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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCGGGGCATCCCTGTTCTAAATGAAGATGGAAATATCATCAGTGACATCCGCAGTGGTAAAGCTGCAGATATAGCTTCTCATTCAGAGgtatttgctttgacaaataaaatttgagtatttggctatctttgtaggcttgtagcacactactttggataattgtatgatactccattaacgaagctag...

Basic information

species Zea mays
transcript GRMZM2G111614_T01
intron # 9
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|78026945|gb|DV495332.1|DV495332
EST:     TCAGTGACATCCGCAGTGGTAAAGCTGCAGATATAGCTTCTCATTCAGAG                         ACCTCCAATGGCAAGAGCAAATGCACCCTTTGTCTCAGCATCCGGCAAAAT
genomic: TCAGTGACATCCGCAGTGGTAAAGCTGCAGATATAGCTTCTCATTCAGAGgtatttgctt ... taatgttcagACCTCCAATGGCAAGAGCAAATGCACCCTTTGTCTCAGCATCCGGCAAAAT
EST: gi|78027265|gb|DV495652.1|DV495652
EST:     CAGTGACATCCGCAGTGGTAAAGCTGCAGGATATAGCTTCTCATTCAGAG                         ACCTCCAATGGCAAGAGCAAATGCACCCTTTGTCTCAGCATCCGGCAAAAT
genomic: CAGTGACATCCGCAGTGGTAAAGCTGCA-GATATAGCTTCTCATTCAGAGgtatttgctt ... taatgttcagACCTCCAATGGCAAGAGCAAATGCACCCTTTGTCTCAGCATCCGGCAAAAT
EST: gi|211263166|gb|FL356033.1|FL356033
EST:     TCAGTGACATCCGCAGTGGTAAAGCTGCAGATATAGCTTCTCATTCAGAG                         ACCTCCAATGGCAAGAGCAAATGCACCCTTTGTCTCAGCATCCGGCAAAAT
genomic: TCAGTGACATCCGCAGTGGTAAAGCTGCAGATATAGCTTCTCATTCAGAGgtatttgctt ... taatgttcagACCTCCAATGGCAAGAGCAAATGCACCCTTTGTCTCAGCATCCGGCAAAAT
EST: gi|78111108|gb|DV529505.1|DV529505
EST:     TCAGTGACATCCGCAGTGGTAAAGCTGCAGATATAGCTTCTCATTCAGAG                         ACCTCCAATGGCAAGAGCAAATGCACCCTTTGTCTCAGCATCCGGCAAAAT
genomic: TCAGTGACATCCGCAGTGGTAAAGCTGCAGATATAGCTTCTCATTCAGAGgtatttgctt ... taatgttcagACCTCCAATGGCAAGAGCAAATGCACCCTTTGTCTCAGCATCCGGCAAAAT
EST: gi|78026036|gb|DV494423.1|DV494423
EST:     TCAGTGACATCCGCAGTGGAAAAGCTGCAGATATAGCTTCTCATTCAGAG                         ACCTCCAATGGCAAGAGCAAATGCACCCTTTGTCTCAGCATCCGGCAAAAT
genomic: TCAGTGACATCCGCAGTGGTAAAGCTGCAGATATAGCTTCTCATTCAGAGgtatttgctt ... taatgttcagACCTCCAATGGCAAGAGCAAATGCACCCTTTGTCTCAGCATCCGGCAAAAT
EST: gi|94474488|gb|EB703446.1|EB703446
EST:     TCAGTGACATCCGCAGTGGTAAAGCTGCAGATATAGCTTTTCATTCAGAG                         ACCTCCAATGGCAAGAGCAAATGCACCCTTTGTCTCAGCATCCGGCAAAAT
genomic: TCAGTGACATCCGCAGTGGTAAAGCTGCAGATATAGCTTCTCATTCAGAGgtatttgctt ... taatgttcagACCTCCAATGGCAAGAGCAAATGCACCCTTTGTCTCAGCATCCGGCAAAAT
EST: gi|78025723|gb|DV494110.1|DV494110
EST:     TCAGTGACATCCGCAGTGGTAAAGCTGCAGATATAGCTTCTCATTCAGAG                         ACCTCCAATGGCAAGAGCAAATGCACCCTTTGTCTCAGCATCCGGCAAAAT
genomic: TCAGTGACATCCGCAGTGGTAAAGCTGCAGATATAGCTTCTCATTCAGAGgtatttgctt ... taatgttcagACCTCCAATGGCAAGAGCAAATGCACCCTTTGTCTCAGCATCCGGCAAAAT
EST: gi|78104551|gb|DV522969.1|DV522969
EST:     TCAGTGACATCCGCAGTGGTAAAGCTGCAGATATAGCTTCTCATTCAGAG                         ACCTCCAATGGCAAGAGCAAATGCACCCTTTGTCTCAGCATCCGGCAAAAT
genomic: TCAGTGACATCCGCAGTGGTAAAGCTGCAGATATAGCTTCTCATTCAGAGgtatttgctt ... taatgttcagACCTCCAATGGCAAGAGCAAATGCACCCTTTGTCTCAGCATCCGGCAAAAT
EST: gi|78026496|gb|DV494883.1|DV494883
EST:     TCAGTGACATCCGCAGTGGTAAAGCTGCAGATATAGCTTCTCATTCAGAG                         ACCTCCAATGGCAAGAGCAAATGCACCCTTTGTCTCAGCATCCGGCAAAAT
genomic: TCAGTGACATCCGCAGTGGTAAAGCTGCAGATATAGCTTCTCATTCAGAGgtatttgctt ... taatgttcagACCTCCAATGGCAAGAGCAAATGCACCCTTTGTCTCAGCATCCGGCAAAAT
EST: gi|78081930|gb|DV510342.1|DV510342
EST:     TCAGTGACATCCGCAGTGGTAAAGCTGCAGATATAGCTTCTCATTCAGAG                         ACCTCCAATGGCAAGAGCAAATGCACCCTTTGTCTCAGCATCCGGCAAAAT
genomic: TCAGTGACATCCGCAGTGGTAAAGCTGCAGATATAGCTTCTCATTCAGAGgtatttgctt ... taatgttcagACCTCCAATGGCAAGAGCAAATGCACCCTTTGTCTCAGCATCCGGCAAAAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTCGGGGCATCCCTGTTCTAAATGAAGATGGAAATATCATCAGTGACATCCGCAGTGGTAAAGCTGCAGATATAGCTTCTCATTCAGAGgtatttgctttgacaaataaaatttgagtatttggctatctttgtaggcttgtagcacactactttggataattgtatgatactccattaacgaagctag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGAT