Sequence
atgc intronic sequence ATGC exonic sequencegtttgctaattgttcgctccttgttatcatttagttggtctgtcaaccttatggaattattatcctgtataaaatacatattctacttgatgcagGTAATCCCTGATAAAGCAGAAGCATACCGTTTGCTTGGTGAAGTAAAGTTTGAACTCAAGGATTATGAAGGGAGTTCATCATCATACAGAAGTGCTTTAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM5G863152_T01 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os07g18720.1 (Oryza sativa), 3'ss of exon 12
-------gtttgctaattgtt-cgctccttg---ttatcatttagttggtctgtcaaccttatggaattattatcctgtataaaatacatattctacttgatgcagGTAATCCCTGATAAAGCAGAAGCATACCGTTTGCTTGGTGAAGTAAAGTTTGAACTCAAGGATTATGAAGGGAGTTCATCATCATACAGAAGTGCTTTAT
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gtaagctgcatgctattcttggtgcccattgtatttgtcatttag--agtttgtcttgcttatgcacttattatatggt-tgaaacaca-atttattttgatatagGTGATCCCTGACAAAGTTGAAGCATACCGTTTGTTGGGTGAAGTAAAGTTTGAACTCAAGGATTATGATGGGAGTTCTTCATCATACAGAAAATCTTTAT
upper sequence: GRMZM5G863152_T01 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA07G00360.1 (Glycine max), 3'ss of exon 9
--------------------------------------------------------------------------------gtttgctaattgttcgc-----tccttgttatcatttagttggtctgtcaaccttatggaattattatcctgta--taaaatacatattctacttgatgc----agGTAATCCCTGATAAAGCAGAAGCATACCGTTTGCTTGGTGAAGTAAAGTTTGAACTCAAGGATTATGAAGGGAGTTCATCATCATACAGAAGTGCTTTAT
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gtattgttttgaccatggatatcccctggaatttttccagttacttgtgttggaaagtaattcctacccagggaaattatagctatatattggtcacaaaaatcctctctttcgaaagtatgttgtgcaaatcatgctatttgatctttgaataactgttgaacatatttttgttgttattccaagGAAAAACCAAATGATGCTGATGTTTTTCGTTTGCTTGGAGAAGTTAAGTATGAACTCAAAGATTATGAAGGGAGTGTTGCTGCATATAAAAGCTCAGCAA
upper sequence: GRMZM5G863152_T01 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA08G24110.1 (Glycine max), 3'ss of exon 8
----------------------------------------------------------------------------------------gtttgctaattgttcgctccttgttatcat---ttagttg-gtctgtcaaccttatggaattattatcctgtataaaatacatattctacttgatgc--agGTAATCCCTGATAAAGCAGAAGCATACCGTTTGCTTGGTGAAGTAAAGTTTGAACTCAAGGATTATGAAGGGAGTTCATCATCATACAGAAGTGCTTTAT
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gtagtgttttgaccatggatatcccctggaattttccgagttatttgtgttggaaagtaactcctacccagggaaatcatagctatatatttattggtcacagaatcctctctttcaaaagtacgttgtgcaaatcaagctatttgatctttgaataactgttgaacatttttttggtgttattccaagGAAAAACCAAATGATGCTGATGTTTTTCGTTTGCTTGGAGAAGTTAAGTACGAACTCAAAGATTATGAAGGGAGTGTTGCCGCATATAAAAGCTCAGCAA
upper sequence: GRMZM5G863152_T01 (Zea mays), 3'ss of exon 9
lower sequence: Vv09s0054g00720.t01 (Vitis vinifera), 3'ss of exon 9
--------------------------gtttgcta-attgttcgctccttgttatcatttagttggtctgtcaa--ccttatggaatt------attatcctgtataaaatacatattctact-tgatgcagGTAATCCCTGATAAAGCAGAAGCATACCGTTTGCTTGGTGAAGTAAAGTTTGAACTCAAGGATTATGAAGGGAGTTCATCATCATACAGAAGTGCT-TTAT
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gtttgtccttcactgatttagcatgcattagatatatgatgaactccatgt-accatatgctgcttatatcaagatgttcaggaatttcttgagtcaatttttatttgattgatgtataacaatcctacagGAAAAGCCAAATGATCCTGAAGCTTTCCGTCTGCTTGGAGAAGTAAAATTTGCACTAAAGGATTATGAAGGCAGTGCTGCCGCATATAGGAGTTCTGCTA-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|71432423|gb|DR813473.1|DR813473EST: TAGGTGAGTATGAGAAGGCATCAACATTCCTTGAGAAGCTAATTAAG GTAATCCCTGATAAAGCAGAAGCATACCGTTTGCTTGGTGAAGTAAAATTT
genomic: TAGGTGAGTATGAGAAGGCATCAACATTCCTTGAGAAGCTAATTAAGgtttgctaat ... cttgatgcagGTAATCCCTGATAAAGCAGAAGCATACCGTTTGCTTGGTGAAGTAAAGTTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtcaaccttatggaattattatcctgtataaaatacatattctacttgatgcagGTAATCCCTGATAAAGCAGAAGCATACCGTTTGCTTGGTGAAGTAAAGTTTGAACTCAAGGATTATGAAGGGAGTTCATCATCATACAGAAGTGCTTTAT
acttgat putative branch site (score: 5)
ttctactt CT-rich tract
aattattatcctgtat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgctaattgttcgctccttgttatcatttagttggtctgtcaaccttatggaattattatcctgtataaaatacatattctacttgatgcagGTAATCCCTGATAAAGCAGAAGCATACCGTTTGCTTGGTGAAGTAAAGTTTGAACTCAAGGATTATGAAGGGAGTTCATCATCATACAGAAGTGCTTTAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT