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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACCTATATTCTACCTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAGgtatgtatatttgcaattaatacttaccagagttgcattgtttcgttaacaaataagcagagatgtcagtatcctacctaagatgctgatttgctttgaaacatggtagaactaatgctctgtccctcactttgcgtcatgctaatgctattaatgggacttctttcgatcggcag

Basic information

species Zea mays
transcript GRMZM2G105192_T04
intron # 11
splice site 5'
intron type U2

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|16926851|gb|BM079919.1|BM079919
EST:     CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAG                         GTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
genomic: CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAGgtatgtatat ... cgatcggcagGTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
EST: gi|16922011|gb|BM075387.1|BM075387
EST:     CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAG                         GTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
genomic: CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAGgtatgtatat ... cgatcggcagGTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
EST: gi|17929411|gb|BM266371.1|BM266371
EST:     CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAG                         GTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
genomic: CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAGgtatgtatat ... cgatcggcagGTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
EST: gi|110220376|gb|EC902274.1|EC902274
EST:     CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAG                         GTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
genomic: CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAGgtatgtatat ... cgatcggcagGTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
EST: gi|18162838|gb|BM332677.1|BM332677
EST:     CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAG                         GTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
genomic: CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAGgtatgtatat ... cgatcggcagGTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
EST: gi|29544356|gb|CB604736.1|CB604736
EST:     CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAG                         GTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
genomic: CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAGgtatgtatat ... cgatcggcagGTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
EST: gi|17932564|gb|BM269524.1|BM269524
EST:     CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAG                         GTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
genomic: CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAGgtatgtatat ... cgatcggcagGTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
EST: gi|18173199|gb|BM348587.1|BM348587
EST:     CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAG                         GTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
genomic: CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAGgtatgtatat ... cgatcggcagGTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
EST: gi|113700925|gb|EE678429.1|EE678429
EST:     CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAG                         GTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
genomic: CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAGgtatgtatat ... cgatcggcagGTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
EST: gi|18166790|gb|BM336629.1|BM336629
EST:     CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAG                         GTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
genomic: CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAGgtatgtatat ... cgatcggcagGTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
EST: gi|71426676|gb|DR807726.1|DR807726
EST:     CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAG                         GTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
genomic: CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAGgtatgtatat ... cgatcggcagGTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
EST: gi|67019146|gb|CO447895.1|CO447895
EST:     CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAG                         GTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
genomic: CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAGgtatgtatat ... cgatcggcagGTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
EST: gi|4967071|gb|AI691821.1|AI691821
EST:     GGAGAAAAGTGACCTGGCACCAG                         GTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
genomic: GGAGAAAAGTGAGCTGGCACCAGgtatgtatat ... cgatcggcagGTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
EST: gi|110522223|gb|EE026407.1|EE026407
EST:     CTTGCGCGTGCTTTTTAGCAATTTTTAGGAGAAAAGTGAGCTGGCACCAG                         GTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
genomic: CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAGgtatgtatat ... cgatcggcagGTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
EST: gi|91876287|gb|EB406244.1|EB406244
EST:     CTTGCGCGTGCTTTTTAGCAATTTTTAGGAGAAAAGTGAGCTGGCACCAG                         GTAGCAGTATGTTCGTTCTTCTTCGTGGTTGGGGTTTGTTGCGCTTGTGTG
genomic: CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAGgtatgtatat ... cgatcggcagGTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
EST: gi|76288379|gb|DV027947.1|DV027947
EST:     CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAG                         GTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
genomic: CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAGgtatgtatat ... cgatcggcagGTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
EST: gi|71446062|gb|DR827112.1|DR827112
EST:     CTTGCGCGTGCTTTTTAGCAATTTTTAGGAGAAAAGTGAGCTGGCACCAG                         GTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG
genomic: CTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAGgtatgtatat ... cgatcggcagGTAGCAGTATGCTCGTTCATCATCGTGGTTGGGGTTTGCTGCGCTTGTGTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACCTATATTCTACCTTGCGCGTGCTTTTTAGCAATTCTTAGGAGAAAAGTGAGCTGGCACCAGgtatgtatatttgcaattaatacttaccagagttgcattgtttcgttaacaaataagcagagatgtcagtatcctacctaagatgctgatttgctttgaaacatggtagaactaatgctctgtccctcactttgcgtcatgctaatgctattaatgggacttctttcgatcggcag

- - - - - - - - - - - - - - - - - - -  AGGAGA
- - - - - - - - - - - - - - - - - - - - GGAGAA