Sequence
atgc intronic sequence ATGC exonic sequence...cataggctaaacctcattatttcaatgttccttgaataaacttaatttgaggtatgttattcctttctctgaagttaatatggtttttttcttattatagGGAAATTTAGACACCTTCCAGTTGTTGAAAATGGTGAGGTTATTGCGATGCTGGACATTGCAAAATGTCTGTATGATGCAATATCAAGACTGGAAAAGGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G031609_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os11g06930.1 (Oryza sativa), 3'ss of exon 3
cataggctaaacctcattatttcaatgttccttgaataaacttaatttgaggtatgtt---attcctttctctgaagttaatatggtttttttcttattatagGGAAATTTAGACACCTTCCAGTTGTTGAAAATGGTGAGGTTATTGCGATGCTGGACATTGCAAAATGTCTGTATGATGCAATATCAAGACTGGAAAAGGC
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-atgggctcatcattccaattgttttatatactgtctctccgta-ttccaagtatgttcattttcctctccttagagctaatatgaaacact-cacgttttagGAAAATTTAGGCACCTCCCAGTGGTGGAAAATGGTGAGGTTATTGCCATGCTAGACATTGCAAAATGCCTCTATGATGCAATATCAAGACTGGAAAAGGC
upper sequence: GRMZM2G031609_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA06G16570.2 (Glycine max), 3'ss of exon 3
cataggctaaacctcattatttca-atgttccttga-ataaacttaatttga--ggtatgttattcctttctctgaagtta--atatggtttttttcttattatagGGAAATTTAGACACCTTCCAGTTGTTGAAAATGGTGAGGTTATTGCGATGCTGGACATTGCAAAATGTCTGTATGATGCAATATCAAGACTGGAAAAGGC
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------ggattctctatttttatacatcttgtttgatagaatcatagtctggctggaaagtaattcattaagtgagagatataatttaactttttttaactgatagGTAGATTTAGACACCTCCCTGTTGTGGAAAATGGTGAAGTCATTGCCATGCTGGATATCACCAAATGTCTTTATGATGCCATATCTAGAATGGAGAGCGC
upper sequence: GRMZM2G031609_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA04G38480.1 (Glycine max), 3'ss of exon 3
cataggctaaacctcattatttcaatgttccttgaataaact--taatttga--ggtatgttattcctttctctgaagttaatatggtttttttcttattatagGGAAATTTAGACACCTTCCAGTTGTTGAAAATGGTGAGGTTATTGCGATGCTGGACATTGCAAAATGTCTGTATGATGCAATATCAAGACTGGAAAAGGC
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----tattagattctctgtttatacatcttgtttaatagagtcatagtcggactggaaactaattcattaagtgagagatataatttgactttttaactgatagGTAAATTCAGACACCTCCCTGTCGTGGAAAATGGTGAAGTCATTGCCATGCTGGATATTACCAAATGCCTTTATGATGCCATATCTAGGATGGAGAGCGC
upper sequence: GRMZM2G031609_T02 (Zea mays), 3'ss of exon 3
lower sequence: EFJ12244 (Selaginella moellendorffii), 3'ss of exon 3
cataggctaaacctcattatttcaatgttccttgaataaacttaatttgaggtatgttattcctttctctgaagttaatatggtttttttcttattatagGGAAATTTAGACACCTTCCAGTTGTTGAAAATGGTGAGGTTATTGCGATGCTGGACATTGCAAAATGTCTGTATGATGCAATATCAAGACTGGAAAAGGC
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------------------------------------------gtattctacaactttgatagccttcg-tgagattccca-aacctccatttctctgcagGGAAATTTAGACACCTTCCAGTCGTGGAGAATGGCGAAGTCATTGCACTGCTGGATATAACAAAATGCTTGTATGATGCGATTGCGAGAATGGAGAAAGC
upper sequence: GRMZM2G031609_T02 (Zea mays), 3'ss of exon 3
lower sequence: EFJ25849 (Selaginella moellendorffii), 3'ss of exon 3
cataggctaaacctcattatttcaatgttccttgaataaacttaatttgaggtatgttattcctttctctgaagttaatatggtttttttcttattatagGGAAATTTAGACACCTTCCAGTTGTTGAAAATGGTGAGGTTATTGCGATGCTGGACATTGCAAAATGTCTGTATGATGCAATATCAAGACTGGAAAAGGC
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-----------------------------------------gtattctacaactttgaaagccttcgt--gagattccca-aacctccatttctctgcagGGAAATTTAGACACCTTCCAGTCGTGGAGAATGGCGAAGTCATTGCACTGCTGGATATAACAAAATGCTTGTATGATGCGATTGCGAGAATGGAGAAAGCMapped 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|76290187|gb|DV029755.1|DV029755EST: TGTCATGGCGGACACACCTGCTATTGAGGCACTGCATAAAATGGTCCAAG GGAAATTTAGACACCTTCCAGTTGTTGAAAATGGTGAGGTTATTGCGATGC
genomic: TGTCATGGCGGACACACCTGCTATTGAGGCACTGCATAAAATGGTCCAAGgtatatgtgg ... cttattatagGGAAATTTAGACACCTTCCAGTTGTTGAAAATGGTGAGGTTATTGCGATGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttgaggtatgttattcctttctctgaagttaatatggtttttttcttattatagGGAAATTTAGACACCTTCCAGTTGTTGAAAATGGTGAGGTTATTGCGATGCTGGACATTGCAAAATGTCTGTATGATGCAATATCAAGACTGGAAAAGGC
agttaat putative branch site (score: 4)
tttttttcttattat putative PPT
aagttaatatggtttt 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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cataggctaaacctcattatttcaatgttccttgaataaacttaatttgaggtatgttattcctttctctgaagttaatatggtttttttcttattatagGGAAATTTAGACACCTTCCAGTTGTTGAAAATGGTGAGGTTATTGCGATGCTGGACATTGCAAAATGTCTGTATGATGCAATATCAAGACTGGAAAAGGC
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