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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtataaaattcttctctgcttctatttattctcttcaacatgtgctactcctattaatttctctttcccttttatatttgcagGTACGCATACGCTGTTGCTAGTGCACTGCACGGTGTGCACCATAGTCTCCATAAAGATTTTATGATTCAG

Basic information

species Zea mays
transcript GRMZM2G055020_T03
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G055020_T03 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os05g32060.1 (Oryza sativa), 3'ss of exon 4
gttagtataaaattcttctctgcttctatttattctcttcaacatgtgctactcctattaatttc-tctttcccttttatatttgcagGTACGCATACGCTGTTGCTAGTGCACTGCACGGTGTGCACCATAGTCTCCATAAAGATTTTATGATTCAG
||  |||  |   | |   | |  | | ||  ||  ||| ||||||  |  | | |||||||||  ||||||   || || |||  ||||| ||||| ||||| ||||||||| |||| ||||||||| | || || | ||| |||||||||||||||
gtcggtactattatgtgtacagtatttcttc-ttgacttaaacatgcacaccccttattaatttgatctttcatattcatgtttatagGTATGCATATGCTGTCGCTAGTGCATTGCATGGTGTGCACTACAGCCTTCGTAAGGATTTTATGATTCAG
















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|5468725|gb|AI834516.1|AI834516
EST:     ATGAAAGAGGATCAGGAGACAGACAAAGCATTCGGATGGGTCTTGGAAAT                         GTACGCATACGCTGTTGCTAGTGCACTGCACGGTGTGCACCATAGTCTCCA
genomic: ATGAAAGAGGATCAGGAGACAGACAAAGCATTCGGATGGGTCTTGGAAATgttagtataa ... atatttgcagGTACGCATACGCTGTTGCTAGTGCACTGCACGGTGTGCACCATAGTCTCCA
EST: gi|71761576|gb|DR959513.1|DR959513
EST:     ATGAAAGAGGATCAGGAGACAGACAAAGCATTCGGATGGGTCTTGGAAAT                         GTACGCATACGCTGTTGCTAGTGCACTGCACGGTGTGCACCATAGTCTCCA
genomic: ATGAAAGAGGATCAGGAGACAGACAAAGCATTCGGATGGGTCTTGGAAATgttagtataa ... atatttgcagGTACGCATACGCTGTTGCTAGTGCACTGCACGGTGTGCACCATAGTCTCCA
EST: gi|5895926|gb|AW037172.1|AW037172
EST:     ATGAAAGAGGATCAGGAGACAGACAAAGCATTCGGATGGGTCTTGGAAAT                         GTACGCATACGCTGTTGCTAGTGCACTGCACGGTGTGCACCATAGTCTCCA
genomic: ATGAAAGAGGATCAGGAGACAGACAAAGCATTCGGATGGGTCTTGGAAATgttagtataa ... atatttgcagGTACGCATACGCTGTTGCTAGTGCACTGCACGGTGTGCACCATAGTCTCCA
EST: gi|74237664|gb|DT645578.1|DT645578
EST:     ATGAAAGAGGATCAGGAGACAGACAAAGCATTCGGATGGGTCTTGGAAAT                         GTACGCATACGCTGTTGCTAGTGCACTGCACGGTGTGCACCATAGTCTCCA
genomic: ATGAAAGAGGATCAGGAGACAGACAAAGCATTCGGATGGGTCTTGGAAATgttagtataa ... atatttgcagGTACGCATACGCTGTTGCTAGTGCACTGCACGGTGTGCACCATAGTCTCCA
EST: gi|78082143|gb|DV510555.1|DV510555
EST:     ATGAAAGAGGATCGGGAGACAGACAAAGCATTCGGATGGGTTTTGGAAAT                         GTACGCATACGCTGTTGTTAGTGCACTGCACGGTGTGCACCATAGTCTCCA
genomic: ATGAAAGAGGATCAGGAGACAGACAAAGCATTCGGATGGGTCTTGGAAATgttagtataa ... atatttgcagGTACGCATACGCTGTTGCTAGTGCACTGCACGGTGTGCACCATAGTCTCCA
EST: gi|76015780|gb|DT942950.1|DT942950
EST:     ATGAAAGAGGATCAGGAGACAGACAAAGCATTCGGATGGGTCTTGGAAAT                         GTACGCATACGCTGTTGCTAGTGCACTGCACGGTGTGCACCATAGTCTCCA
genomic: ATGAAAGAGGATCAGGAGACAGACAAAGCATTCGGATGGGTCTTGGAAATgttagtataa ... atatttgcagGTACGCATACGCTGTTGCTAGTGCACTGCACGGTGTGCACCATAGTCTCCA
EST: gi|5686756|gb|AI939849.1|AI939849
EST:     ATGAAAGAGGATCAGGAGACAGACAAAGCATTCGGATGGGTCTTGGAAAT                         GTACGCATACGCTGTTGCTAGTGCACTGCACGGTGTGCACCATAGTCTCCA
genomic: ATGAAAGAGGATCAGGAGACAGACAAAGCATTCGGATGGGTCTTGGAAATgttagtataa ... atatttgcagGTACGCATACGCTGTTGCTAGTGCACTGCACGGTGTGCACCATAGTCTCCA
EST: gi|211541009|gb|FL454732.1|FL454732
EST:     ATGAAAGAGGATCAGGAGACAGACAAAGCATTCGGATGGGTCTTGGAAAT                         GTACGCATACGCTGTTGCTAGTGCACTGCACGGTGTGCACCATAGTCTCCA
genomic: ATGAAAGAGGATCAGGAGACAGACAAAGCATTCGGATGGGTCTTGGAAATgttagtataa ... atatttgcagGTACGCATACGCTGTTGCTAGTGCACTGCACGGTGTGCACCATAGTCTCCA
EST: gi|76917228|gb|DV166719.1|DV166719
EST:     ATGAAAGAGGATCAGGAGACAGACAAAGCATTCGGATGGGTCTTGGAAAT                         GTACGCATACGCTGTTGCTAGTGCACTGCACGGTGTGCACCATAGTCTCCA
genomic: ATGAAAGAGGATCAGGAGACAGACAAAGCATTCGGATGGGTCTTGGAAATgttagtataa ... atatttgcagGTACGCATACGCTGTTGCTAGTGCACTGCACGGTGTGCACCATAGTCTCCA
EST: gi|71763634|gb|DR961571.1|DR961571
EST:     ATGAAAGAGGATCAGGAGACAGACAAAGCATTCGGATGGGTCTTGGAAAT                         GTACGCATACGCTGTTGCTAGTGCACTGCACGGTGTGCACCATAGTCTCCA
genomic: ATGAAAGAGGATCAGGAGACAGACAAAGCATTCGGATGGGTCTTGGAAATgttagtataa ... atatttgcagGTACGCATACGCTGTTGCTAGTGCACTGCACGGTGTGCACCATAGTCTCCA
EST: gi|60347170|gb|DN214143.1|DN214143
EST:     ATGAAAGAGGATCAGGAGACAGACAAAGCATTCGGATGGGTCTTGGAAAT                         GTACGCATACGCTGTTGCTAGTGCACTGCACGGTGTGCACCATAGTCTCCA
genomic: ATGAAAGAGGATCAGGAGACAGACAAAGCATTCGGATGGGTCTTGGAAATgttagtataa ... atatttgcagGTACGCATACGCTGTTGCTAGTGCACTGCACGGTGTGCACCATAGTCTCCA
EST: gi|78023550|gb|DV491937.1|DV491937
EST:     ATGAAAGAGGATCAGGAGACAGACAAAGCATTCGGATGGGTCTTGGAAAT                         GTACGCATACGCTGTTGCTAGTGCACTGCACGGTGTGCACCATAGTCTCCA
genomic: ATGAAAGAGGATCAGGAGACAGACAAAGCATTCGGATGGGTCTTGGAAATgttagtataa ... atatttgcagGTACGCATACGCTGTTGCTAGTGCACTGCACGGTGTGCACCATAGTCTCCA
EST: gi|211218550|gb|FL110185.1|FL110185
EST:     ATGAAAGAGGATCAGGAGACAGACAAAGCATTCGGATGGGTCTTGGAAAT                         GTACGCATACGCTGTTGCTAGTGCACTGCACGGTGTGCACCATAGTCTCCA
genomic: ATGAAAGAGGATCAGGAGACAGACAAAGCATTCGGATGGGTCTTGGAAATgttagtataa ... atatttgcagGTACGCATACGCTGTTGCTAGTGCACTGCACGGTGTGCACCATAGTCTCCA
EST: gi|113702992|gb|EE680496.1|EE680496
EST:     AGGAAAGAGGATCAGGAGACAGACAAAGCATTTGGATGGGTTTTGGAAAT                         GTACGCATACGCTGTTGGTAGTGCACTGCACGGTGTGCACCATAGTTTCCA
genomic: ATGAAAGAGGATCAGGAGACAGACAAAGCATTCGGATGGGTCTTGGAAATgttagtataa ... atatttgcagGTACGCATACGCTGTTGCTAGTGCACTGCACGGTGTGCACCATAGTCTCCA
EST: gi|211218551|gb|FL110186.1|FL110186
EST:     ATGAAAGAGGATCAGGAGACAGACAAAGCATTCGGATGGGTCTTGGAAAT                         GTACGCATACGCTGTTG
genomic: ATGAAAGAGGATCAGGAGACAGACAAAGCATTCGGATGGGTCTTGGAAATgttagtataa ... atatttgcagGTACGCATACGCTGTTG
EST: gi|71760330|gb|DR958267.1|DR958267
EST:     ATGAAAGAGGATCAGGAGACAGACAAAGCATTCGGATGGGTCTTGGAAAT                         GTACGCATACGCTGTTGCTAGTGCACTGCACGGTGTGCACCATAGTCTCCA
genomic: ATGAAAGAGGATCAGGAGACAGACAAAGCATTCGGATGGGTCTTGGAAATgttagtataa ... atatttgcagGTACGCATACGCTGTTGCTAGTGCACTGCACGGTGTGCACCATAGTCTCCA
EST: gi|60351853|gb|DN218826.1|DN218826
EST:     ATGAAAGAGGATCAGGAGACAGACAAAGCATTCGGATGGGTCTTGGAAAT                         GTACGCATACGCTGTTGCTAGTGCACTGCACGGTGTGCACCATAGTCTCCA
genomic: ATGAAAGAGGATCAGGAGACAGACAAAGCATTCGGATGGGTCTTGGAAATgttagtataa ... atatttgcagGTACGCATACGCTGTTGCTAGTGCACTGCACGGTGTGCACCATAGTCTCCA
EST: gi|148981075|gb|EE027418.2|EE027418
EST:     ATGAAAGAGGATCAGGAGACAGACAAAGCATTCGGATGGGTCTTGGAAAT                         GTACGCATACGCTGTTGTTAGTGCACTGCACGGTGTGCACCATAGTCTCCA
genomic: ATGAAAGAGGATCAGGAGACAGACAAAGCATTCGGATGGGTCTTGGAAATgttagtataa ... atatttgcagGTACGCATACGCTGTTGCTAGTGCACTGCACGGTGTGCACCATAGTCTCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctcttcaacatgtgctactcctattaatttctctttcccttttatatttgcagGTACGCATACGCTGTTGCTAGTGCACTGCACGGTGTGCACCATAGTCTCCATAAAGATTTTATGATTCAG
                       tattaat  putative branch site (score: 2)
                   ctcctattaatttctc  CT-rich tract
                       tattaatttctcttt  TA-rich tract