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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTCAGATTCTATCTGAAGCGTGGGGATATCGAAGTGAAGACCAATTTCTGCACTGTCTCCCGCTGCACCatatccacattgaatgctgttgctatttaaaactttagcactatttttatactgatatttcgtattgcttttgttccaagcccacacatttcttgtggtt...

Basic information

species Zea mays
transcript GRMZM2G460078_T03
intron # 6
splice site 5'
intron type U12 (go to U12 genes for details)

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G460078_T02 (Zea mays), 5'ss of exon 6
lower sequence: LOC_Os01g55590.1 (Oryza sativa), 5'ss of exon 6
GTTCAGATTCTATCTGAAGCGTGGGGATATCGAAGTGAAGACCAATTTCTGCACTGTCTCCCGCTGCACCatatccacattga----atgctgt-tgctatttaaaac-tttagcactat-ttttatactgatatttcgtatt-gcttttgttccaa--gcccacacatttcttgtggtt-----------------------------------------
||||| ||||| || || || |||||||||||||||||||| |||||||||||||||||||| ||||||||||||||||   |    |||||   |||||||| ||    ||||||| || ||||||| | ||   | | ||| | |||   |  ||  |       |       ||  |                                         
GTTCAAATTCTGTCAGAGGCATGGGGATATCGAAGTGAAGATCAATTTCTGCACTGTCTCCCACTGCACCatatccacaaaaagctaatgctaaatgctattttaagtacttagcacaatgttttatagtaatggattgcattagatttccctataattgtttttggaggaaccatgccttcttttgcgagatttattaaggtccttaacttcaaatttac
















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|78111750|gb|DV530147.1|DV530147
EST:     GTGGGGATATCGAAGTGAAGACCAATTTCTGCACTGTCTCCCGCTGCACC                         ATGTGCATGGGCTTTTCAATGCTCTATTTGCGCCCCTT
genomic: GTGGGGATATCGAAGTGAAGACCAATTTCTGCACTGTCTCCCGCTGCACCatatccacat ... tcaagtgtacATGTGCATGGGCTTTTCAATGCTCTATTTGCGCCCCTT
EST: gi|32867327|gb|CF007009.1|CF007009
EST:     GTGGGGATATCGAAGTGAAGACCAATTTCTGCACTGACTCCCGCTGCACC                         ATGTGCATGGGCTTTTCAATGCTCTATTTGCGCCCCTTTATTCAGGATCAG
genomic: GTGGGGATATCGAAGTGAAGACCAATTTCTGCACTGTCTCCCGCTGCACCatatccacat ... tcaagtgtacATGTGCATGGGCTTTTCAATGCTCTATTTGCGCCCCTTTATTCAGGATCAG
EST: gi|14529467|gb|BI096600.1|BI096600
EST:     GTGGGGATATCGAAGTGAAGACCAATTTCTGCACTGTCTCCCGCTGCACC                         ATGTGCATGGGCTTTTCAATGCTCTATTTGCGCCCCTTTATTCAGGATCAG
genomic: GTGGGGATATCGAAGTGAAGACCAATTTCTGCACTGTCTCCCGCTGCACCatatccacat ... tcaagtgtacATGTGCATGGGCTTTTCAATGCTCTATTTGCGCCCCTTTATTCAGGATCAG
EST: gi|93012882|gb|EB638402.1|EB638402
EST:     GTGGGGATATCGAAGTGAAGACCAATTTCTGCACTGTCTCCCGCTGCACC                         ATGTGCATGGGCTTTTCAATGCTCTATTTGCGCCCCTTTATTCAGGATCAG
genomic: GTGGGGATATCGAAGTGAAGACCAATTTCTGCACTGTCTCCCGCTGCACCatatccacat ... tcaagtgtacATGTGCATGGGCTTTTCAATGCTCTATTTGCGCCCCTTTATTCAGGATCAG
EST: gi|76925597|gb|DV170498.1|DV170498
EST:     GTGGGGATATCGAAGTGAAGACCAATTTCTGCACTGTCTCCCGCTGCACC                         ATGTGCATGGGCTTTTNCA-TGCTCTATTTGCGCCCCTTTATT
genomic: GTGGGGATATCGAAGTGAAGACCAATTTCTGCACTGTCTCCCGCTGCACCatatccacat ... tcaagtgtacATGTGCATGGGCTTTT-CAATGCTCTATTTGCGCCCCTTTATT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTCAGATTCTATCTGAAGCGTGGGGATATCGAAGTGAAGACCAATTTCTGCACTGTCTCCCGCTGCACCatatccacattgaatgctgttgctatttaaaactttagcactatttttatactgatatttcgtattgcttttgttccaagcccacacatttcttgtggtt

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