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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTATGGCGATGGAATCCCAAGCGGAGGCACTCGGCCAATTAGCAACTGACGATCTAGAAGGAAAGgtaaaaatgaacatttacaaggcagtcataagtacttgccttgatctaatgacacatgactacctgtatttatcggtgacag

Basic information

species Zea mays
transcript GRMZM2G024607_T02
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G024607_T02 (Zea mays), 5'ss of exon 8
lower sequence: LOC_Os01g67000.1 (Oryza sativa), 5'ss of exon 9
TTATGGCGATGGAATCCCAAGCGGAGGCACTCGGCCAATTAGCAACTGACGATCTAGAAGGAAAGgtaaaaatga--acatttacaaggcagtcataagtac--ttgccttgatctaatgacacatgactacctgtatttatcggtg-acag
||||||| ||||| |||||||| ||||||||||| || || |||||||| ||||| ||||||||||||||  |||     |  || |     || |   ||    ||   | ||   ||||    |||       |||||||  ||| ||||
TTATGGCAATGGAGTCCCAAGCAGAGGCACTCGGTCAGTTGGCAACTGATGATCTTGAAGGAAAGgtaaatttgacattgtggactaaattttcgtggatatcactgaggtaattagatgatc--tgatcgttgttatttatttgtgcacag
















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|149100940|gb|EE187037.2|EE187037
EST:     CCCAAGCGGAGGCACTCGGCCAATTAGCAACTGACGATTTAGAAGGAAAG                         TTTGCACTGCTCGAGAATTCATCTGTCGATGATGATCTTTCACAGCTGAAA
genomic: CCCAAGCGGAGGCACTCGGCCAATTAGCAACTGACGATCTAGAAGGAAAGgtaaaaatga ... tcggtgacagTTTGCACTGCTCGAGAATTCATCTGTCGATGATGATCTTTCACAGCTGAAA
EST: gi|12968198|gb|BG265144.1|BG265144
EST:     CCCAAGCGGAGGCACTCGGCCAATTAGCAACTGACGATCTAGAAGGAAAG                         TTTGCACTGCTCGAGAATTCATCTGTCGATGATGATCTTTCACAGCTGAAA
genomic: CCCAAGCGGAGGCACTCGGCCAATTAGCAACTGACGATCTAGAAGGAAAGgtaaaaatga ... tcggtgacagTTTGCACTGCTCGAGAATTCATCTGTCGATGATGATCTTTCACAGCTGAAA
EST: gi|91871493|gb|EB401450.1|EB401450
EST:     CCCAAGCGGAGGCACTCGGCCAATTAGCAACTGACGATCTAGAAGGAAAG                         TTTGCACTGCTCGAGAATTCATCTGTCGATGATGATCTTTCACAGCTGAAA
genomic: CCCAAGCGGAGGCACTCGGCCAATTAGCAACTGACGATCTAGAAGGAAAGgtaaaaatga ... tcggtgacagTTTGCACTGCTCGAGAATTCATCTGTCGATGATGATCTTTCACAGCTGAAA
EST: gi|93014683|gb|EB640203.1|EB640203
EST:     CCCAAGCGGAGGCACTCGGCCAATTAGCAACTGACGATCTAGAAGGAAAG                         TTTGCACTGCTCGAGAATTCATCTGTCGATGATGATCTTTCACAGCTGAAA
genomic: CCCAAGCGGAGGCACTCGGCCAATTAGCAACTGACGATCTAGAAGGAAAGgtaaaaatga ... tcggtgacagTTTGCACTGCTCGAGAATTCATCTGTCGATGATGATCTTTCACAGCTGAAA
EST: gi|18181120|gb|BM382330.1|BM382330
EST:     CAATTAGCAACTGACGATCTAGAAGGAAAG                         TTTGCACTGCTCGAGAATTCATCTGTCGATGATGATCTTTCACAGCTGAAA
genomic: CAATTAGCAACTGACGATCTAGAAGGAAAGgtaaaaatga ... tcggtgacagTTTGCACTGCTCGAGAATTCATCTGTCGATGATGATCTTTCACAGCTGAAA
EST: gi|71305008|gb|DR788642.1|DR788642
EST:     CCCAAGCGGAGGCACTCGGCCAATTAGCAACTGACGATCTAGAAGGAAAG                         TTTGCACTGCTCGAGAATTCATCTGTCGATGATGATCTTTCACAGCTGAAA
genomic: CCCAAGCGGAGGCACTCGGCCAATTAGCAACTGACGATCTAGAAGGAAAGgtaaaaatga ... tcggtgacagTTTGCACTGCTCGAGAATTCATCTGTCGATGATGATCTTTCACAGCTGAAA
EST: gi|166666073|gb|EG148167.1|EG148167
EST:     GGCACTCGGCCAATTAGCAACTGACGATCTAGAA-GAAAG                         TTTGCACTGCTCGAGAATTCATCTGTCGATGATGATCTTTCACAGCTGAAA
genomic: GGCACTCGGCCAATTAGCAACTGACGATCTAGAAGGAAAGgtaaaaatga ... tcggtgacagTTTGCACTGCTCGAGAATTCATCTGTCGATGATGATCTTTCACAGCTGAAA
EST: gi|211451250|gb|FL460019.1|FL460019
EST:     CCCAAGCGGAGGCACTCGGCCAATTAGCAACTGACGATCTAGAAGGAAAG                         TTTGCACTGCTCGAGAATTCATCTGTCGATGATGATCTTTCACAGCTGAAA
genomic: CCCAAGCGGAGGCACTCGGCCAATTAGCAACTGACGATCTAGAAGGAAAGgtaaaaatga ... tcggtgacagTTTGCACTGCTCGAGAATTCATCTGTCGATGATGATCTTTCACAGCTGAAA
EST: gi|13515732|gb|BG518008.1|BG518008
EST:     GATCTAGAAGGAAAG                         TTTGCACTGCTCGAGAATTCATCTGTCGATGATGATCTTTCACAGCTGAAA
genomic: GATCTAGAAGGAAAGgtaaaaatga ... tcggtgacagTTTGCACTGCTCGAGAATTCATCTGTCGATGATGATCTTTCACAGCTGAAA
EST: gi|101384475|gb|EB814282.1|EB814282
EST:     CCCAAGCGGAGGCACTCGGCCAATTAGCAATTGACGATCTAGAAGGAAAG                         TTTGCACTGCTCGAGAATTCATCTGTCGATGATGATCTTTCACAGCTGAAA
genomic: CCCAAGCGGAGGCACTCGGCCAATTAGCAACTGACGATCTAGAAGGAAAGgtaaaaatga ... tcggtgacagTTTGCACTGCTCGAGAATTCATCTGTCGATGATGATCTTTCACAGCTGAAA
EST: gi|7227757|gb|AW566398.1|AW566398
EST:     CCCAAGCGGAGGCACTCGGCCAATTAGCAACTGACGATCTAGAAGGAAAG                         TTTGCACTGCTCGAGAATTCATCTGTCGATGATGATCTTTCACAGCTGAAA
genomic: CCCAAGCGGAGGCACTCGGCCAATTAGCAACTGACGATCTAGAAGGAAAGgtaaaaatga ... tcggtgacagTTTGCACTGCTCGAGAATTCATCTGTCGATGATGATCTTTCACAGCTGAAA
EST: gi|94474385|gb|EB703343.1|EB703343
EST:     CCCAAGCGGAGGCACTCGGCCAATTAGCAACTGACGATCTAGAAGGAAAG                         TTTGCACTGCTCGAGAATTCATCTGTCGATGATGATCTTTCACAGCTGAAA
genomic: CCCAAGCGGAGGCACTCGGCCAATTAGCAACTGACGATCTAGAAGGAAAGgtaaaaatga ... tcggtgacagTTTGCACTGCTCGAGAATTCATCTGTCGATGATGATCTTTCACAGCTGAAA
EST: gi|60345847|gb|DN212820.1|DN212820
EST:     CCCAAGCGGAGGCACTCGGCCAATTAGCAACTGACGATCTAGAAGGAAAG                         TTTGCACTGCTCGAGAATTCATCTGTCGATGATGATCTTTCACAGCTGAAA
genomic: CCCAAGCGGAGGCACTCGGCCAATTAGCAACTGACGATCTAGAAGGAAAGgtaaaaatga ... tcggtgacagTTTGCACTGCTCGAGAATTCATCTGTCGATGATGATCTTTCACAGCTGAAA
EST: gi|18171522|gb|BM341362.1|BM341362
EST:     CCCAAGCGGAGGCACTCGGCCAATTAGCAACTGACGATCTAGAAGGAAAG                         TTTGCACTGCTCGAGAATTCATCTGTCGATGATGATCTTTCACAGCTGAAA
genomic: CCCAAGCGGAGGCACTCGGCCAATTAGCAACTGACGATCTAGAAGGAAAGgtaaaaatga ... tcggtgacagTTTGCACTGCTCGAGAATTCATCTGTCGATGATGATCTTTCACAGCTGAAA

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTATGGCGATGGAATCCCAAGCGGAGGCACTCGGCCAATTAGCAACTGACGATCTAGAAGGAAAGgtaaaaatgaacatttacaaggcagtcataagtacttgccttgatctaatgacacatgactacctgtatttatcggtgacag

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