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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtcgctgcacattcaggtcatacctatggtatcttgattgcagtttttgttgcacatatatttacctagtttatggccaccaatgcctggctaaatcctctcccgaaaatagaggttctgaatcctgaatttgctaggtagGTAGAAAGAGCGCAACAGGTGCCAACAGAAGGCCACCACAACGTAAGTGCAGAGCATGTTGACAATGGCTTCCTGCACAGGTCAGAGGTAACCCGAGAGG

Basic information

species Zea mays
transcript GRMZM2G068392_T03
intron # 3
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|78076514|gb|DV504948.1|DV504948
EST:     GAAGAGAGGGCAGTACGCTGCTTTTCAA-GATGAGTTCCTTACCAACCCT                         GTAGAAAGAGCGCAACAGGTGCCAACAGAAGGCCACCACAACGTAAGTGCA
genomic: GAAGAGAGGGCAGTACGCTGCTTT-CAAAGATGAGTTCCTTACAAACCCTgtaagtcgct ... tgctaggtagGTAGAAAGAGCGCAACAGGTGCCAACAGAAGGCCACCACAACGTAAGTGCA
EST: gi|38502614|gb|CF972474.1|CF972474
EST:     AGAAGAGAGGGCAGTACGCTGCTTTCAAAGATGAGTTCCTTACAAACCCT                         GTAGAAAGAGCGCAACAGGTGCCAACAGAAGGCCACCACAACGTAAGTGCA
genomic: AGAAGAGAGGGCAGTACGCTGCTTTCAAAGATGAGTTCCTTACAAACCCTgtaagtcgct ... tgctaggtagGTAGAAAGAGCGCAACAGGTGCCAACAGAAGGCCACCACAACGTAAGTGCA
EST: gi|211170254|gb|FL097983.1|FL097983
EST:     AGAAGAGAGGGCAGTACGCTGCTTTCAAAGATGAGTTCCTTACAAACCCT                         GTAGAAAGAGCGCAACAGGTGCCAACAGAAGGCCACCACAACGTAAGTGCA
genomic: AGAAGAGAGGGCAGTACGCTGCTTTCAAAGATGAGTTCCTTACAAACCCTgtaagtcgct ... tgctaggtagGTAGAAAGAGCGCAACAGGTGCCAACAGAAGGCCACCACAACGTAAGTGCA
EST: gi|148935027|gb|EC879068.2|EC879068
EST:     AGAAGAGAGGGCAGTACGCTGCTTTCAAAGATGAGTTCCTTACAAACCCTGT                        
genomic: AGAAGAGAGGGCAGTACGCTGCTTTCAAAGATGAGTTCCTTACAAACCC--Tgtaagtcgct ... tgctaggta
EST: gi|148935027|gb|EC879068.2|EC879068
EST:     AGAAGAGAGGGCAGTACGCTGCTTTCAAAGATGAGTTCCTTACAAACCCTGT                        
genomic: AGAAGAGAGGGCAGTACGCTGCTTTCAAAGATGAGTTCCTTACAAACCC--Tgtaagtcgct ... tgctaggta
EST: gi|148935027|gb|EC879068.2|EC879068
EST:     AGAAGAGAGGGCAGTACGCTGCTTTCAAAGATGAGTTCCTTACAAACCCTGT                        
genomic: AGAAGAGAGGGCAGTACGCTGCTTTCAAAGATGAGTTCCTTACAAACCC--Tgtaagtcgct ... tgctaggta
EST: gi|50324142|gb|CO519268.1|CO519268
EST:     AGAAGAGAGGGCAGTACGCTGCTTTCAAAGATGAGTTCCTTACAAACCCT                         GTAGAAAGAGCGCAACAGGTGCCAACAGAAGGCCACCACAACGTAAGTGCA
genomic: AGAAGAGAGGGCAGTACGCTGCTTTCAAAGATGAGTTCCTTACAAACCCTgtaagtcgct ... tgctaggtagGTAGAAAGAGCGCAACAGGTGCCAACAGAAGGCCACCACAACGTAAGTGCA
EST: gi|50331565|gb|CO526691.1|CO526691
EST:     AGAAGAGAGGGCAGTACGCTGCTTTCAAAGATGAGTTCCTTACAAACCCT                         GTAGAAAGAGCGCAACAGGTGCCAACAGAAGGCCACCACAACGTAAGTGCA
genomic: AGAAGAGAGGGCAGTACGCTGCTTTCAAAGATGAGTTCCTTACAAACCCTgtaagtcgct ... tgctaggtagGTAGAAAGAGCGCAACAGGTGCCAACAGAAGGCCACCACAACGTAAGTGCA
EST: gi|44681890|gb|CK786938.1|CK786938
EST:     AGAAGAGAGGGCAGTACGCTGCTTTCAAAGATGAGTTCCTTACAAACCCT                         GTAGAAAGAGCGCAACAGGTGCCAACAGAAGGCCACCACAACGTAAGTGCA
genomic: AGAAGAGAGGGCAGTACGCTGCTTTCAAAGATGAGTTCCTTACAAACCCTgtaagtcgct ... tgctaggtagGTAGAAAGAGCGCAACAGGTGCCAACAGAAGGCCACCACAACGTAAGTGCA
EST: gi|211166904|gb|FL097963.1|FL097963
EST:     AGAAGAGAGGGCAGTACGCTGCTTTCAAAGATGAGTTCCTTACAAACCCT                         GTAGAAAGAGCGCAAACAGGTGCCAACAGAAGG
genomic: AGAAGAGAGGGCAGTACGCTGCTTTCAAAGATGAGTTCCTTACAAACCCTgtaagtcgct ... tgctaggtagGTAGAAAGAGCGCAA-CAGGTGCCAACAGAAGG
EST: gi|50331308|gb|CO526434.1|CO526434
EST:     AGAAGAGAGGGCAGTACGCTGCTTTCAAAGATGAGTTCCTTACAAACCCT                         GTAGAAAGAGCGCAACAGGTGCCAACAGAAGGCCACCACAACGTAAGTGCA
genomic: AGAAGAGAGGGCAGTACGCTGCTTTCAAAGATGAGTTCCTTACAAACCCTgtaagtcgct ... tgctaggtagGTAGAAAGAGCGCAACAGGTGCCAACAGAAGGCCACCACAACGTAAGTGCA
EST: gi|71433967|gb|DR815017.1|DR815017
EST:     AGAAGAGAGGGCAGTACGCTGCTTTCAAAGATGAGTTCCTTACAAACCCT                         GTAGAAAGAGCGCAACAGGTGCCAACAGAAGGCCACCACAACGTAAGTGCA
genomic: AGAAGAGAGGGCAGTACGCTGCTTTCAAAGATGAGTTCCTTACAAACCCTgtaagtcgct ... tgctaggtagGTAGAAAGAGCGCAACAGGTGCCAACAGAAGGCCACCACAACGTAAGTGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctggctaaatcctctcccgaaaatagaggttctgaatcctgaatttgctaggtagGTAGAAAGAGCGCAACAGGTGCCAACAGAAGGCCACCACAACGTAAGTGCAGAGCATGTTGACAATGGCTTCCTGCACAGGTCAGAGGTAACCCGAGAGG
  ggctaaa  putative branch site (score: 3)
                   aaaataga  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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtcgctgcacattcaggtcatacctatggtatcttgattgcagtttttgttgcacatatatttacctagtttatggccaccaatgcctggctaaatcctctcccgaaaatagaggttctgaatcctgaatttgctaggtagGTAGAAAGAGCGCAACAGGTGCCAACAGAAGGCCACCACAACGTAAGTGCAGAGCATGTTGACAATGGCTTCCTGCACAGGTCAGAGGTAACCCGAGAGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGAGG