Sequence
atgc intronic sequence ATGC exonic sequenceAGAAACAGAGTATAGAGCACATCCTTTCTGGATGCAAGAGTACTGTCCCTCACATGAGCATGATGGAACTCCTCGGTGTTGTAGTTGTGAACGAACAGAGgttagttggaagaaaatacaacctcccatcccacatactcactgaagaaatcttctcgtagcttgacagattaacaactacagatttctatttttcgttttgtatttctttatagaaaatctgccaacccatgcag
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0023g01040.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: LOC_Os12g40490.1 (Oryza sativa), 5'ss of exon 9
AGAAACAGAGTATAGAGCACATCCTTTCTGGATGCAAGAGTACTGTCCCTCACATGAGCATGATGGAACTCCTCGGTGTTGTAGTTGTGAACGAACAGAGgttagttggaagaaaatacaacctcccatcccacatactcactgaagaaatc--ttctcgtagcttgacagattaacaactacagatttctatttttcgttttgtatttctttatagaaaatctgccaacccatgcag
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GCTGATCGAATACCGAGCACATCCATTCTGGATGCAAAAGTACTGTCCTTCCCATGAAGATGATGGCACTCCTAGGTGTTGCAGTTGTGAAAGAATGGAGgtcagt--gcagggatctagatcctcaatgagaccagtttccccagcttgtcacttcttgttcctggaaaga-----aaccagccagttttgactaccatttggaaa-------------------------------
upper sequence: Vv04s0023g01040.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: LOC_Os06g08400.1 (Oryza sativa), 5'ss of exon 7
AGAAACAGAGTATAGAGCACATCCTTTCTGGATGCAAGAGTACTGTCCCTCACATGAGCATGATGGAACTCCTCGGTGTTGTAGTTGTGAACGAACAGAGgttagttggaagaaaatacaacctcccatcccacatactcactgaagaaatcttctcgtagcttgacagattaacaactacagatttctatttttcgttttgtatttctttatagaaaatctgccaacccatgcag
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CCTGATTGAATATAGAGCACATCCTTTCTGGTTACAAAAATACTGTCCATCACATGAGGTGGACGGTACTCCAAGATGCTGTAGTTGTGAAAGAATGGAGgtacgttc-----aattaccatgtttgaatttataaatctgattcagcatactt-----ggtcagatatgttg-ctgttgcaaaattttgatc----------agttcatcaaaaaatggcttgtgctcttatcag
upper sequence: Vv04s0023g01040.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GRMZM2G099328_T04 (Zea mays), 5'ss of exon 8
AGAAACAGAGTATAGAGCACATCCTTTCTGGATGCAAGAGTACTGTCCCTCACATGAGCATGATGGAACTCCTCGGTGTTGTAGTTGTGAACGAACAGAGgttagttggaagaaaatacaacctcccatcccacatactcactgaagaaatcttctcgtagcttgacagattaacaactacagatttctatttttcgttttgtatttctttatagaaaatctgccaacccatgcag
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CCTCATTGAATACCGAGCACATCCTTTCTGGATGCAGAAGTACTGTCCTTCCCATGAAGATGATGGCACTCCTCGGTGCTGCAGTTGTGAACGAATGGAGgtcagt------aaaa-----------gttttctatatctgtcaatgagtcctgtttc---cctgttcaattcctgattggaagccgctcagttatggttattacggcaccacgacgagc----------------
upper sequence: Vv04s0023g01040.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GRMZM2G342105_T02 (Zea mays), 5'ss of exon 4
AGAAACAGAGTATAGAGCACATCCTTTCTGGATGCAAGAGTACTGTCCCTCACATGAGCATGATGGAACTCCTCGGTGTTGTAGTTGTGAACGAACAGAGgttagttggaaga--aaatacaacctcccat-cccacatactcac-tgaagaaatcttctcgtagc-ttgacagattaacaactacagatttctatttttcgttttgtatttctttatagaaaatctgccaacccatgcag
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CCTCATTGAATACCGGGCCCATCCTTTTTGGATGCAGAAGTATTGTCCTTCCCATGAAAATGATGGTACACCTAGGTGCTGCAGTTGTGAACGAATGGAGgttagtgttatgtttacatacaataatatatatatatatatatatatatatatatatatatatattattgatggattcataaaaaataaaatgtggatcc-----------------------------------------
upper sequence: Vv04s0023g01040.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GRMZM2G017845_T02 (Zea mays), 5'ss of exon 6
AGAAACAGAGTATAGAGCACATCCTTTCTGGATGCAAGAGTACTGTCCCTCACATGAGCATGATGGAACTCCTCGGTGTTGTAGTTGTGAACGAACAGAGgttagttggaagaaaatacaacctcccatcccacatactcactgaagaaatcttctcgtagcttgacagattaacaactacagatttctatttttcgtt-ttgtatttctttatagaaaatctgccaacccatgcag
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CCTTATTGAATATAGGGCACATCCTTTCTGGGTACAAAAATACTGTCCTTCACATGAAATGGATGGTACTCCGAGGTGCTGTAGTTGTGAAAGAATGGAGgtaggccagt------tagcatgtttttcttaatttggtc-ttgtgggcatatt-tcatggtt----agaagagagcctctgtgtgtgaaatttggatcatttcattccaacatggtttgttcacttaccag-----
upper sequence: Vv04s0023g01040.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GLYMA11G06650.2 (Glycine max), 5'ss of exon 3
AGAAACAGAGTATAGAGCACATCCTTTCTGGATGCAAGAGTACTGTCCCTCACATGAGCATGATGGAACTCCTCGGTGTTGTAGTTGTGAACGAACAGAGgttagttggaagaaaatacaacctcccatcccacatactcactgaagaaatcttctcgtagcttgacagattaacaactacagatttctatttttcgttttgtatttctttatagaaaatctgccaacccatgcag
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CCTCATTGAGTATAGAGCTCATCCTTTCTGGCTACAAAAATACTGCCCATCACATGAGCTTGATGGCACTTCTCGTTGTTGTAGTTGCGAAAGAATGGAGgttagtt--------atattgactcccaaatcttttcatc-ctattattatcaattagaagct-aactgttggatccttcc---tctcctccccccattccctgtcccgttttcttgccttt-tcaatcaatgcag
upper sequence: Vv04s0023g01040.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GLYMA01G38640.1 (Glycine max), 5'ss of exon 6
AGAAACAGAGTATAGAGCACATCCTTTCTGGATGCAAGAGTACTGTCCCTCACATGAGCATGATGGAACTCCTCGGTGTTGTAGTTGTGAACGAACAGAGgttagttggaagaaaatacaa--cctcccatcccacatactcactgaagaaatcttctcgtagcttgacagattaacaactacagatttctatttttcgttttgtatttctttatagaaaatctgccaacccatgcag
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TCTCATTGAGTATAGAGCTCATCCTTTCTGGCTACAAAAATACTGCCCATCACATGAGCTTGATGGCACTCCTCGTTGTTGTAGCTGCGAAAGAATGGAGgtcagttatattagctcccaaatcttttcatcctat-tattaacaattagaagct-------aactgatggatcc-cttcccctcctccctccattccctgtcccgttttcttgc------cttttcaatcagtgcag
upper sequence: Vv04s0023g01040.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GLYMA12G19010.1 (Glycine max), 5'ss of exon 6
AGAAACAGAGTATAGAGCACATCCTTTCTGGATGCAAGAGTACTGTCCCTCACATGAGCATGATGGAACTCCTCGGTGTTGTAGTTGTGAACGAACAGAGgttagttggaagaaaatacaacctcccatcccacatactcactgaagaaatcttctcgtagcttgacagattaacaactacagatttctatttttcgttttgtatttctttatagaaaatctgccaacccatgcag
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TCTCATTGAGTATAGAGCACATCCTTTCTGGCTACAAAAATATTGTCCATCGCATGAGCGTGATGGTACTCCTCGCTGTTGTAGCTGTCAAAGATTGGAGgtcagttatatcagatcacaaatttttttcataaattttgttaccaacaagcagatactgatgtatcccatctctcactcct--ttctttgtttttgtctttttcctttccgtatgaaactttccgatcatttcag
upper sequence: Vv04s0023g01040.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GLYMA02G06720.2 (Glycine max), 5'ss of exon 7
AGAAACAGAGTATAGAGCACATCCTTTCTGGATGCAAGAGTACTGTCCCTCACATGAGCATGATGGAACTCCTCGGTGTTGTAGTTGTGAACGAACAGAGgttagttggaagaaaatacaacctcccatcccacatactcactga-agaaatcttctcgtagcttgacagattaacaactacagatttctatttttcgttttgtatttctttatagaaaatctgccaacccatgcag
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TCTCATTGAGTATAGAGCACATCCTTTCTGGCTACAAAAATATTGTCCATCGCATGAGCGTGATGGTACTCCTCGCTGTTGTAGCTGTCAAAGATTGGAGgtcagctatatcagatcacaaaattttttcgtaattttttgttaccaacaagcagatactgatgtatcccatctctcactcct--ttctttgtttttgtctttttcctttccgtatgaaactttccgatcagttcag
upper sequence: Vv04s0023g01040.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GLYMA16G25750.1 (Glycine max), 5'ss of exon 7
AGAAACAGAGTATAGAGCACATCCTTTCTGGATGCAAGAGTACTGTCCCTCACATGAGCATGATGGAACTCCTCGGTGTTGTAGTTGTGAACGAACAGAGgttagttgga--agaaaatacaacctcccatcccacatactcactgaagaaatcttctcgtagcttgacagattaacaactacagatttctatttttcgttttgtatttctttatagaaaatctgccaacccatgcag
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CCTCATTGAGTATAGAGCACATCCTTTCTGGCGACAAAAATATTGTCCATCGCATGAGGGTGATGGTACTCCTCGTTGTTGTAGCTGTCAAAGAATGGAGgtcagttatatcagctagcaaaacatttcatcgtttgttgttaccaacaatatctc-------------------actcct-----ttctttgtttttgtttgtttccttttcatatgaaactttccaatcagtgcag
upper sequence: Vv04s0023g01040.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: AT4G36860.1 (Arabidopsis thaliana), 5'ss of exon 7
AGAAACAGAGTATAGAGCACATCCTTTCTGGATGCAAGAGTACTGTCCCTCACATGAGCATGATGGAACTCCTCGGTGTTGTAGTTGTGAACGAACAGAGgttagttggaagaaaatacaacctcccatcccacatactcactgaagaaatcttctcgtagcttgacagattaacaactacagat--ttctatttttcgttttgtatttctttatagaaaatctgccaacccatgcag
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TCTTATTGAGTATAGGGCACATCCCTTTTGGATGCAAAAGTATTGTCCTTCACATGAGCGTGATGGAACTCCTCGGTGTTGCAGTTGTGAGCGAATGGAGgtcagttgttcga---tatagcatttc--------tgttaataggaaaataaatttaagaatctgat---tcgaaaaccagatgttgttctgtttttggctcatggtttcag--------------------------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|110731744|gb|EE106423.1|EE106423EST: CACATGAGCATGATGGAACTCCTCGGTGTTGTAGTTGTGAACGAACAGAG GTAAGGGACATTAGTTATCTATCACTTGACGATGGTAGGAAACTATGTCTG
genomic: CACATGAGCATGATGGAACTCCTCGGTGTTGTAGTTGTGAACGAACAGAGgttagttgga ... acccatgcagGTAAGGGACATTAGGTATCTATCACTTGATGATGGTAGGAAACTATGTCTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGAAACAGAGTATAGAGCACATCCTTTCTGGATGCAAGAGTACTGTCCCTCACATGAGCATGATGGAACTCCTCGGTGTTGTAGTTGTGAACGAACAGAGgttagttggaagaaaatacaacctcccatcccacatactcactgaagaaatcttctcgtagcttgacagattaacaactacagatttctatttttcgttttgtatttctttatagaaaatctgccaacccatgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC