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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAATGATCTTGCTGCAGTTGTTAATCAATACATTGCAAAACTAGTAAAAGAATTACAAGGAACTGACTTCTGGAAACTCAGAAGAGCCTACACCTTTGGTgttagtactaaccttactattctacatttgtttatagattgtagagtcaaatgcaccccctgtacttccataatgcgcattcaggttcctaaacttacta...

Basic information

species Zea mays
transcript GRMZM2G128080_T02
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G128080_T02 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os01g16100.1 (Oryza sativa), 5'ss of exon 4
AAATGATCTTGCTGCAGTTGTTAATCAATACATTGCAAAACTAGTAAAAGAATTACAAGGAACTGACTTCTGGAAACTCAGAAGAGCCTACACCTTTGGTgttagtactaaccttactattctacatttgtttatagattgtagagtcaaatgcaccccctgtacttccataatgcgcattcaggttcctaaacttacta
|||||||||  |||  || ||||| ||||||||||  ||  | ||||||||| | ||||| || ||||||||||| |||||||| ||||| ||||||||||||||||  ||  ||  |  | |||||  |||      || |||  |   |  |    ||  ||  |   | |||   |||   |               
AAATGATCTCACTGTTGTGGTTAACCAATACATTGGGAAGTTGGTAAAAGAACTGCAAGGGACCGACTTCTGGAAGCTCAGAAGGGCCTATACCTTTGGTgttagtataaatgttgttcctttacatcggttct---gttctaggtttgta-acggatccaatatgtttgtcatgactatttcag---------------
















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|6626347|gb|AW257879.1|AW257879
EST:     AATTACAAGGAACTGACTTCTGGAAACTCAGAAGAGCCTACACCTTTGGT                         GTACAAGAATATGTCGAAGCTGCAACACTCTGTAGATTTTGCAAGACTGGC
genomic: AATTACAAGGAACTGACTTCTGGAAACTCAGAAGAGCCTACACCTTTGGTgttagtacta ... accattgcagGTACAAGAATATGTCGAAGCTGCAACACTCTGTAGATTTTGCAAGACTGGC
EST: gi|149042519|gb|EE047203.2|EE047203
EST:     AATTACAAGGAACTGACTTCTGGAAACTCAGAAGAGCCTACACCTTTGGT                         GTACAAGAATATGTCGAAGCTGCAACACTCTGTAGATTTTGCAAGACTGGC
genomic: AATTACAAGGAACTGACTTCTGGAAACTCAGAAGAGCCTACACCTTTGGTgttagtacta ... accattgcagGTACAAGAATATGTCGAAGCTGCAACACTCTGTAGATTTTGCAAGACTGGC
EST: gi|76286839|gb|DV026407.1|DV026407
EST:     AATTACAAGGAACTGACTTCTGGAAACTCAGAAGAGCCTACACCTTTGGT                         GTACAAGAATATGTCGAAGCTGCAACACTCTGTAGATTTTGCAAGACTGGC
genomic: AATTACAAGGAACTGACTTCTGGAAACTCAGAAGAGCCTACACCTTTGGTgttagtacta ... accattgcagGTACAAGAATATGTCGAAGCTGCAACACTCTGTAGATTTTGCAAGACTGGC
EST: gi|101382451|gb|EB813281.1|EB813281
EST:     AATTACAAGGAACTGACTTCTGGAAACTCAGAAGAGCCTACACCTTTGGT                         GTACAAGAATATGTCGAAGCTGCAACACTCTGTAGATTTTGCAAGACTGGC
genomic: AATTACAAGGAACTGACTTCTGGAAACTCAGAAGAGCCTACACCTTTGGTgttagtacta ... accattgcagGTACAAGAATATGTCGAAGCTGCAACACTCTGTAGATTTTGCAAGACTGGC
EST: gi|148938451|gb|EC882769.2|EC882769
EST:     AATTACAAGGAACTGACTTCTGGAAACTCAGAAGAGCCTACACCTTTGGT                         GTACAAGAATATGTCGAAGCTGCAACACTCTGTAGATTTTGCAAGACTGGC
genomic: AATTACAAGGAACTGACTTCTGGAAACTCAGAAGAGCCTACACCTTTGGTgttagtacta ... accattgcagGTACAAGAATATGTCGAAGCTGCAACACTCTGTAGATTTTGCAAGACTGGC
EST: gi|60356030|gb|DN223003.1|DN223003
EST:     AATTACAAGGAACTGACTTCTGGAAACTCAGAAGAGCCTACACCTTTGGT                         GTACAAGAATATGTCGAAGCTGCAACACTCTGTAGATTTTGCAAGACTGGC
genomic: AATTACAAGGAACTGACTTCTGGAAACTCAGAAGAGCCTACACCTTTGGTgttagtacta ... accattgcagGTACAAGAATATGTCGAAGCTGCAACACTCTGTAGATTTTGCAAGACTGGC
EST: gi|211158653|gb|FK974899.1|FK974899
EST:     AATTACAAGGAACTGACTTCTGGAAACTCAGAAGAGCCTACACCTTTGGT                         GTACAAGAATATGTCGAAGCTGCAACACTCTGTAGATTTTGCAAGACTGGC
genomic: AATTACAAGGAACTGACTTCTGGAAACTCAGAAGAGCCTACACCTTTGGTgttagtacta ... accattgcagGTACAAGAATATGTCGAAGCTGCAACACTCTGTAGATTTTGCAAGACTGGC
EST: gi|211185838|gb|FL326885.1|FL326885
EST:     AATTACAAGGAACTGACTTCTGGAAACTCAGAAGAGCCTACACCTTTGGT                         GTACAAGAATATGTCGAAGCTGCAACACTCTGTAGATTTTGCAAGACTGGC
genomic: AATTACAAGGAACTGACTTCTGGAAACTCAGAAGAGCCTACACCTTTGGTgttagtacta ... accattgcagGTACAAGAATATGTCGAAGCTGCAACACTCTGTAGATTTTGCAAGACTGGC
EST: gi|211477295|gb|FL319648.1|FL319648
EST:     AATTACAAGGAACTGACTTCTGGAAACTCAGAAGAGCCTACACCTTTGGT                         GTACAAGAATATGTCGAAGCTGCAACACTCTGTAGATTTT
genomic: AATTACAAGGAACTGACTTCTGGAAACTCAGAAGAGCCTACACCTTTGGTgttagtacta ... accattgcagGTACAAGAATATGTCGAAGCTGCAACACTCTGTAGATTTT
EST: gi|211439800|gb|FL306622.1|FL306622
EST:     AATTACAAGGAACTGACTTCTGGAAACTCAGAAGAGCCTACACCTTTGGT                         GTACAAGAATATGTCGAAGCTGCAACACTCTGTAGATTTTGCAAGACTGGC
genomic: AATTACAAGGAACTGACTTCTGGAAACTCAGAAGAGCCTACACCTTTGGTgttagtacta ... accattgcagGTACAAGAATATGTCGAAGCTGCAACACTCTGTAGATTTTGCAAGACTGGC
EST: gi|71328613|gb|DR800971.1|DR800971
EST:     AATTACAAGGAACTGACTTCTGGAAACTCAGAAGAGCCTACACCTTTGGT                         GTACAAGAATATGTCGAAGCTGCAACACTCTGTAGATTTTGCAAGACTGGC
genomic: AATTACAAGGAACTGACTTCTGGAAACTCAGAAGAGCCTACACCTTTGGTgttagtacta ... accattgcagGTACAAGAATATGTCGAAGCTGCAACACTCTGTAGATTTTGCAAGACTGGC
EST: gi|60343645|gb|DN210618.1|DN210618
EST:     AATTACAAGGAACTGACTTCTGGAAACTCAGAAGAGCCTACACCTTTGGT                         GTACAAGAATATGTCGAAGCTGCAACACTCTGTAGATTTTGCAAGACTGGC
genomic: AATTACAAGGAACTGACTTCTGGAAACTCAGAAGAGCCTACACCTTTGGTgttagtacta ... accattgcagGTACAAGAATATGTCGAAGCTGCAACACTCTGTAGATTTTGCAAGACTGGC

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAATGATCTTGCTGCAGTTGTTAATCAATACATTGCAAAACTAGTAAAAGAATTACAAGGAACTGACTTCTGGAAACTCAGAAGAGCCTACACCTTTGGTgttagtactaaccttactattctacatttgtttatagattgtagagtcaaatgcaccccctgtacttccataatgcgcattcaggttcctaaacttacta

- - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA