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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_T02
intron # 9
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|31356807|gb|CD441164.1|CD441164
EST:     AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAG                         GCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
genomic: AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAGgtgtgttgag ... tatttttcagGCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
EST: gi|149060160|gb|EE157128.2|EE157128
EST:     AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAG                         GCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
genomic: AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAGgtgtgttgag ... tatttttcagGCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
EST: gi|6056687|gb|AW091092.1|AW091092
EST:     AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAG                         GCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
genomic: AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAGgtgtgttgag ... tatttttcagGCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
EST: gi|32801932|gb|CD954168.1|CD954168
EST:     AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAG                         GCCGCAGATAAACTGGCCAAGGAAGGTATCAGTGCCGAG
genomic: AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAGgtgtgttgag ... tatttttcagGCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
EST: gi|110221099|gb|EC902997.1|EC902997
EST:     AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAG                         GCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
genomic: AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAGgtgtgttgag ... tatttttcagGCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
EST: gi|71431245|gb|DR812295.1|DR812295
EST:     AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAG                         GCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
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|31349832|gb|CD434189.1|CD434189
EST:     AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAG                         GCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
genomic: AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAGgtgtgttgag ... tatttttcagGCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
EST: gi|67038743|gb|CO464998.1|CO464998
EST:     AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAG                         GCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
genomic: AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAGgtgtgttgag ... tatttttcagGCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
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|71316610|gb|DR794980.1|DR794980
EST:     CCAAAATGGTGGGATATGCCCTTCAG                         GCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
genomic: CCAAAATGGTGGGATATGCCCTTCAGgtgtgttgag ... tatttttcagGCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
EST: gi|32801690|gb|CD953926.1|CD953926
EST:     AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAG                         GCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
genomic: AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAGgtgtgttgag ... tatttttcagGCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
EST: gi|31349833|gb|CD434190.1|CD434190
EST:     AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAG                         GCCCCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
genomic: AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAGgtgtgttgag ... tatttttcagGCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
EST: gi|6031329|gb|AW076186.1|AW076186
EST:     AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAG                         GCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
genomic: AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAGgtgtgttgag ... tatttttcagGCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
EST: gi|78086374|gb|DV514767.1|DV514767
EST:     AAAATGGTGGGATATGCCCTTCAG                         GCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
genomic: AAAATGGTGGGATATGCCCTTCAGgtgtgttgag ... tatttttcagGCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
EST: gi|78092118|gb|DV520492.1|DV520492
EST:     CAAAATGGTGGGATATGCCCTTCAG                         GCCGCTGATATACTGCCCAAGGAAGGTATCAGTGCCGAG
genomic: CAAAATGGTGGGATATGCCCTTCAGgtgtgttgag ... tatttttcagGCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
EST: gi|60340342|gb|DN207315.1|DN207315
EST:     AAGATGTCACTATCACTGCATTTTCCAAAATGGTGGGATATGCCCTTCAG                         GCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
genomic: AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAGgtgtgttgag ... tatttttcagGCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
EST: gi|32802072|gb|CD954308.1|CD954308
EST:     AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAG                         GCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
genomic: AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAGgtgtgttgag ... tatttttcagGCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
EST: gi|211383123|gb|FL435718.1|FL435718
EST:     AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAG                         GCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
genomic: AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAGgtgtgttgag ... tatttttcagGCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
EST: gi|40336329|gb|CK370399.1|CK370399
EST:     GGGATATGCCCTTCAG                         GCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
genomic: GGGATATGCCCTTCAGgtgtgttgag ... tatttttcagGCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
EST: gi|71432758|gb|DR813808.1|DR813808
EST:     AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAG                         GCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
genomic: AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAGgtgtgttgag ... tatttttcagGCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
EST: gi|44900498|gb|CK827043.1|CK827043
EST:     AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAG                         GCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
genomic: AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAGgtgtgttgag ... tatttttcagGCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
EST: gi|148951825|gb|EC897588.2|EC897588
EST:     GGATATGCCCTTCAG                         GCCGCTGATTATACTGGCCAAGGAAGGTATCAGTGCCGAG
genomic: GGATATGCCCTTCAGgtgtgttgag ... tatttttcagGCCGCTGA-TATACTGGCCAAGGAAGGTATCAGTGCCGAG
EST: gi|60340970|gb|DN207943.1|DN207943
EST:     AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAG                         GCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
genomic: AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAGgtgtgttgag ... tatttttcagGCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
EST: gi|6828052|gb|AW331695.1|AW331695
EST:     AAGATGTCACTATCNCTGCATTCTCCAAAATGGTGGGATATGCCCTTCAG                         GCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
genomic: AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAGgtgtgttgag ... tatttttcagGCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
EST: gi|5566870|gb|AI881781.1|AI881781
EST:     AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAG                         GCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
genomic: AAGATGTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAGgtgtgttgag ... tatttttcagGCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
EST: gi|37378649|gb|CF626026.1|CF626026
EST:     GTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAG                         GCCGCTGATATACTGGCCAAGGAAGGTATCAGTGCCGAG
genomic: GTCACTATCACTGCATTCTCCAAAATGGTGGGATATGCCCTTCAGgtgtgttgag ... 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