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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGCGGCTGAAGCAATTCTTGCCAAGTCAGAAGCTACTGCTCGTGGAATGAGATTGGTTTCAGATGCGATGACAACTGAAGGCAGTGCCAAGgtatcgaggattcttggctatcaaaatggtactaagtagtagctacaacattttgtgctcttaaatgctaacaatgttatatttatgtgctag

Basic information

species Zea mays
transcript GRMZM2G023073_T01
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G023073_T01 (Zea mays), 5'ss of exon 7
lower sequence: LOC_Os08g06200.1 (Oryza sativa), 5'ss of exon 7
GTGCGGCTGAAGCAATTCTTGCCAAGTCAGAAGCTACTGCTCGTGGAATGAGATTGGTTTCAGATGCGATGACAACTGAAGGCAGTGCCAAGgtatcgaggattcttg-gctatcaaaatggtactaagtagtagctacaacattttgtgctct-taaatgctaacaatgttatattta--tgtgctag
||| |||||||||||||||||| ||||| ||||| |||||||| ||||| |||||||| || || || ||||  ||  | |||||  |  |||||||  |   | ||| |       ||| |     | |  |   | | |  || |||          |||| | | |  |    | |  |||  |||
GTGAGGCTGAAGCAATTCTTGCAAAGTCTGAAGCAACTGCTCGAGGAATCAGATTGGTCTCTGAGGCCATGAGGACCAAGGGCAGCACTGAGgtatcatgatctgttgagacggtttaatagcgtctacttttg--tgctaagttctgtatcaaacctgtgctcatattcattctctcacttgttttag
















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|32824511|gb|CD964233.1|CD964233
EST:     GTGGAATGAGATTGGTTTCAGATGCGATGACAACTGAAGGCAGTGCCAAG                         GCTGCTAGCCTGAAACTTGCAGAGCAATACATCGAAGCATTCTCAAATCTG
genomic: GTGGAATGAGATTGGTTTCAGATGCGATGACAACTGAAGGCAGTGCCAAGgtatcgagga ... tatgtgctagGCTGCTAGCCTGAAACTTGCAGAGCAATACATCGAAGCATTCTCAAATCTG
EST: gi|32806630|gb|CD958864.1|CD958864
EST:     GTGGAATGAGATTGGTTTCAGATGCGATGACAACTGAAGGCAGTGCCAAG                         GCTGCTAGCCTGAAACTTGCAGAGCAATACATCGAAGCATTCTCAAATCTG
genomic: GTGGAATGAGATTGGTTTCAGATGCGATGACAACTGAAGGCAGTGCCAAGgtatcgagga ... tatgtgctagGCTGCTAGCCTGAAACTTGCAGAGCAATACATCGAAGCATTCTCAAATCTG
EST: gi|50327206|gb|CO522332.1|CO522332
EST:     GTGGAATGAGATTGGTTTCAGATGCGATGACAACTGAAGGCAGTGCCAAG                         GCTGCTAGCCTGAAACTTGCAGAGCAATACATCGAAGCATTCTCAAATCTG
genomic: GTGGAATGAGATTGGTTTCAGATGCGATGACAACTGAAGGCAGTGCCAAGgtatcgagga ... tatgtgctagGCTGCTAGCCTGAAACTTGCAGAGCAATACATCGAAGCATTCTCAAATCTG
EST: gi|5439357|gb|AI820278.1|AI820278
EST:     GTGGAATGAGATTGGTTTCAGATGCGATGACAACTGAAGGCAGTGCCAAG                         GCTGCTAGCCTGAAACTTGCAGAGCAATACATCGAAGCATTCTCAAATCTG
genomic: GTGGAATGAGATTGGTTTCAGATGCGATGACAACTGAAGGCAGTGCCAAGgtatcgagga ... tatgtgctagGCTGCTAGCCTGAAACTTGCAGAGCAATACATCGAAGCATTCTCAAATCTG
EST: gi|32824032|gb|CD963754.1|CD963754
EST:     GTGGAATGAGATTGGTTTCAGATGCGATGACAACTGAAGGCAGTGCCAAG                         GCTGCTAGCCTGAAACTTGCAGAGCAATACATCGAAGCATTCTCAAATCTG
genomic: GTGGAATGAGATTGGTTTCAGATGCGATGACAACTGAAGGCAGTGCCAAGgtatcgagga ... tatgtgctagGCTGCTAGCCTGAAACTTGCAGAGCAATACATCGAAGCATTCTCAAATCTG
EST: gi|87151830|gb|DY396619.1|DY396619
EST:     GTGGAATGAGATTGGTTTCAGATGCGATGACAACTGAAGGCAGTGCCAAG                         GCTGCTAGCCTGAAACTTGCAGAGCAATACATCGAAGCATTCTCAAATCTG
genomic: GTGGAATGAGATTGGTTTCAGATGCGATGACAACTGAAGGCAGTGCCAAGgtatcgagga ... tatgtgctagGCTGCTAGCCTGAAACTTGCAGAGCAATACATCGAAGCATTCTCAAATCTG
EST: gi|89763664|gb|DY690763.1|DY690763
EST:     GTGGAATGAGATTGGTTTCAGATGCGATGACAACTGAAGGCAGTGCCAAG                         GCTGCTAGCCTGAAACTTGCAGAGCAATACATCGAAGCATTCTCAAATCTG
genomic: GTGGAATGAGATTGGTTTCAGATGCGATGACAACTGAAGGCAGTGCCAAGgtatcgagga ... tatgtgctagGCTGCTAGCCTGAAACTTGCAGAGCAATACATCGAAGCATTCTCAAATCTG
EST: gi|32827014|gb|CD966692.1|CD966692
EST:     GTGGAATGAGATTGGTTTCAGATGCGATGACAACTGAAGGCAGTGCCAAG                         GCTGCTAGCCTGAAACTTGCAGAGCAATACATCGAAGCATTCTCAAATCTG
genomic: GTGGAATGAGATTGGTTTCAGATGCGATGACAACTGAAGGCAGTGCCAAGgtatcgagga ... tatgtgctagGCTGCTAGCCTGAAACTTGCAGAGCAATACATCGAAGCATTCTCAAATCTG
EST: gi|32826552|gb|CD966230.1|CD966230
EST:     GTGGAATGAGATTGGTTTCAGATGCGATGACAACTGAAGGCAGTGCCAAG                         GCTGCTAGCCTGAAACTTGCAGAGCAATACATCGAAGCATTCTCAAATCTG
genomic: GTGGAATGAGATTGGTTTCAGATGCGATGACAACTGAAGGCAGTGCCAAGgtatcgagga ... tatgtgctagGCTGCTAGCCTGAAACTTGCAGAGCAATACATCGAAGCATTCTCAAATCTG
EST: gi|32808719|gb|CD960953.1|CD960953
EST:     GTGGAATGAAATTGGTTTCAGATGCGATGACAACTGAAGGCAGTGCCAAG                         GCTGCTAGCCTGAAACTTGCAGAGCAATACATCGAAGCATTCTCAAATCTG
genomic: GTGGAATGAGATTGGTTTCAGATGCGATGACAACTGAAGGCAGTGCCAAGgtatcgagga ... tatgtgctagGCTGCTAGCCTGAAACTTGCAGAGCAATACATCGAAGCATTCTCAAATCTG
EST: gi|32937735|gb|CF042554.1|CF042554
EST:     GACAACTGAAGGCAGTGCCAAG                         GCTGCTAGCCTGAAACTTGCAGAGCAATACATCGAAGCATTCTCAAATCTG
genomic: GACAACTGAAGGCAGTGCCAAGgtatcgagga ... tatgtgctagGCTGCTAGCCTGAAACTTGCAGAGCAATACATCGAAGCATTCTCAAATCTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTGCGGCTGAAGCAATTCTTGCCAAGTCAGAAGCTACTGCTCGTGGAATGAGATTGGTTTCAGATGCGATGACAACTGAAGGCAGTGCCAAGgtatcgaggattcttggctatcaaaatggtactaagtagtagctacaacattttgtgctcttaaatgctaacaatgttatatttatgtgctag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG