Sequence
atgc intronic sequence ATGC exonic sequencegtcagagtgtgagaccgatcgcctagctttaccgccattaatttgtccaaataaaaaaaagttccccactcgactgcaagagaaagtaagtattaacgggtctctcatggaatttgcagTGGCTACTCCGAAACAGATCAGGGAGGTGATGCAAGTGGACGGGCTTACAAACGATGAAGTGAAAAGCCATCTCCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G171468_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os03g55590.1 (Oryza sativa), 3'ss of exon 3
gtcagagtgtgagaccgatcgcctagctttaccgccattaatttgtccaaataaaaaaaagttccccactcgactgcaagagaaagtaagtattaacgggtctctcatggaatttgcagTGGCTACTCCGAAACAGATCAGGGAGGTGATGCAAGTGGACGGGCTTACAAACGATGAAGTGAAAAGCCATCTCCAG
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-gtatattacatggtcgaccatc-attttcaccttccataatttgcaaagatcaccggaaatcctcatatc----------------------ttgttgttccaccatga---ttgcagTTGCTACTCCAAAGCAAATCAGGGAGGTGATGAAGGTTGATGGGCTCACCAACGACGAAGTGAAAAGCCATCTCCAG
upper sequence: GRMZM2G171468_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA11G06230.1 (Glycine max), 3'ss of exon 4
gtcagagtgtgagaccgatcgcctagctttaccgccattaatttgtccaaataaaaaaaagttccccactcgactgcaagagaaa-gtaagtat-taacgggtctctcatggaatttgcagTGGCTACTCCGAAACAGATCAGGGAGGTGATGCAAGTGGACGGGCTTACAAACGATGAAGTGAAAAGCCATCTCCAG
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------------------ttaagagaatttgttgcttctgccatctgaaattgaaactgggggtcttg-tcctttgtgggatcaatgcgtgtacctaatgtgtttattttgt--tttgcagTGGCCACTCCTAAACAGATTAGAGAACTGATGCAGGTGGAAGGCCTTACAAATGATGAAGTGAAAAGCCATTTGCAA
upper sequence: GRMZM2G171468_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA01G39040.1 (Glycine max), 3'ss of exon 3
gtcagagtgtgagaccgatcgcctagctttaccgccattaatttgtccaaataaaaaaaagttccccactcgactgcaagagaaagtaagtat-taacgggtctctcatggaatttgcagTGGCTACTCCGAAACAGATCAGGGAGGTGATGCAAGTGGACGGGCTTACAAACGATGAAGTGAAAAGCCATCTCCAG
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----------------aattaagaaaatttgttgcttctgccatctgaaattgaaactgtggatcttgtcctg-tgtgggatcaa-tgtgtacctaattggtttattttgt--tttgcagTGGCCACTCCTAAACAGATTAGAGAACTGATGCAGGTGGAAGGCCTTACAAATGATGAAGTGAAAAGTCATTTGCAA
upper sequence: GRMZM2G171468_T02 (Zea mays), 3'ss of exon 3
lower sequence: EFJ37607 (Selaginella moellendorffii), 3'ss of exon 3
gtcagagtgtgagaccgatcgcctagctttaccgccattaatttgtccaaataaaaaaaagttccccactcgactgcaagagaaagtaagtattaacgggtctctcatggaatttgcagTGGCTACTCCGAAACAGATCAGGGAGGTGATGCAAGTGGACGGGCTTACAAACGATGAAGTGAAAAGCCATCTCCAG
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--------------------------------------------------------gtgcgacagtaattcaagcgctcgatcaa--aagttcttaaaggtttcttcttcttgatccagTTGCAACTCCAAAGCAAATCCGAGAGCTCATGAAGGTAGATGGTCTTACAAACGATGAAGTAAAAAGCCACCTCCAG
upper sequence: GRMZM2G171468_T02 (Zea mays), 3'ss of exon 3
lower sequence: EFJ15083 (Selaginella moellendorffii), 3'ss of exon 3
gtcagagtgtgagaccgatcgcctagctttaccgccattaatttgtccaaataaaaaaaagttccccactcgactgcaagagaaagtaagtattaacgggtctctcatggaatttgcagTGGCTACTCCGAAACAGATCAGGGAGGTGATGCAAGTGGACGGGCTTACAAACGATGAAGTGAAAAGCCATCTCCAG
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-------------------------------------------------gtgcgacagttattctgaattcaagcgctcgatcga--aagttcttaaaggtttcttcttcttgatccagTTGCCACTCCAAAGCAAATCCGAGAACTCATGAAGGTAGATGGTCTTACAAACGATGAAGTAAAAAGCCACCTCCAGMapped 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|211088120|gb|FL191873.1|FL191873EST: GCTTCACCGGCGGTTCGTTGCCGCTTTGCACGAACTCGGTGGCCCTCAAG TGGCTACTCCGAAACAGATCAGGGAGGTGATGCAAGTGGACGGGCTTACAA
genomic: GCTTCACCGGCGGTTCGTTGCCGCTTTGCACGAACTGGGTGGCCCTCAAGgtcagagtgt ... gaatttgcagTGGCTACTCCGAAACAGATCAGGGAGGTGATGCAAGTGGACGGGCTTACAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cccactcgactgcaagagaaagtaagtattaacgggtctctcatggaatttgcagTGGCTACTCCGAAACAGATCAGGGAGGTGATGCAAGTGGACGGGCTTACAAACGATGAAGTGAAAAGCCATCTCCAG
tattaac putative branch site (score: 1)
aaagtaagtattaa 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 |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
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gtcagagtgtgagaccgatcgcctagctttaccgccattaatttgtccaaataaaaaaaagttccccactcgactgcaagagaaagtaagtattaacgggtctctcatggaatttgcagTGGCTACTCCGAAACAGATCAGGGAGGTGATGCAAGTGGACGGGCTTACAAACGATGAAGTGAAAAGCCATCTCCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA