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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttaatctcctcacttggaacacatttcttgcactgcctcccacattcatgcacagagttggttgatgtctgtgaatgaagagcgcttagaaggagttttcttcttgccgatcacaactacgtcatcaagacatctctcaattggttatccctatgaatctttcagGCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAGACCAAGGATAATTGGAGAGGTTGAGGACACCCATGGCCGCCACTAGTCT

Basic information

species Zea mays
transcript GRMZM2G031825_T03
intron # 6
splice site 3'
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|32846652|gb|CD986333.1|CD986333
EST:     ACGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAG                         GCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
genomic: ATGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAGgttaatctcc ... aatctttcagGCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
EST: gi|32932226|gb|CF037038.1|CF037038
EST:     ACGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAG                         GCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
genomic: ATGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAGgttaatctcc ... aatctttcagGCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
EST: gi|32799175|gb|CD951411.1|CD951411
EST:     ACGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAG                         GCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
genomic: ATGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAGgttaatctcc ... aatctttcagGCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
EST: gi|33103853|gb|CF063813.1|CF063813
EST:     ATGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAG                         GCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
genomic: ATGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAGgttaatctcc ... aatctttcagGCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
EST: gi|84976888|gb|DW475310.1|DW475310
EST:     ACGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAG                         GCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
genomic: ATGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAGgttaatctcc ... aatctttcagGCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
EST: gi|101386171|gb|EB815126.1|EB815126
EST:     ATGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAG                         GCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
genomic: ATGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAGgttaatctcc ... aatctttcagGCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
EST: gi|60357818|gb|DN224791.1|DN224791
EST:     ATGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAG                         GCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
genomic: ATGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAGgttaatctcc ... aatctttcagGCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
EST: gi|32930224|gb|CF035036.1|CF035036
EST:     ACGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAG                         GCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
genomic: ATGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAGgttaatctcc ... aatctttcagGCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
EST: gi|71773157|gb|DR971070.1|DR971070
EST:     ATGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAG                         GCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
genomic: ATGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAGgttaatctcc ... aatctttcagGCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
EST: gi|60343728|gb|DN210701.1|DN210701
EST:     ATGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAG                         GCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
genomic: ATGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAGgttaatctcc ... aatctttcagGCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
EST: gi|67033911|gb|CO462660.1|CO462660
EST:     ATGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAG                         GCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
genomic: ATGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAGgttaatctcc ... aatctttcagGCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
EST: gi|7138069|gb|AW499414.1|AW499414
EST:     ACGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAG                         GCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
genomic: ATGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAGgttaatctcc ... aatctttcagGCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
EST: gi|60345729|gb|DN212702.1|DN212702
EST:     ATGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAG                         GCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
genomic: ATGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAGgttaatctcc ... aatctttcagGCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
EST: gi|211460283|gb|FL454155.1|FL454155
EST:     ATGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAG                         GCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGATAGAGGTCAGGAAG
genomic: ATGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAGgttaatctcc ... aatctttcagGCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
EST: gi|74233977|gb|DT641891.1|DT641891
EST:     ATGAGTTTGAGATAAATACTTTCATGCGTGTTGATTTACCAGAAATACAG                         GCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
genomic: ATGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAGgttaatctcc ... aatctttcagGCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
EST: gi|50333309|gb|CO528435.1|CO528435
EST:     ATGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAG                         GCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
genomic: ATGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAGgttaatctcc ... aatctttcagGCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
EST: gi|211048852|gb|FL416946.1|FL416946
EST:     ATGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAG                         GCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
genomic: ATGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAGgttaatctcc ... aatctttcagGCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
EST: gi|76285780|gb|DV025348.1|DV025348
EST:     ATGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAG                         GCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
genomic: ATGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAGgttaatctcc ... aatctttcagGCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
EST: gi|32800109|gb|CD952345.1|CD952345
EST:     TCGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAG                         GCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGTAG
genomic: T-GAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAGgttaatctcc ... aatctttcagGCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
EST: gi|86466772|gb|DY233142.1|DY233142
EST:     ATGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAG                         GCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
genomic: ATGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAGgttaatctcc ... aatctttcagGCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
EST: gi|32931268|gb|CF036080.1|CF036080
EST:     ACGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAG                         GCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
genomic: ATGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAGgttaatctcc ... aatctttcagGCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
EST: gi|16379654|gb|BI993079.1|BI993079
EST:     TTTCATGCGTGTTGATCTACCAGAAATACAG                         GCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
genomic: TTTCATGCGTGTTGATCTACCAGAAATACAGgttaatctcc ... aatctttcagGCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
EST: gi|13515788|gb|BG518064.1|BG518064
EST:     ATGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAG                         GCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
genomic: ATGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAGgttaatctcc ... aatctttcagGCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
EST: gi|194716841|gb|FK934000.1|FK934000
EST:     ACGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAG                         GCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
genomic: ATGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAGgttaatctcc ... aatctttcagGCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
EST: gi|28982871|gb|BQ538319.2|BQ538319
EST:     ATGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAG                         GCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
genomic: ATGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAGgttaatctcc ... aatctttcagGCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
EST: gi|32924269|gb|CF029081.1|CF029081
EST:     ACGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAG                         GCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGA-G
genomic: ATGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAGgttaatctcc ... aatctttcagGCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
EST: gi|60346352|gb|DN213325.1|DN213325
EST:     ATGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAG                         GCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
genomic: ATGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAGgttaatctcc ... aatctttcagGCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
EST: gi|32931486|gb|CF036298.1|CF036298
EST:     ACGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAG                         GCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
genomic: ATGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAGgttaatctcc ... aatctttcagGCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
EST: gi|32932414|gb|CF037226.1|CF037226
EST:     ACGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAG                         GCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
genomic: ATGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAGgttaatctcc ... aatctttcagGCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
EST: gi|50333308|gb|CO528434.1|CO528434
EST:     ATGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAG                         GCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
genomic: ATGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAGgttaatctcc ... aatctttcagGCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
EST: gi|32868203|gb|CF007885.1|CF007885
EST:     ACGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAG                         GCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
genomic: ATGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAGgttaatctcc ... aatctttcagGCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
EST: gi|71429897|gb|DR810947.1|DR810947
EST:     ATGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAG                         GCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
genomic: ATGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAGgttaatctcc ... aatctttcagGCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
EST: gi|32826625|gb|CD966303.1|CD966303
EST:     ACGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAG                         GCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG
genomic: ATGAGTTTGAGATAAATACTTTCATGCGTGTTGATCTACCAGAAATACAGgttaatctcc ... aatctttcagGCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcacaactacgtcatcaagacatctctcaattggttatccctatgaatctttcagGCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAGACCAAGGATAATTGGAGAGGTTGAGGACACCCATGGCCGCCACTAGTCT
                                               tctttc  CT-rich tract
                                         tatgaat  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttaatctcctcacttggaacacatttcttgcactgcctcccacattcatgcacagagttggttgatgtctgtgaatgaagagcgcttagaaggagttttcttcttgccgatcacaactacgtcatcaagacatctctcaattggttatccctatgaatctttcagGCGAAATTCAGTGTCAACTCTCCAGTTGAAGCAATGAGAGAGGTCAGGAAGACCAAGGATAATTGGAGAGGTTGAGGACACCCATGGCCGCCACTAGTCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGAGG