Sequence
atgc intronic sequence ATGC exonic sequencegtacactcttgtctcttcatgtaattaatttatttactctggttggcctagatttcatggagtcttgtaagggtttgaattcattgtctcagGAAAAAGAAAGTCTCATTACTGAGCTTAGGAAGGAGCTACAAGTATCTGACAAGGAACACAGGGAGTTGCTAAACAAAGTTAATGGCGATGATATTATTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM5G838910_T03 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os08g23930.1 (Oryza sativa), 3'ss of exon 2
----------gtacactcttgtctcttcatgtaattaatttatttactc--tggttggcctagatttcatggagtcttgtaaggg-----tttgaattcattgtctcagGAAAAAGAAAGTCTCATTACTGAGCTTAGGAAGGAGCTACAAGTATCTGACAAGGAACACAGGGAGTTGCTAAACAAAGTTAATGGCGATGATATTATTC
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gtaaaacaccacttaactctgtcattcttcatcttcatttggtgtaatcgttagcagttcttttttccgcaaaactgaccaaaagacaattttgaattcaacttct-agGAAAAGGAAGGTCTTATCACTGAACTTAGAAAGGAACTTAGAGTGTCTGACAAAGAGCACAGGGAGTTGTTAAACAGAGTGAACGGTGATGATATCATTC
upper sequence: GRMZM5G838910_T03 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA18G02360.1 (Glycine max), 3'ss of exon 1
--------------------------------gtacactcttgtctcttcatgt-aattaatttatttactctggttggcctagatttcatggagtcttgtaaggg---tttgaattcat---tgtctcagGAAAAAGAAAGTCTCATTACTGAGCTTAGGAAGGAGCTACAAGTATCTGACAAGGAACACAGGGAGTTGCTAAACAAAGTTAATGGCGATGATATTATTC
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gtcctgaaggcttttaaagctcaatctgatgcaatcacttgggcacctttgccttaattcattggtttg-tctttctattaagtatgtcgataggattggcaatgagtttttttgttcctatgtactttagGAAAAAGAAAGTTTAATTACAGAGCTTAGGAAGGAGCTAAGAGTATCAGATGAAGAACACAGAACTTCTATCAAGA------------------------
upper sequence: GRMZM5G838910_T03 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA20G39100.1 (Glycine max), 3'ss of exon 1
gtacactcttgtctcttcatgtaattaatttatttactctg---gttggcctagatt-tcatggagtcttgtaagggtttgaattcattgtctcagGAAAAAGAAAGTCTCATTACTGAGCTTAGGAAGGAGCTACAAGTATCTGACAAGGAACACAGGGAGTTGCTAAACAAAGTTAATGGCGATGATATTATTC
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gtacctttgcctcaattcat-tggtttgtctttctattaagtatgtcggataggattgccaatgagttctttt---gttcctatgtact---ttagGAAAAAGAAAGTTTAATTACAGAGCTTAGGAAGGAGCTAAGAGTATCAGATGAAGAACACAGAGAACTTCTATCAAGAGTCAATGCTGATGACATCATCC
upper sequence: GRMZM5G838910_T03 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA10G44290.1 (Glycine max), 3'ss of exon 1
gtacactcttgtctc--ttcatgtaattaatttatttactctggttg--gcctagatttcatggagtcttgtaagggtttgaattcat-tgtctcagGAAAAAGAAAGTCTCATTACTGAGCTTAGGAAGGAGCTACAAGTATCTGACAAGGAACACAGGGAGTTGCTAAACAAAGTTAATGGCGATGATATTATTC
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--gtacttttgcctcaattcat-tgatttgtctttctattaagtatgttggataggattgacaatgattttt-----tttgttcctatgtactttagGAAAAAGAAAGTTTAATTACAGAGCTTAGGAAGGAGCTAAGAGTATCAGATGAAGAACACAGAGAACTTCTATCAAGAGTCAATGCCGATGACATCATCCMapped 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|40336552|gb|CK370622.1|CK370622EST: GATGCTATTACATGG GAAAAAGAAAGTCTCATTACTGAGCTTAGGAAGGAGCTACAAGTATCTGAC
genomic: GATGCTATAACATGGgtacactctt ... attgtctcagGAAAAAGAAAGTCTCATTACTGAGCTTAGGAAGGAGCTACAAGTATCTGAC
EST:
gi|74232209|gb|DT640123.1|DT640123EST: ATTGTTCAGTTCTTAGAGCATTCAAGGCTCAATCTGATGCTATAACATGG GAAAAAGAAAGTCTCATTACTGAGCTTAGGAAGGAGCTACAAGTATCTGAC
genomic: ATTGTTCAGTTCTTAGAGCATTCAAGGCTCAATCTGATGCTATAACATGGgtacactctt ... attgtctcagGAAAAAGAAAGTCTCATTACTGAGCTTAGGAAGGAGCTACAAGTATCTGAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctggttggcctagatttcatggagtcttgtaagggtttgaattcattgtctcagGAAAAAGAAAGTCTCATTACTGAGCTTAGGAAGGAGCTACAAGTATCTGACAAGGAACACAGGGAGTTGCTAAACAAAGTTAATGGCGATGATATTATTC
ttgtctc CT-rich tract
tttgaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacactcttgtctcttcatgtaattaatttatttactctggttggcctagatttcatggagtcttgtaagggtttgaattcattgtctcagGAAAAAGAAAGTCTCATTACTGAGCTTAGGAAGGAGCTACAAGTATCTGACAAGGAACACAGGGAGTTGCTAAACAAAGTTAATGGCGATGATATTATTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA