Sequence
atgc intronic sequence ATGC exonic sequence...atttatgtaagtggtatcatgaaaccctgtttcttgcattcttgtcatagacttcatacaattaattttttttaagacttctctatctttggattcacagGAGAATTGTTGGTGTAGCACATGTTGAGGATTTTGAATCAATTGTTGATGCTAGCAAGCGAGCTAACTGTGAGAGACAGGCACTTGTATTTGCAAAGATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0091g00100.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os04g57410.1 (Oryza sativa), 3'ss of exon 5
atttatgtaagtggtatcatgaaacc------ctgtttcttgcattcttgt-catagacttcatacaattaattttttttaagacttctctatctttggattcacagGAGAATTGTTGGTGTAGCACATGTTGAGGATTTTGAATCAATTGTTGATGCTAGCAAGCGAGCTAACTGTGAGAGACAGGCACTTGTATTTGCAAAGATG
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--acatttaaacgccattttcaaattttttatctgtgttccgatgccttgtgcatgatcctcacgcgacttctgtttactaaa-----ttggaccatacatatgtagGAGAATTGTTGGAATTGCTCATGTTGAGGATTTTGAGTCGATTGAGGATGCCAGCAAGAGAGCTTCGTGTGAGCGACGTGCCCTTAATTGTGCAAAGGCA
upper sequence: Vv03s0091g00100.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os04g57400.1 (Oryza sativa), 3'ss of exon 5
atttatgtaagtggtatcatgaaaccctgtttcttgcattct--tgtcatagacttcata--caattaattttttttaagacttctctatctttggattcacagGAGAATTGTTGGTGTAGCACATGTTGAGGATTTTGAATCAATTGTTGATGCTAGCAAGCGAGCTAACTGTGAGAGACAGGCACTTGTATTTGCAAAGATG
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--acatttaaacaccattttcaaattttttatct-gtattccgatgccttgtgcatgatcctcaagcgacttctgtttactaaattggaccat-acatatgtagGAGAATTGTTGGAATTGCTCATGTTGAGGATTTTGAGTCGATTGAGGATGCCAGCAAGAGAGCTTCGTGTGAGCGACGTGCCCTTAATTGTGCAAAGGCA
upper sequence: Vv03s0091g00100.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA20G26580.1 (Glycine max), 3'ss of exon 5
atttatgtaagtggtatcatgaaaccctgtttcttgcattcttgtcatagacttcatacaattaattttttttaagactt---ctctatct-ttggattcacagGAGAATTGTTGGTGTAGCACATGTTGAGGATTTTGAATCAATTGTTGATGCTAGCAAGCGAGCTAACTGTGAGAGACAGGCACTTGTATTTGCAAAGATG
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---ttcatgagctgattagtgttaccat-cttcacaaaagaacatgaaaatccttattttgggtggaatggctaacacttgcatcatacttatttgattggcagGAGAATTGTTGGTGTGGCACATGTTGAGGATTTCGAATCCATTGCTGATGCTGCTAAACGGGCTAGTTGTGAACGGCGGGCACTTGATTTAGCTAAGATG
upper sequence: Vv03s0091g00100.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA10G40730.1 (Glycine max), 3'ss of exon 5
atttatgtaagtggtatcatgaaaccctgtttcttgcattcttgtcatagacttcatacaattaattttttttaagactt----ctctatctttggattcacagGAGAATTGTTGGTGTAGCACATGTTGAGGATTTTGAATCAATTGTTGATGCTAGCAAGCGAGCTAACTGTGAGAGACAGGCACTTGTATTTGCAAAGATG
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---ttcatgagctgattcgtgttaccat-cttcacaaaagaacatgaaaatccttattttaggtggaatggctaatacttgcatcatcattatttgattggcagGAGAATTGTTGGTGTGGCACATGTTGAGGATTTCGAATCCATTACTGATGCTGCTAAACGGGCAAGTTGTGAACGGCGGGCACTTGATTTAGCTAAGATG
upper sequence: Vv03s0091g00100.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA01G45520.1 (Glycine max), 3'ss of exon 6
atttatgtaagtggtatcatgaaaccctgtttcttgcattcttgtcatagacttcatacaattaattttttttaagactt---ctctatctttggattcacagGAGAATTGTTGGTGTAGCACATGTTGAGGATTTTGAATCAATTGTTGATGCTAGCAAGCGAGCTAACTGTGAGAGACAGGCACTTGTATTTGCAAAGATG
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--acctttaaattatttcaaattaatcttgagcatatgtagtagatcttg-ttttaggtagcgtacgtgcataaggattcacactcaattgcttgtttgacagGAGAATCGTTGGTGTGGCCCATGTTGAGGATTTTGAATCCATTACTGATGCTGTTAAACGGGCTACCTGTGAACGGAAGGCTCTTAATTTGGCTAAGATG
upper sequence: Vv03s0091g00100.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT1G49820.1 (Arabidopsis thaliana), 3'ss of exon 5
atttatgtaagtggtatcatgaaaccctgtttcttgcattcttgtcatagacttcatacaatta--attttttttaagacttctctatctttggattcacagGAGAATTGTTGGTGTAGCACATGTTGAGGATTTTGAATCAATTGTTGATGCTAGCAAGCGAGCTAACTGTGAGAGACAGGCACTTGTATTTGCAAAGATG
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---------------gtgagagaatcttagtccatgagatttctttgtcgatcatataaactcagaaacgttgttgacagtgttggtttgatgatatggcagGAGAATTGTGGGAGTGGCACATGTTGAGGACTTTGAATCAATCGAAGAAGATAAGCGAAGAGCTATTTGCGAGAGAAGTGCACTCGAGTTTGCGAAGATGMapped 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|351049584|gb|FQ429206.1|FQ429206EST: CAAGATTTGTTGCATGACACCCTCGGATTTGGTGCTGCCAAAATGATAAG GAGAATTGTTGGTGTAGCACATGTTGAGGATTTTGAATCAATTGTTGATGC
genomic: CAAGATTTGTTGCATGACACCCTCGGATTTGGTGCTGCCAAAATGATAAGgtgaggttgt ... ggattcacagGAGAATTGTTGGTGTAGCACATGTTGAGGATTTTGAATCAATTGTTGATGC
EST:
gi|351016539|gb|FQ423966.1|FQ423966EST: CAAGATTTGTTGCATGACACCCTCGGATTTGGTGCTGCCAAAATGATAAG GAGAATTGTTGGTGTAGCACATGTTGAGGATTTTGAATCAATTGTTGATGC
genomic: CAAGATTTGTTGCATGACACCCTCGGATTTGGTGCTGCCAAAATGATAAGgtgaggttgt ... ggattcacagGAGAATTGTTGGTGTAGCACATGTTGAGGATTTTGAATCAATTGTTGATGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catagacttcatacaattaattttttttaagacttctctatctttggattcacagGAGAATTGTTGGTGTAGCACATGTTGAGGATTTTGAATCAATTGTTGATGCTAGCAAGCGAGCTAACTGTGAGAGACAGGCACTTGTATTTGCAAAGATG
aattaat putative branch site (score: 3)
cttctctatctttg putative PPT
ttcatacaattaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atttatgtaagtggtatcatgaaaccctgtttcttgcattcttgtcatagacttcatacaattaattttttttaagacttctctatctttggattcacagGAGAATTGTTGGTGTAGCACATGTTGAGGATTTTGAATCAATTGTTGATGCTAGCAAGCGAGCTAACTGTGAGAGACAGGCACTTGTATTTGCAAAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - -aaaccct
- - - - - - - - - - - - - - - - - -gcattct
- - - - - - - - - - - - - - - - - - - - - - - - - - - catacaa