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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtttcatgcttttatgctcttaactttgtaacatctatgcataatgtggatatttatgcccttactttttagGGTGGAAAGAGAAGCAAGAAAAGCTGAAATGGAAATCGCAAAG

Basic information

species Zea mays
transcript GRMZM2G420865_T02
intron # 14
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|78090028|gb|DV518402.1|DV518402
EST:     GCCAAATTTCTATCATCATTCGAGAAGAAAG                         GGTGGAAAGAGAAGCAAGAAAAGCTGAAATGGAAATCGCAAAG
genomic: GCCAAATTTCTATCATCATTCGAGAAGAAAGgttagtttca ... tactttttagGGTGGAAAGAGAAGCAAGAAAAGCTGAAATGGAAATCGCAAAG
EST: gi|78027541|gb|DV495928.1|DV495928
EST:     CTGATTGAGCAACTAGAAGGCCAAATTTCTATCATCATTCGAGAAGAAAG                         GGTGGAAAGAGAAGCAAGAAAAGCTGAAATGGAAATCGCAAAG
genomic: CTGATTGAGCAACTAGAAGGCCAAATTTCTATCATCATTCGAGAAGAAAGgttagtttca ... tactttttagGGTGGAAAGAGAAGCAAGAAAAGCTGAAATGGAAATCGCAAAG
EST: gi|211352888|gb|FL146172.1|FL146172
EST:     CTGATTGAGCAACTAGAAGGCCAAATTTCTATCATCATTCGAGAAGAAAG                         GGTGGAAAGAGAAGCAAGAAAAGCTGAAATGGAAATCGCAAAG
genomic: CTGATTGAGCAACTAGAAGGCCAAATTTCTATCATCATTCGAGAAGAAAGgttagtttca ... tactttttagGGTGGAAAGAGAAGCAAGAAAAGCTGAAATGGAAATCGCAAAG
EST: gi|67031210|gb|CO459959.1|CO459959
EST:     CTGATTGAGCA-CTAGAAGGC-AAATTTCTATCATCATTCNAGAAGAAAG                         GGTGGNNAAGAAAAGCAAGAAAAGCTGAAATGGAAATCCCAAAGGCA
genomic: CTGATTGAGCAACTAGAAGGCCAAATTTCTATCATCATTCGAGAAGAAAGgttagtttca ... tactttttagGGTGGA-AAGAGAAGCAAGAAAAGCTGAAATGGAAATCGCAAAGGCA
EST: gi|211352883|gb|FL146167.1|FL146167
EST:     CTGATTGAGCAACTAGAAGGCCAAATTTCTATCATCATTCGAGAAGAAAG                         GGTGGAAAGAGAAGCAAGAAAAGCTGAAATGGAAATCGCAAAG
genomic: CTGATTGAGCAACTAGAAGGCCAAATTTCTATCATCATTCGAGAAGAAAGgttagtttca ... tactttttagGGTGGAAAGAGAAGCAAGAAAAGCTGAAATGGAAATCGCAAAG
EST: gi|4887454|gb|AI677553.1|AI677553
EST:     CTGATTGAGCAACTAGAAGGCCAAATTTCTATCATCATTCGAGAAGAAAG                         GGTGGAAAGAGAAGCAAGAAAAGCTGAAATGGAAATCGCAAAG
genomic: CTGATTGAGCAACTAGAAGGCCAAATTTCTATCATCATTCGAGAAGAAAGgttagtttca ... tactttttagGGTGGAAAGAGAAGCAAGAAAAGCTGAAATGGAAATCGCAAAG
EST: gi|211352882|gb|FL146166.1|FL146166
EST:     CTGATTGAGCAACTAGAAGGCCAAATTTCTATCATCATTCGAGAAGAAAG                         GGTGGAAAGAGAAGCAAGAAAAGCTGAAATGGAAATCGCAAAG
genomic: CTGATTGAGCAACTAGAAGGCCAAATTTCTATCATCATTCGAGAAGAAAGgttagtttca ... tactttttagGGTGGAAAGAGAAGCAAGAAAAGCTGAAATGGAAATCGCAAAG
EST: gi|37398106|gb|CF636362.1|CF636362
EST:     CTGATTGAGCAACTAGAAGGCC-AATTTCTATCATCATTCGAGAAGAAAG                         GGTGGAAAGAGAAGCAAGAAAAGCTGAAATGGAAATCGCAAAG
genomic: CTGATTGAGCAACTAGAAGGCCAAATTTCTATCATCATTCGAGAAGAAAGgttagtttca ... tactttttagGGTGGAAAGAGAAGCAAGAAAAGCTGAAATGGAAATCGCAAAG
EST: gi|40337352|gb|CK371422.1|CK371422
EST:     CTGATTGAGCAACTAGAAGGCCAAATTTCTATCATCATTCGAGAAGAAAG                         GGTGGAAAGAGAAGCAAGAAAAGCTGAAATGGAAATCGCAAAG
genomic: CTGATTGAGCAACTAGAAGGCCAAATTTCTATCATCATTCGAGAAGAAAGgttagtttca ... tactttttagGGTGGAAAGAGAAGCAAGAAAAGCTGAAATGGAAATCGCAAAG
EST: gi|31349040|gb|CD433397.1|CD433397
EST:     CTGATTGAGCAACTAGAAGGCCAAATTTCTATCATCATTCAAGAAGAAAG                         GGTGGAAAGAGAAGCAAGAAAAGCTGAAATGGAAATCGCAAAG
genomic: CTGATTGAGCAACTAGAAGGCCAAATTTCTATCATCATTCGAGAAGAAAGgttagtttca ... tactttttagGGTGGAAAGAGAAGCAAGAAAAGCTGAAATGGAAATCGCAAAG
EST: gi|211352886|gb|FL146170.1|FL146170
EST:     CTGATTGAGCAACTAGAAGGCCAAATTTCTATCATCATTCGAGAAGAAAG                         GGTGGAAAGAGAAGCAAGAAAAGCTGAAATGGAAATCGCAAAG
genomic: CTGATTGAGCAACTAGAAGGCCAAATTTCTATCATCATTCGAGAAGAAAGgttagtttca ... tactttttagGGTGGAAAGAGAAGCAAGAAAAGCTGAAATGGAAATCGCAAAG
EST: gi|211352887|gb|FL146171.1|FL146171
EST:     CTGATTGAGCAACTAGAAGGCCAAATTTCTATCATCATTCGAGAAGAAAG                         GGTGGAAAGAGAAGCAAGAAAAGCTGAAATGGAAATCGCAAAG
genomic: CTGATTGAGCAACTAGAAGGCCAAATTTCTATCATCATTCGAGAAGAAAGgttagtttca ... tactttttagGGTGGAAAGAGAAGCAAGAAAAGCTGAAATGGAAATCGCAAAG
EST: gi|211352885|gb|FL146169.1|FL146169
EST:     CTGATTGAGCAACTAGAAGGCCAAATTTCTATCATCATTCGAGAAGAAAG                         GGTGGAAAGAGAAGCAAGAAAAGCTGAAATGGAAATCGCAAAG
genomic: CTGATTGAGCAACTAGAAGGCCAAATTTCTATCATCATTCGAGAAGAAAGgttagtttca ... tactttttagGGTGGAAAGAGAAGCAAGAAAAGCTGAAATGGAAATCGCAAAG
EST: gi|4887453|gb|AI677552.1|AI677552
EST:     CTGATTGAGCAACTAGAAGGCCAAATTTCTATCATCATTCGAGAAGAAAG                         GGTGGAAAGAGAAGCAAGAAAAGCTGAAATGGAAATCGCAAAG
genomic: CTGATTGAGCAACTAGAAGGCCAAATTTCTATCATCATTCGAGAAGAAAGgttagtttca ... tactttttagGGTGGAAAGAGAAGCAAGAAAAGCTGAAATGGAAATCGCAAAG
EST: gi|33100275|gb|CF060235.1|CF060235
EST:     CTGATTGAGCAACTAGAAGGCCAAATTTCTATCATCATTCGAGAAGAAAG                         GGTGGAAAGAGAAGCAAGAAAAGCTGAAATGGAAATCGCAAAG
genomic: CTGATTGAGCAACTAGAAGGCCAAATTTCTATCATCATTCGAGAAGAAAGgttagtttca ... tactttttagGGTGGAAAGAGAAGCAAGAAAAGCTGAAATGGAAATCGCAAAG
EST: gi|78090029|gb|DV518403.1|DV518403
EST:     CTGATTGAGCAACTAGAAGGCCAAATTTCTATCATCATTCGAGAAGAAAG                         GGTGGAAAGAGAAGCAAGAAAAGCTGAAATGGAAATCGCAAAG
genomic: CTGATTGAGCAACTAGAAGGCCAAATTTCTATCATCATTCGAGAAGAAAGgttagtttca ... tactttttagGGTGGAAAGAGAAGCAAGAAAAGCTGAAATGGAAATCGCAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttaactttgtaacatctatgcataatgtggatatttatgcccttactttttagGGTGGAAAGAGAAGCAAGAAAAGCTGAAATGGAAATCGCAAAG
                                       tgcccttacttttt  CT-rich tract
                                            ttacttttta  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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttagtttcatgcttttatgctcttaactttgtaacatctatgcataatgtggatatttatgcccttactttttagGGTGGAAAGAGAAGCAAGAAAAGCTGAAATGGAAATCGCAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG