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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTATGGCACTTTCAGAAGATCACAAACCTAACAGGATTGATGAGCGAAAGAGAATAGAAAATGCTGGTGGTATTGTCATTTGGGCTGgtaagcatgtgctcttcgttcttttatacattgggctaatttgcttgcattagctgtagttgacaaggcagattgcaaaaggcttctgctattcatctgt...

Basic information

species Zea mays
transcript GRMZM2G442404_T01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G442404_T01 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os02g15594.1 (Oryza sativa), 5'ss of exon 5
CTATGGCACTTTCAGAAGATCACAAACCTAACAGGATTGATGAGCGAAAGAGAATAGAAAATGCTGGTGGTATTGTCATTTGGGCTGgtaagcatgtgctcttcgttcttttatacattgggc-taatttgcttgcattagctgtagttgacaaggcagattgcaaaaggcttctgctattcatctgt-
|||||||||| ||||||||||||||||||||||||| ||||||||| |||||||| |||||||| || ||  |||||||||||||||||||||      ||||| |||||  || || ||||| || ||||| |   | ||||    | |||||||||| ||||| ||||||| | |  ||  |   | 
CTATGGCACTGTCAGAAGATCACAAACCTAACAGGAGTGATGAGCGGAAGAGAATTGAAAATGCAGGAGGAGTTGTCATTTGGGCTGgtaagctaaa--tcttcattcttggatgcactgggcatagtttgcctttgtaagctcacatggacaaggcaggttgcacaaggcttgtccatttggtgcctt
















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|78179208|gb|DV549581.1|DV549581
EST:     TGATGAGCGAAAGAGAATTGAAAATGCTGGTGGTATTGTCATTTGGGCTG                         GTACTTGGAGGGTAGGTGGTGTATTGGCGATGTCCCGTGCATTTGGCAATC
genomic: TGATGAGCGAAAGAGAATAGAAAATGCTGGTGGTATTGTCATTTGGGCTGgtaagcatgt ... atcttcccagGTACTTGGAGGGTAGGTGGTGTATTGGCGATGTCTCGTGCATTTGGCAATC
EST: gi|4776156|gb|AI665159.1|AI665159
EST:     TGATGAGCGAAAGAGAATAGAAAATGCTGGTGGTATTGTCATTTGGGCTG                         GTACTTGGAGGGTAGGTGGTGTATTGGCGATGTCTCGTGCATTTGGCAATC
genomic: TGATGAGCGAAAGAGAATAGAAAATGCTGGTGGTATTGTCATTTGGGCTGgtaagcatgt ... atcttcccagGTACTTGGAGGGTAGGTGGTGTATTGGCGATGTCTCGTGCATTTGGCAATC
EST: gi|32863266|gb|CF002948.1|CF002948
EST:     TGCTGGTGGTATTGTCATTTGGGCTG                         GTACTTGGAGGGTAGGTGGTGTATTGGCGATGTCTCGTGCATTTGGCAATC
genomic: TGCTGGTGGTATTGTCATTTGGGCTGgtaagcatgt ... atcttcccagGTACTTGGAGGGTAGGTGGTGTATTGGCGATGTCTCGTGCATTTGGCAATC
EST: gi|71307033|gb|DR789670.1|DR789670
EST:     TGATGAGCGAAAGAGAATAGAAAATGCTGGTGGTATTGTCATTTGGGCTG                         GTACTTGGAGGGTAGGTGGTGTATTGGCGATGTCTCGTGCATTTGGCAATC
genomic: TGATGAGCGAAAGAGAATAGAAAATGCTGGTGGTATTGTCATTTGGGCTGgtaagcatgt ... atcttcccagGTACTTGGAGGGTAGGTGGTGTATTGGCGATGTCTCGTGCATTTGGCAATC
EST: gi|111188864|gb|EE287000.1|EE287000
EST:     TGATGAGCGAAAGAGAATAGAAAATGCTGGTGGTATTGTCATTTGGGCTG                         GTACTTGGAGGGTAGGTGGTGTATTGGCGATGTCTCGTGCATTTGGCAATC
genomic: TGATGAGCGAAAGAGAATAGAAAATGCTGGTGGTATTGTCATTTGGGCTGgtaagcatgt ... atcttcccagGTACTTGGAGGGTAGGTGGTGTATTGGCGATGTCTCGTGCATTTGGCAATC
EST: gi|71428856|gb|DR809906.1|DR809906
EST:     TGATGAGCGAAAGAGAATAGAAAATGCTGGTGGTATTGTCATTTGGGCTG                         GTACTTGGAGGGTAGGTGGTGTATTGGCGATGTCTCGTGCATTTGGCAATC
genomic: TGATGAGCGAAAGAGAATAGAAAATGCTGGTGGTATTGTCATTTGGGCTGgtaagcatgt ... atcttcccagGTACTTGGAGGGTAGGTGGTGTATTGGCGATGTCTCGTGCATTTGGCAATC
EST: gi|211366188|gb|FL288085.1|FL288085
EST:     TGATGAGCGAAAGAGAATAGAAAATGCTGGTGGTATTGTCATTTGGGCTG                         GTACTTGGAGGGTAGGTGGTGTATTGGCGATGTCTCGTGCATTTGGCAATC
genomic: TGATGAGCGAAAGAGAATAGAAAATGCTGGTGGTATTGTCATTTGGGCTGgtaagcatgt ... atcttcccagGTACTTGGAGGGTAGGTGGTGTATTGGCGATGTCTCGTGCATTTGGCAATC
EST: gi|149051712|gb|EE155827.2|EE155827
EST:     TGATGAGCGAAAGAGAATAGAAAATGCTGGTGGTATTGTCATTTGGGCTG                         GTACTTGGAGGGTAGGTGGTGTATTGGCGATGTCTCGTGCATTTGGCAATC
genomic: TGATGAGCGAAAGAGAATAGAAAATGCTGGTGGTATTGTCATTTGGGCTGgtaagcatgt ... atcttcccagGTACTTGGAGGGTAGGTGGTGTATTGGCGATGTCTCGTGCATTTGGCAATC
EST: gi|148950086|gb|EC895621.2|EC895621
EST:     TGATGAGCGAAAGAGAATAGAAAATGCTGGTGGTATTGTCATTTGGGCTG                         GTACTTGGAGGGTAGGTGGTGTATTGGCGATGTCTCGTGCATTTGGCAATC
genomic: TGATGAGCGAAAGAGAATAGAAAATGCTGGTGGTATTGTCATTTGGGCTGgtaagcatgt ... atcttcccagGTACTTGGAGGGTAGGTGGTGTATTGGCGATGTCTCGTGCATTTGGCAATC
EST: gi|8103065|gb|AW927729.1|AW927729
EST:     TGATGAGCGAAAGAGAATTGAAAATGCTGGTGGTATTGTCATTTGGGCTG                         GTACTTGGAGGGTAGGTGGTGTATTGGCGATGTCCCGTGCATTTGGCAATC
genomic: TGATGAGCGAAAGAGAATAGAAAATGCTGGTGGTATTGTCATTTGGGCTGgtaagcatgt ... atcttcccagGTACTTGGAGGGTAGGTGGTGTATTGGCGATGTCTCGTGCATTTGGCAATC
EST: gi|37374878|gb|CF623839.1|CF623839
EST:     TGATGAGCGAAAGAGAATAGAAAATGCTGGTGGTATTGTCATTTGGGCTG                         GTACTTGGAGGGTAGGTGGTGTATTGGCGATGTCTCGTGCATTTGGCAATC
genomic: TGATGAGCGAAAGAGAATAGAAAATGCTGGTGGTATTGTCATTTGGGCTGgtaagcatgt ... atcttcccagGTACTTGGAGGGTAGGTGGTGTATTGGCGATGTCTCGTGCATTTGGCAATC
EST: gi|60343417|gb|DN210390.1|DN210390
EST:     TGATGAGCGAAAGAGAATAGAAAATGCTGGTGGTATTGTCATTTGGGCTG                         GTACTTGGAGGGTAGGTGGTGTATTGGCGATGTCTCGTGCATTTGGCAATC
genomic: TGATGAGCGAAAGAGAATAGAAAATGCTGGTGGTATTGTCATTTGGGCTGgtaagcatgt ... atcttcccagGTACTTGGAGGGTAGGTGGTGTATTGGCGATGTCTCGTGCATTTGGCAATC
EST: gi|71317759|gb|DR795638.1|DR795638
EST:     TGATGAGCGAAAGAGAATAGAAAATGCTGGTGGTATTGTCATTTGGGCTG                         GTACTTGGAGGGTAGGTGGTGTATTGGCGATGTCTCGTGCATTTGGCAATC
genomic: TGATGAGCGAAAGAGAATAGAAAATGCTGGTGGTATTGTCATTTGGGCTGgtaagcatgt ... atcttcccagGTACTTGGAGGGTAGGTGGTGTATTGGCGATGTCTCGTGCATTTGGCAATC
EST: gi|86466746|gb|DY233116.1|DY233116
EST:     TGATGAGCGAAAGAGAATAGAAAATGCTGGTGGTATTGTCATTTGGGCTG                         GTACTTGGAGGGTAGGTGGTGTATTGGCGATGTCTCGTGCATTTGGCAATC
genomic: TGATGAGCGAAAGAGAATAGAAAATGCTGGTGGTATTGTCATTTGGGCTGgtaagcatgt ... atcttcccagGTACTTGGAGGGTAGGTGGTGTATTGGCGATGTCTCGTGCATTTGGCAATC
EST: gi|211366190|gb|FL288087.1|FL288087
EST:     TGATGAGCGAAAGAGAATAGAAAATGCTGGTGGTATTGTCATTTGGGCTG                         GTACTTGGAGGGTAGGTGGTGTATTGGCGATGTCTCGTGCATTTGGCAATC
genomic: TGATGAGCGAAAGAGAATAGAAAATGCTGGTGGTATTGTCATTTGGGCTGgtaagcatgt ... atcttcccagGTACTTGGAGGGTAGGTGGTGTATTGGCGATGTCTCGTGCATTTGGCAATC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTATGGCACTTTCAGAAGATCACAAACCTAACAGGATTGATGAGCGAAAGAGAATAGAAAATGCTGGTGGTATTGTCATTTGGGCTGgtaagcatgtgctcttcgttcttttatacattgggctaatttgcttgcattagctgtagttgacaaggcagattgcaaaaggcttctgctattcatctgt

- - - - - - - - - - - - - - - - - - - - - - -  AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG