Sequence
atgc intronic sequence ATGC exonic sequencegtaaaataaaaataaaatagccagacagtcgtgcaattcctgtcgctaccgcttttaatttaatagcatgtgttaatttattgagcagCTTGAGAAGCATGAATTGCTGGAGATGAGGAGGATCGCCGCCTACATTTACAAGAAGGCTGGCAGGTGGAAGCAGTCGATTGCTCTATCGAAGAAAGACA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G057576_T01 (Zea mays), 3'ss of exon 25
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 3'ss of exon 26
gtaaaataaaaataaaatagccagacagtcgtgcaattcctgtcgctaccgcttttaattt-aatagcatgtgtt---aatttattgagcagCTTGAGAAGCATGAATTGCTGGAGATGAGGAGGATCGCCGCCTACATTTACAAGAAGGCTGGCAGGTGGAAGCAGTCGATTGCTCTATCGAAGAAAGACA
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gtaaagcgattagatgattgtactgct-tattgatgttatttttccttttttttttattttgaataactaatggctggaatgccttgatcagCTTGAGAAGCATGAATTGCTTGAGATGAGGAGGATCGCTGCCTACATTTACAAGAAGGCTGGCAGATGGAAGCAATCTATTGCCCTGTCGAAGAAAGACA
upper sequence: GRMZM2G057576_T01 (Zea mays), 3'ss of exon 25
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 3'ss of exon 26
gtaaaataaaaataaaatag--ccagacagtcgtgcaattcctgtcgctaccgcttttaatttaatagcatgtgtt---aatttattgagcagCTTGAGAAGCATGAATTGCTGGAGATGAGGAGGATCGCCGCCTACATTTACAAGAAGGCTGGCAGGTGGAAGCAGTCGATTGCTCTATCGAAGAAAGACA
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gtaaagcgattatatgattgtactgcttattgatgttattttt-ccttttttattttattttgaataactaatggctggaatgccttgatcagCTTGAGAAGCATGAATTGCTTGAGATGAGGAGGATCGCTGCCTACATTTACAAGAAGGCTGGCAGATGGAAGCAATCTATTGCCCTGTCGAAGAAAGACA
upper sequence: GRMZM2G057576_T01 (Zea mays), 3'ss of exon 25
lower sequence: GLYMA14G06340.1 (Glycine max), 3'ss of exon 26
gtaaaataaaaataaaatagccagacagtcgtgcaattcctgtcgctaccgctttt--aatttaatagcat-gtgttaatttattgagcagCTTGAGAAGCATGAATTGCTGGAGATGAGGAGGATCGCCGCCTACATTTACAAGAAGGCTGGCAGGTGGAAGCAGTCGATTGCTCTATCGAAGAAAGACA
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-------gtgtggaaatttgctcttaattggaactattttt-tggtttcagctgtggaaatctcagattattgttattactgtatacgcagATTGAAAAGCATGAGCTTCTTGAGATGAGACGTGTTGCTGCTTATATTTACAAGAAGGCAGGTAGGTGGAAGCAGTCTATTGCTTTGTCAAAGAAGGATA
upper sequence: GRMZM2G057576_T01 (Zea mays), 3'ss of exon 25
lower sequence: GLYMA11G06720.1 (Glycine max), 3'ss of exon 26
------------------------------gtaaaataaaaataaaatag-ccagacagtcgtgcaattcctgtcgctaccgcttttaatttaatagcatgtgttaatttat-tgagcagCTTGAGAAGCATGAATTGCTGGAGATGAGGAGGATCGCCGCCTACATTTACAAGAAGGCTGGCAGGTGGAAGCAGTCGATTGCTCTATCGAAGAAAGACA
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gtgaatcttacttatcttttgtcttattttgacaattagcaaaaatcgagatcagaatgttatgggaaatttaaaatatttgaattattattgattggcttcaacaatacacatgagcagATTGAGAAGCATGAACTTCTTGAGATGAGGCGTGTTGCTGCCTACATTTACAAGAAAGCAGGAAGATGGAAGCAATCCATTGCTTTGTCAAAGAAAGACA
upper sequence: GRMZM2G057576_T01 (Zea mays), 3'ss of exon 25
lower sequence: GLYMA02G39360.1 (Glycine max), 3'ss of exon 26
------gtaaaataaaaataaaat----agccagacagtcgtgcaattcctgtcgctaccgcttttaatttaatagca--tgtgttaatttat-tgagcagCTTGAGAAGCATGAATTGCTGGAGATGAGGAGGATCGCCGCCTACATTTACAAGAAGGCTGGCAGGTGGAAGCAGTCGATTGCTCTATCGAAGAAAGACA
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atttttgtaat-taaaagtgaagtcagaaatcattttgttaaaccaagcatagccttaaagtttgacgattggttttggctttaacaatgtgtatttgcagATTGAGAAGCATGAGCTTCTTGAGATGAGGCGTGTCGCTGCTTATATTTACAAGAAAGCTGGAAGATGGAAGCAGTCCATTGCTTTGTCAAAAAAAGACA
upper sequence: GRMZM2G057576_T01 (Zea mays), 3'ss of exon 25
lower sequence: GLYMA01G38580.1 (Glycine max), 3'ss of exon 26
------------------------------gtaaaataaaaataaaatag-ccagacagtcgtgcaattcctgtcgctaccgcttttaatttaatagcatgtgttaatttattgagcagCTTGAGAAGCATGAATTGCTGGAGATGAGGAGGATCGCCGCCTACATTTACAAGAAGGCTGGCAGGTGGAAGCAGTCGATTGCTCTATCGAAGAAAGACA
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gtgaatctcggttatcttttgtcttattttgacaattagcaaaatctgagatcaggaagttatggaaaatttaaaatgtttgaattattattgattggcttcaacaatacat-gagcagATTGAGAAGCATGAACTTCTTGAGATGAGGCGTGTAGCTGCCTACATTTACAAGAAAGCAGGAAGATGGAAGCAATCCATTGCTTTGTCAAAGAAAGACA
upper sequence: GRMZM2G057576_T01 (Zea mays), 3'ss of exon 25
lower sequence: GLYMA02G42560.1 (Glycine max), 3'ss of exon 26
gtaaaataaaaataaaatagccagacagtcgtgcaattcctgtcgctaccgctttt--aatttaatagcatg--tgttaatttattgagcagCTTGAGAAGCATGAATTGCTGGAGATGAGGAGGATCGCCGCCTACATTTACAAGAAGGCTGGCAGGTGGAAGCAGTCGATTGCTCTATCGAAGAAAGACA
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-------gtgtggaaatttgctcttaattggaactattttt-ttgttttagttgtggaaatctcagattattactattactgtatgatgcagATTGAAAAGCATGAGCTTCTTGAGATGAGACGTGTTGCTGCTTATATTTACAAGAAGGCAGGTAGGTGGAAGCAGTCTATTGCTTTGTCAAAGAAGGATAMapped 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|160481599|gb|EY254431.1|EY254431EST: TGGTCTTGCCCAGAAG CTTGAGAAGCATGAATTGCTGGAGATGAGGAGGATCGCCGCCTACATTTAC
genomic: TGGTCTTGCCCAGAAGgtaaaataaa ... tattgagcagCTTGAGAAGCATGAATTGCTGGAGATGAGGAGGATCGCCGCCTACATTTAC
EST:
gi|67024143|gb|CO452892.1|CO452892EST: ATCAGTTGACATGCATGACAACTTTTGAC-AGATTGGTCTTGCCCA-AAG CTTGAAAA-CATGAATTGCTGGAGATGAGGAG-ATCG
genomic: ATCAGTTGACATGCATGACAACTTT-GACCAGATTGGTCTTGCCCAGAAGgtaaaataaa ... tattgagcagCTTGAGAAGCATGAATTGCTGGAGATGAGGAGGATCG
EST:
gi|67014840|gb|CO443589.1|CO443589EST: AATCAGTTGACATGCATGACAACTTTGACCAGATTGGTCTTGCCCAGAAG CTTGAGAAGCATGAATTGCTGGAGATGAGGAGGATCGCCGCCTACATTTAC
genomic: AATCAGTTGACATGCATGACAACTTTGACCAGATTGGTCTTGCCCAGAAGgtaaaataaa ... tattgagcagCTTGAGAAGCATGAATTGCTGGAGATGAGGAGGATCGCCGCCTACATTTAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caattcctgtcgctaccgcttttaatttaatagcatgtgttaatttattgagcagCTTGAGAAGCATGAATTGCTGGAGATGAGGAGGATCGCCGCCTACATTTACAAGAAGGCTGGCAGGTGGAAGCAGTCGATTGCTCTATCGAAGAAAGACA
tgttaat putative branch site (score: 3)
ttttaatttaatagca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaaataaaaataaaatagccagacagtcgtgcaattcctgtcgctaccgcttttaatttaatagcatgtgttaatttattgagcagCTTGAGAAGCATGAATTGCTGGAGATGAGGAGGATCGCCGCCTACATTTACAAGAAGGCTGGCAGGTGGAAGCAGTCGATTGCTCTATCGAAGAAAGACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA