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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATAGAGCGACAAGGGAAAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAGgtgtgttgagtgcagatttcttaggccgatggaagaattttgtcaatgcttatacgtgttgacttacattattgtccatacaatttatagttatttgaat...

Basic information

species Zea mays
transcript GRMZM2G043198_T03
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G043198_T02 (Zea mays), 5'ss of exon 9
lower sequence: LOC_Os08g42410.2 (Oryza sativa), 5'ss of exon 8
ATAGAGCGACAAGGGAAAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAGgtgtgttgagtgcagattt-cttaggccgatggaagaattttgtcaatgct-----tatacgtgttgacttacattattgtccatacaatttatagttatttgaat
||||||| | |||| |||||||| || || || ||||||||||| ||||| |||||||| |||||||||||| ||   ||||||| |||| || || | |  |  | |   || | |     ||       ||  || ||| | |      |    |||||  | ||     
ATAGAGCAAGAAGGAAAAGATGTTACAATTACCGCATTCTCCAAGATGGTCGGATATGCTCTTCAGgtgtgtggataccagattttcttaagctgaagaattatgtctaataacggtgtctctagtgacactggtttccatcagtaatt-caggtcttatacctgtt-----
















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|149112130|gb|EE191255.2|EE191255
EST:     AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAC                         GCCGCTGATATACTGGCCAAG
genomic: AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAGgtgtgttgag ... tatttttcagGCCGCTGATATACTGGCCAAG
EST: gi|211087670|gb|FL396337.1|FL396337
EST:     AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAG                         GCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
genomic: AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAGgtgtgttgag ... tatttttcagGCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
EST: gi|211325794|gb|FL399616.1|FL399616
EST:     AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAG                         GCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
genomic: AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAGgtgtgttgag ... tatttttcagGCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
EST: gi|6056687|gb|AW091092.1|AW091092
EST:     AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAG                         GCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
genomic: AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAGgtgtgttgag ... tatttttcagGCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
EST: gi|60352148|gb|DN219121.1|DN219121
EST:     AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAG                         GCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
genomic: AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAGgtgtgttgag ... tatttttcagGCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
EST: gi|32801932|gb|CD954168.1|CD954168
EST:     AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAG                         GCCGCAGATAAACTGGCCAAGGAAGGTATCAGTGCCGAG
genomic: AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAGgtgtgttgag ... tatttttcagGCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
EST: gi|148928998|gb|EC874173.2|EC874173
EST:     AAGATGTCACTATCCCTGCATTCTCCAAAATGGTGGGATATGCCCTTCAG                         GCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
genomic: AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAGgtgtgttgag ... tatttttcagGCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
EST: gi|32788226|gb|CD940462.1|CD940462
EST:     AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAG                         GCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
genomic: AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAGgtgtgttgag ... tatttttcagGCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
EST: gi|76282095|gb|DV021663.1|DV021663
EST:     AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAG                         GCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
genomic: AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAGgtgtgttgag ... tatttttcagGCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
EST: gi|67038743|gb|CO464998.1|CO464998
EST:     AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAG                         GCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
genomic: AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAGgtgtgttgag ... tatttttcagGCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
EST: gi|211454584|gb|FL410342.1|FL410342
EST:     AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAG                         GCCGCTGATAT
genomic: AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAGgtgtgttgag ... tatttttcagGCCGCTGATAT
EST: gi|60396979|gb|DN229798.1|DN229798
EST:     AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAG                         GCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
genomic: AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAGgtgtgttgag ... tatttttcagGCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
EST: gi|463331|gb|T18298.1|T18298
EST:     AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTNAG                         GCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
genomic: AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAGgtgtgttgag ... tatttttcagGCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
EST: gi|32801690|gb|CD953926.1|CD953926
EST:     AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAG                         GCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
genomic: AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAGgtgtgttgag ... tatttttcagGCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
EST: gi|6031329|gb|AW076186.1|AW076186
EST:     AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAG                         GCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
genomic: AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAGgtgtgttgag ... tatttttcagGCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
EST: gi|32802072|gb|CD954308.1|CD954308
EST:     AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAG                         GCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
genomic: AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAGgtgtgttgag ... tatttttcagGCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
EST: gi|60672217|gb|DN474985.1|DN474985
EST:     AAGNTGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAG                         GCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
genomic: AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAGgtgtgttgag ... tatttttcagGCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
EST: gi|31354921|gb|CD439278.1|CD439278
EST:     AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAG                         GCCGCTGATATACTGGC
genomic: AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAGgtgtgttgag ... tatttttcagGCCGCTGATATACTGGC
EST: gi|14206753|gb|BG840431.1|BG840431
EST:     AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAG                         GCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
genomic: AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAGgtgtgttgag ... tatttttcagGCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
EST: gi|211231538|gb|FL370980.1|FL370980
EST:     AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAG                         GCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
genomic: AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAGgtgtgttgag ... tatttttcagGCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
EST: gi|211275651|gb|FL423569.1|FL423569
EST:     AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAG                         GCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAR
genomic: AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAGgtgtgttgag ... tatttttcagGCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
EST: gi|211126332|gb|FL371833.1|FL371833
EST:     AAGATGTCACTATCACTGCATTCTCCAAAATGGTTGGATATGCCCTTCAG                         GCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
genomic: AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAGgtgtgttgag ... tatttttcagGCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
EST: gi|6828052|gb|AW331695.1|AW331695
EST:     AAGATGTCACTATCNCTGCATTCTCCAAAATGGTGGGATATGCCCTTCAG                         GCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
genomic: AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAGgtgtgttgag ... tatttttcagGCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
EST: gi|60340970|gb|DN207943.1|DN207943
EST:     AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAG                         GCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
genomic: AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAGgtgtgttgag ... tatttttcagGCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
EST: gi|5566870|gb|AI881781.1|AI881781
EST:     AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAG                         GCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
genomic: AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAGgtgtgttgag ... tatttttcagGCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
EST: gi|44900498|gb|CK827043.1|CK827043
EST:     AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAG                         GCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
genomic: AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAGgtgtgttgag ... tatttttcagGCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATAGAGCGACAAGGGAAAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAGgtgtgttgagtgcagatttcttaggccgatggaagaattttgtcaatgcttatacgtgttgacttacattattgtccatacaatttatagttatttgaat

- - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - TGGTGG