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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGAAGAACGCATATGCTGTTTCAAGGCTGAGGAAGAAAACTGGGTATACCAAAAATCAATTCTACGATCAAGCATTAAAAATATACAAGGAGgtgcgtcttatttatttgttggaaactgctcatataatttaagaagtcagactcagactacattggtgtgagctttagacttgctcgcatgtaccgcaat...

Basic information

species Zea mays
transcript GRMZM2G111713_T01
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G111713_T02 (Zea mays), 5'ss of exon 6
lower sequence: LOC_Os07g45300.1 (Oryza sativa), 5'ss of exon 8
ATGAAGAACGCATATGCTGTTTCAAGGCTGAGGAAGAAAACTGGGTATACCAAAAATCAATTCTACGATCAAGCATTAAAAATATACAAGGAGgtgcgtcttatttatttgtt-ggaaactgctcatataatttaagaagtcag---actcagactacattggtgtgagctttagacttgctcgcatgtaccgcaat
|||||||| ||||||||||| |||||  |||| |||||||| || |||||||||||  ||||||| ||||||||||| || |||||||||||||| | | |  ||||| | || ||||||     ||| || |  |  | ||     | |  || |||| |    |  | || ||  || |  |||  || |     
ATGAAGAATGCATATGCTGTGTCAAGATTGAGAAAGAAAACAGGCTATACCAAAAAGGAATTCTATGATCAAGCATTCAAGATATACAAGGAGgtacatttcctttatctcttaggaaaccaaatatacaagtagaataatctaagcattttgattacacttacataggtttcaggtttccatgcagatatca----
















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|211177445|gb|FL359118.1|FL359118
EST:     GGTATACCAAAAATCAATTCTACGATCAAGCATTAAAAATATACAAGGAG                         GTTAACACTTTGATGGCACATGGAGACACATCATCGCTTCGGAAAATTCTG
genomic: GGTATACCAAAAATCAATTCTACGATCAAGCATTAAAAATATACAAGGAGgtgcgtctta ... cttgattcagGTTAACACTTTGATGGCACATGGAGACACATCATCGCTTCGGAAAATTCTG
EST: gi|4827723|gb|AI668415.1|AI668415
EST:     TCAAGCATTAAAAATAT-CAAGGAG                         GTTAACACTTTGATGGCACATGGAGACACATCATCGCTTCGGAAAATTCTG
genomic: TCAAGCATTAAAAATATACAAGGAGgtgcgtctta ... cttgattcagGTTAACACTTTGATGGCACATGGAGACACATCATCGCTTCGGAAAATTCTG
EST: gi|71443106|gb|DR824156.1|DR824156
EST:     GGTATACCAAAAATCAATTCTACGATCAAGCATTAAAAATATACAAGGAG                         GTTAACACTTTGATGGCACATGGAGACACATCATCGCTTCGGAAAATTCTG
genomic: GGTATACCAAAAATCAATTCTACGATCAAGCATTAAAAATATACAAGGAGgtgcgtctta ... cttgattcagGTTAACACTTTGATGGCACATGGAGACACATCATCGCTTCGGAAAATTCTG
EST: gi|50337823|gb|CO532949.1|CO532949
EST:     GGTATACCAAAAATCAATTCTACGATCAAGCATTAAAAATATACAAGGAG                         GTTAACACTTTGATGGCACATGGAGACACATCATCGCTT
genomic: GGTATACCAAAAATCAATTCTACGATCAAGCATTAAAAATATACAAGGAGgtgcgtctta ... cttgattcagGTTAACACTTTGATGGCACATGGAGACACATCATCGCTT
EST: gi|101389514|gb|EB816695.1|EB816695
EST:     GGTATACCAAAAATCAATTCTACGATCAAGCATTAAAAATATACAAGGAG                         GTTAACACTTTGATGGCACATGGAGACACATCATCGCTTCGGAAAATTCTG
genomic: GGTATACCAAAAATCAATTCTACGATCAAGCATTAAAAATATACAAGGAGgtgcgtctta ... cttgattcagGTTAACACTTTGATGGCACATGGAGACACATCATCGCTTCGGAAAATTCTG
EST: gi|89248722|gb|DY620508.1|DY620508
EST:     ATTAAAAATATACAAGGAG                         GTTAACACTTTGATGGCACATGGAGACACATCATCGCTTCGGAAAATTCTG
genomic: ATTAAAAATATACAAGGAGgtgcgtctta ... cttgattcagGTTAACACTTTGATGGCACATGGAGACACATCATCGCTTCGGAAAATTCTG
EST: gi|71420007|gb|DR804974.1|DR804974
EST:     CAAAAATCAATTCTACGATCAAGCATTAAAAATATACAAGGAG                         GTTAACACTTTGATGGCACATGGAGACACATCATCGCTTCGGAAAATTCTG
genomic: CAAAAATCAATTCTACGATCAAGCATTAAAAATATACAAGGAGgtgcgtctta ... cttgattcagGTTAACACTTTGATGGCACATGGAGACACATCATCGCTTCGGAAAATTCTG
EST: gi|61119623|gb|DN560584.1|DN560584
EST:     GGTATACCAAAAATCAATTCTACGATCAAGCATTAAAAATATACAAGGAG                         GTTAACACTTTGATGGCACATGGAGACACATCATCGCTTCGGAAAATTCTG
genomic: GGTATACCAAAAATCAATTCTACGATCAAGCATTAAAAATATACAAGGAGgtgcgtctta ... cttgattcagGTTAACACTTTGATGGCACATGGAGACACATCATCGCTTCGGAAAATTCTG
EST: gi|211237149|gb|FL440871.1|FL440871
EST:     GGTATACCAAAAATCAATTCTACGATCAAGCATTAAAAATATACAAGGAG                         GTTAACACTTTGATGGCACATGGAGACACATCATCGCTTCGGAAAATTCTG
genomic: GGTATACCAAAAATCAATTCTACGATCAAGCATTAAAAATATACAAGGAGgtgcgtctta ... cttgattcagGTTAACACTTTGATGGCACATGGAGACACATCATCGCTTCGGAAAATTCTG
EST: gi|89758224|gb|DY687488.1|DY687488
EST:     GGTATACCAAAAATCAATTCTACGATCAAGCATTAAAAATATACAAGGAG                         GTTAACACTTTGATGGCACATGGAGACACATCATCGCTTCGGAAAATTCTG
genomic: GGTATACCAAAAATCAATTCTACGATCAAGCATTAAAAATATACAAGGAGgtgcgtctta ... cttgattcagGTTAACACTTTGATGGCACATGGAGACACATCATCGCTTCGGAAAATTCTG
EST: gi|88758133|gb|DY542274.1|DY542274
EST:     GGTATACCAAAAATCAATTCTACGATCAAGCATTAAAAATATACAAGGAG                         GTTAACACTTTGATGGCACATGGAGACACATCATCGCTTCGGAAAATTCTG
genomic: GGTATACCAAAAATCAATTCTACGATCAAGCATTAAAAATATACAAGGAGgtgcgtctta ... cttgattcagGTTAACACTTTGATGGCACATGGAGACACATCATCGCTTCGGAAAATTCTG
EST: gi|166679809|gb|EG146008.1|EG146008
EST:     GGTATACCAAAAATCAATTCTACGATCAAGCATTAAAAATATACAAGGAG                         GTTAACACTTTGATGGCACATGGAGACACATCATCGCTTCGGAAAATTCTG
genomic: GGTATACCAAAAATCAATTCTACGATCAAGCATTAAAAATATACAAGGAGgtgcgtctta ... cttgattcagGTTAACACTTTGATGGCACATGGAGACACATCATCGCTTCGGAAAATTCTG
EST: gi|148938688|gb|EC883024.2|EC883024
EST:     GGTATACCAAAAATCAATTCTACGATCAAGCATTAAAAATATACAAGGAG                         GTTAACACTTTGATGGCACATGGAGACACATCATCGCTTCGGAAAATTCTG
genomic: GGTATACCAAAAATCAATTCTACGATCAAGCATTAAAAATATACAAGGAGgtgcgtctta ... cttgattcagGTTAACACTTTGATGGCACATGGAGACACATCATCGCTTCGGAAAATTCTG
EST: gi|71420010|gb|DR804975.1|DR804975
EST:     GGTATACCAAAAATCAATTCTACGATCAAGCATTAAAAATATACAAGGAG                         GTTAACACTTTGATGGCACATGGAGACACATCATCGCTTCGGAAA-TTCTG
genomic: GGTATACCAAAAATCAATTCTACGATCAAGCATTAAAAATATACAAGGAGgtgcgtctta ... cttgattcagGTTAACACTTTGATGGCACATGGAGACACATCATCGCTTCGGAAAATTCTG
EST: gi|148989211|gb|EE031705.2|EE031705
EST:     GGTATACCAAAAATCAATTCTACGATCAAGCATTAAAAATATACAAGGAG                         GTTAACACTTTGATGGCACATGGAGACACATCATCGCTTCGGGAAATTCTG
genomic: GGTATACCAAAAATCAATTCTACGATCAAGCATTAAAAATATACAAGGAGgtgcgtctta ... cttgattcagGTTAACACTTTGATGGCACATGGAGACACATCATCGCTTCGGAAAATTCTG
EST: gi|32913045|gb|CF017857.1|CF017857
EST:     GGTATACCAAAAATCAATTCTACGATCAAGCATTAAAAATATACAAGGAG                         GTTAACACTTTGATGGCACATGGAGACACATCATCGCTTCGGAAAATTCTG
genomic: GGTATACCAAAAATCAATTCTACGATCAAGCATTAAAAATATACAAGGAGgtgcgtctta ... cttgattcagGTTAACACTTTGATGGCACATGGAGACACATCATCGCTTCGGAAAATTCTG
EST: gi|76923558|gb|DV169546.1|DV169546
EST:     GGTATACCAAAAATCAATTCTACGATCAAGCATTAAAAATATACAAGGAG                         GTTAACACTTTGATGGCACATGGAGACACATCATCGCTTCGGAAAATTCTG
genomic: GGTATACCAAAAATCAATTCTACGATCAAGCATTAAAAATATACAAGGAGgtgcgtctta ... cttgattcagGTTAACACTTTGATGGCACATGGAGACACATCATCGCTTCGGAAAATTCTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATGAAGAACGCATATGCTGTTTCAAGGCTGAGGAAGAAAACTGGGTATACCAAAAATCAATTCTACGATCAAGCATTAAAAATATACAAGGAGgtgcgtcttatttatttgttggaaactgctcatataatttaagaagtcagactcagactacattggtgtgagctttagacttgctcgcatgtaccgcaat

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG