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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGCAGCCCCGCTCGTCGCCTTCCTCCAGAACCCGCAGCTCGTGCAGGAGTTCAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATACCAGgttcgggttctccctactccctctgctcaagtcccgttttcgagacatgtatgtatactttggttggctaggcatgcaggtttgtggaattccgtgttta...

Basic information

species Zea mays
transcript GRMZM2G151549_T01
intron # 1
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|148947189|gb|EC892527.2|EC892527
EST:     TCAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATACCAG                         ATCGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTTT
genomic: TCAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATACCAGgttcgggttc ... accaatgcagATCGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTTT
EST: gi|148988254|gb|EE031628.2|EE031628
EST:     TCAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATACCAG                         ATCGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTTT
genomic: TCAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATACCAGgttcgggttc ... accaatgcagATCGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTTT
EST: gi|29946193|gb|CB816026.1|CB816026
EST:     TCAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATACCAG                         ATCGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTTT
genomic: TCAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATACCAGgttcgggttc ... accaatgcagATCGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTTT
EST: gi|149086591|gb|EE176135.2|EE176135
EST:     TCAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATACCAG                         ATCGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTTT
genomic: TCAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATACCAGgttcgggttc ... accaatgcagATCGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTTT
EST: gi|148945927|gb|EC891220.2|EC891220
EST:     TCAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATACCAG                         ATCGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTTT
genomic: TCAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATACCAGgttcgggttc ... accaatgcagATCGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTTT
EST: gi|71772604|gb|DR970532.1|DR970532
EST:     TCAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATACCAG                         ATCGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTTT
genomic: TCAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATACCAGgttcgggttc ... accaatgcagATCGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTTT
EST: gi|211543296|gb|FL204964.1|FL204964
EST:     TCAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATACCAG                         ATTGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTTT
genomic: TCAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATACCAGgttcgggttc ... accaatgcagATCGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTTT
EST: gi|148932020|gb|EC875324.2|EC875324
EST:     TCAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATACCAG                         ATCGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTTT
genomic: TCAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATACCAGgttcgggttc ... accaatgcagATCGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTTT
EST: gi|31406351|gb|CD485083.1|CD485083
EST:     TCAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATACCAG                         ATCGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTTT
genomic: TCAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATACCAGgttcgggttc ... accaatgcagATCGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTTT
EST: gi|211543294|gb|FL204962.1|FL204962
EST:     TCAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATACCAG                         ATTGGTCCTGA
genomic: TCAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATACCAGgttcgggttc ... accaatgcagATCGGTCCTGA
EST: gi|148942799|gb|EC887829.2|EC887829
EST:     TCAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATACCAG                         ATCGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTTT
genomic: TCAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATACCAGgttcgggttc ... accaatgcagATCGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTTT
EST: gi|211543298|gb|FL204966.1|FL204966
EST:     CAGGCC-GACAAACAGTACAACATCCACATGCTCCAGGAAGCGAYACCAG                         ATCGGTCCTGACCAGA
genomic: CAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGA-GCGATACCAGgttcgggttc ... accaatgcagATCGGTCCTGACCAGA
EST: gi|211543297|gb|FL204965.1|FL204965
EST:     CAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATTACCAG                         ATTGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTT
genomic: CAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGAT-ACCAGgttcgggttc ... accaatgcagATCGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAGTT
EST: gi|211543292|gb|FL204960.1|FL204960
EST:     TCAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATACCAG                         ATTGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGC-AAATTTCAG
genomic: TCAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATACCAGgttcgggttc ... accaatgcagATCGGTCCTGACCAGATTGAAGCTCTGTATCAGTATGCCAAATTTCAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CGCAGCCCCGCTCGTCGCCTTCCTCCAGAACCCGCAGCTCGTGCAGGAGTTCAGGCCCGACAAACAGTACAACATCCACATGCTCCAGGAGCGATACCAGgttcgggttctccctactccctctgctcaagtcccgttttcgagacatgtatgtatactttggttggctaggcatgcaggtttgtggaattccgtgttta

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctccctac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccctctgc