATG
EST: gi|33942354|gb|CF348954.1|CF348954
EST:     GAAGCGCCGGGGCAGAGACTGCAGATTTGGTGTTGTCACCATGTGTATCG                         GATCTGGAATGGGGGCAGCAGCTGTGTTC
genomic: GAAGCGCCGGGGCAGAGACTGCAGATTTGGTGTTGTCACCATGTGTATCGgttagtctta ... acaatcgcagGATCTGGAATGGGGGCAGCAGCTGTGTTC
EST: gi|78074202|gb|DV502636.1|DV502636
EST:     GAAGCGCCGGGGCAGAGACTGCAGATTTGGTGTTGTCACCATGTGTATCG                         GATCTGGAATGGGGGCAGCAGCTGTGTTCGAGCGGGGAGACGCGGTGGATG
genomic: GAAGCGCCGGGGCAGAGACTGCAGATTTGGTGTTGTCACCATGTGTATCGgttagtctta ... acaatcgcagGATCTGGAATGGGGGCAGCAGCTGTGTTCGAGCGGGGAGACGCGGTGGATG
EST: gi|91874450|gb|EB404407.1|EB404407
EST:     GAAGCGCCGGGGCAGAGACTGCAGATTTGGTGTTGTCACCATGTGTATCG                         GATCTGGAATGGGGGCAGCAGCTGTG
genomic: GAAGCGCCGGGGCAGAGACTGCAGATTTGGTGTTGTCACCATGTGTATCGgttagtctta ... acaatcgcagGATCTGGAATGGGGGCAGCAGCTGTG
EST: gi|71769910|gb|DR967847.1|DR967847
EST:     GAAGCGCCGGGGCAGAGACTGCAGATTTGGTGTTGTCACCATGTGTATCG                         GATCTGGAATGGGGGCAGCAGCTGTGTTCGAGCGGGGAGACGCGGTGGATG
genomic: GAAGCGCCGGGGCAGAGACTGCAGATTTGGTGTTGTCACCATGTGTATCGgttagtctta ... acaatcgcagGATCTGGAATGGGGGCAGCAGCTGTGTTCGAGCGGGGAGACGCGGTGGATG
EST: gi|60346439|gb|DN213412.1|DN213412
EST:     GAAGCGCCGGGGCAGAGACTGCAGATTTGGTGTTGTCACCATGTGTATCG                         GATCTGGAATGGGGGCAGCAGCTGTGTTCGAGCGGGGAGACGCGGTGGATG
genomic: GAAGCGCCGGGGCAGAGACTGCAGATTTGGTGTTGTCACCATGTGTATCGgttagtctta ... acaatcgcagGATCTGGAATGGGGGCAGCAGCTGTGTTCGAGCGGGGAGACGCGGTGGATG
EST: gi|149101630|gb|EE187762.2|EE187762
EST:     GAAGCGCCGGGGCAGAGACTGCAGATTTGGTGTTGTCCCCATGTGTATCG                         GATCTGGAATGGGGGCAGCAGCTGTGTTCGAGCGGGGAGACGCGGTGGATG
genomic: GAAGCGCCGGGGCAGAGACTGCAGATTTGGTGTTGTCACCATGTGTATCGgttagtctta ... acaatcgcagGATCTGGAATGGGGGCAGCAGCTGTGTTCGAGCGGGGAGACGCGGTGGATG
EST: gi|32859198|gb|CD998879.1|CD998879
EST:     GAAGCGCCGGGGCAGAGACTGCAGATTTGGTGTTGTCACCATGTGTATCG                         GATCTGGAATGGGGGCAGCAGCTGTGTTCGAGCGGNGAGACGCGGTGGATG
genomic: GAAGCGCCGGGGCAGAGACTGCAGATTTGGTGTTGTCACCATGTGTATCGgttagtctta ... acaatcgcagGATCTGGAATGGGGGCAGCAGCTGTGTTCGAGCGGGGAGACGCGGTGGATG
EST: gi|101388206|gb|EB816117.1|EB816117
EST:     GAAGCGCCGGGGCAGAGACTGCAGATTTGGTGTTGTCACCATGTGTATCG                         GATCTGGAATGGGGGCAGCAGCTGTGTTCGAGCGGGGAGACGCGGTGGATG
genomic: GAAGCGCCGGGGCAGAGACTGCAGATTTGGTGTTGTCACCATGTGTATCGgttagtctta ... acaatcgcagGATCTGGAATGGGGGCAGCAGCTGTGTTCGAGCGGGGAGACGCGGTGGATG
EST: gi|32868231|gb|CF007913.1|CF007913
EST:     GAAGCGCCGGGGCAGAGACTGCAGATTTGGTGTTGTCACCATGTGTATCG                         GATCTGGAATGGGGGCAGCAG
genomic: GAAGCGCCGGGGCAGAGACTGCAGATTTGGTGTTGTCACCATGTGTATCGgttagtctta ... acaatcgcagGATCTGGAATGGGGGCAGCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catagatgtagtttgatctgctgtagttgaccatgatgtgtcgtaacaatcgcagGATCTGGAATGGGGGCAGCAGCTGTGTTCGAGCGGGGAGACGCGGTGGATGGACTCTCCAACGTGAGGGACATCCAGGCACATAATTTTCTGTCTAAGGA
                                        tcgtaac  putative branch site (score: 2)
                                           taacaat  TA-rich tract