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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGGAAGATGCTGTTGTAGTTGCAGTTGGCCAACATCGCAGACCTAGCATAGTTCGTCAGTTCACATCAGgtttggtgtttttgttatattttctctcttcattccaatgaaattataattgattcttttgccataagtaaagtattaatggtactaaattttatggttg...

Basic information

species Zea mays
transcript GRMZM2G126266_T02
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G126266_T01 (Zea mays), 5'ss of exon 12
lower sequence: LOC_Os01g70320.1 (Oryza sativa), 5'ss of exon 13
GTGGAAGATGCTGTTGTAGTTGCAGTTGGCCAACATCGCAGACCTAGCATAGTTCGTCAGTTCACATCAGgtttgg--tgtttttgttatattttctc-tcttcattccaatgaaat------tataattgattcttt-----tgccat---------aagtaaagtattaatggtactaaattttatggttg-----
||||||||||||||||| |||||| |||| ||||| || |||||||| |||||||| || |||||||||||||||   |  |||| | || |  | || |  |  ||  | | | ||      ||| |||  ||| ||     |||| |         ||  ||| ||  || |||| |||||| |    ||      
GTGGAAGATGCTGTTGTGGTTGCACTTGGTCAACACCGGAGACCTAGTATAGTTCGGCAATTCACATCAGgtttgcacttcttttatcatttcatatcattcttgtttaacttacatgcgtaatatgatttcttcattggtgctgccttcactcataaaaaaaaactaagaaaggta-taaattcttctcttatgcag
















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|60343443|gb|DN210416.1|DN210416
EST:     TGCAGTTGGCCAACATCGCAGACCTAGCATAGTTCGTCAGTTCACATCAG                         ATTTCAAATCACCTGGTGAACCTAAATACTTGGAGGCATTTG
genomic: TGCAGTTGGCCAACATCGCAGACCTAGCATAGTTCGTCAGTTCACATCAGgtttggtgtt ... tttaatccagATTTCAAATCACCTGGTGAACCTAAATACTTGGAGGCATTTG
EST: gi|37381602|gb|CF627697.1|CF627697
EST:     TGCAGTTGGCCAACATCGCAGACCTAGCATAGTTCGTCAGTTCACATCAG                         ATTTCAAATCACCTGGTGAACCTAAATACTTGGTGGCATTTG
genomic: TGCAGTTGGCCAACATCGCAGACCTAGCATAGTTCGTCAGTTCACATCAGgtttggtgtt ... tttaatccagATTTCAAATCACCTGGTGAACCTAAATACTTGGAGGCATTTG
EST: gi|211120830|gb|FL155533.1|FL155533
EST:     GTCAGTTCACATCAG                         ATTTCAAATCACCTGGTGAACCTAAATACTTGGAGGCATTTG
genomic: GTCAGTTCACATCAGgtttggtgtt ... tttaatccagATTTCAAATCACCTGGTGAACCTAAATACTTGGAGGCATTTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTGGAAGATGCTGTTGTAGTTGCAGTTGGCCAACATCGCAGACCTAGCATAGTTCGTCAGTTCACATCAGgtttggtgtttttgttatattttctctcttcattccaatgaaattataattgattcttttgccataagtaaagtattaatggtactaaattttatggttg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aagtaaag