Borrelia burdorferi Genome Browser
Borrelia burgdorferi Sequencing ConsortiumThis site houses bioinformatics tools for analysis of Borrelia burgdorferi, the Lyme Disease Spirochete.
Here you may search for orfs, perform protein of nucleotide Blast and use our custom visualization software: The Seenome.
The seenome facilitates comparative genomics by providing real-time display and processing of 26 Borrelia burgdorferi genomes.
Click on Seenome to enter the application, or instructions to view tutorials and learn more.
Search:
Enter a orf id, locus name to search the orfs.
Blast:
Copy and paste a string of proteins or nucleotides, The program will execute BlastP or BlastN depending on your input.
Download B31
(Rollover to view the contigs)
(Rollover to view the contigs)
Loading...
- Click on Genomes to the left to load a genome.
- Drag the the vertical scroll bar to zoom through various levels of genetic data.
- Drag the the horizontal scroll bar to move along a sequence.
- Type an orf id an press return/enter to search for an orf.
- Click on the orf whose orthologs you wish to view.
- Now press the "Load Orthologous Button near the bottom of the screen.
- Click on every orf that you want to align.
- Make sure they show up on the list of loaded orfs to the right.
- When every orf that you wish to align is on the ors loaded list click the align button.
- Wait until the message says "Alignment Loaded" (about ten seconds).
- Now you may view the alignment
- Use the vertical scroll bar to zoom into the amino acid and DNA levels.
- Navigate to the orf level using the vertical scroll bar.
- Click on the upper right corner where it says "Enter a pdb id."
- Enter a pdb id such as 1dxx. Press return. The protein will load/
General Navigation:
To View Orthologous Orfs:
To Make an Alignment:
To Load Proteins from the Protein Data Bank:
Open Reading Frame (orf) Data
DNA Orf Data
Protein Orf Data
Contig Sequences:
Main Contig Fasta
lp5 Contig Fasta
lp17 Contig Fasta
lp21 Contig Fasta
lp25 Contig Fasta
lp28-1 Contig Fasta
lp28-2 Contig Fasta
lp28-3 Contig Fasta
lp28-4 Contig Fasta
lp36 Contig Fasta
lp38 Contig Fasta
lp54 Contig Fasta
lp56 Contig Fasta
cp9 Contig Fasta
cp26 Contig Fasta
cp32-1 Contig Fasta
cp32-3 Contig Fasta
cp32-4 Contig Fasta
cp32-6 Contig Fasta
cp32-7 Contig Fasta
cp32-8 Contig Fasta
cp32-9 Contig Fasta
DNA Orf Data
Protein Orf Data
Contig Sequences:
Main Contig Fasta
lp5 Contig Fasta
lp17 Contig Fasta
lp21 Contig Fasta
lp25 Contig Fasta
lp28-1 Contig Fasta
lp28-2 Contig Fasta
lp28-3 Contig Fasta
lp28-4 Contig Fasta
lp36 Contig Fasta
lp38 Contig Fasta
lp54 Contig Fasta
lp56 Contig Fasta
cp9 Contig Fasta
cp26 Contig Fasta
cp32-1 Contig Fasta
cp32-3 Contig Fasta
cp32-4 Contig Fasta
cp32-6 Contig Fasta
cp32-7 Contig Fasta
cp32-8 Contig Fasta
cp32-9 Contig Fasta
This work was made possible by a generous grant from the
National Institute of Health |
Fraser-Liggett, C.M. (Unviersity of Maryland) |
Mongodin, E.F. (University of Maryland) |
Casjens, S.R. (University of Utah Medical Center) |
Dunn, J. (Brookhaven National Labs) |
Luft, B.J. (Stony Brook University) |
Qiu, W.G. (Hunter College of the City University of New York) |
Schutzer, S.E. (New Jersey Medical School)
National Institute of Health |
Fraser-Liggett, C.M. (Unviersity of Maryland) |
Mongodin, E.F. (University of Maryland) |
Casjens, S.R. (University of Utah Medical Center) |
Dunn, J. (Brookhaven National Labs) |
Luft, B.J. (Stony Brook University) |
Qiu, W.G. (Hunter College of the City University of New York) |
Schutzer, S.E. (New Jersey Medical School)
How To Use This Site
- How To Download Sequences
Click the download link in the table below. Select the contiguous sequence you desire.
- How To Search
Enter a keyword, orf id, or locus name of the orf you seek. Press enter/return.
How To Use The Seenome Visualizer
- Click on Genomes to the left to load a genome.
- Drag the the vertical scroll bar to zoom through various levels of genetic data.
- Drag the the horizontal scroll bar to move along a sequence.
- Type an orf id an press return/enter to search for an orf.
- Click on every orf that you want to align.
- Make sure they show up on the list of loaded orfs to the right.
- When every orf that you wish to align is on the ors loaded list click the align button.
- Wait until the message says "Alignment Loaded" (about ten seconds).
- Now you may view the alignment
- Use the vertical scroll bar to zoom into the amino acid and DNA levels.
General Navigation:
To Make an Alignment:
Paralogous Family #
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Click on the cladogram to view a phylogram
| Strain | Species | Assembly Version | NCBI # | OSPC | Download |
|---|---|---|---|---|---|
| DAH | B. hermsii | Porcella et al 2008 | 314723 | Download |
|
| VS116 | B. valaisiana | Casjens etal 02.25.2009 | 445987 | Download |
|
| PKo | B. afzelii | Glockner et al 2006 | 390236 | Download |
|
| ACA-1 | B. afzelii | 10.14.2008 | 445986 | Download |
|
| A14S | B. spielmanii | Casjens etal 02.25.2009 | 498742 | Download |
|
| Far04 | B. garinii | Casjens etal 02.25.2009 | 519049 | Download |
|
| PBr | B. garinii | Casjens etal 02.25.2009 | 498743 | Download |
|
| PBi | B. garinii | Glockner et al 2004 | 290434 | Download |
|
| 64b | B. burgdorferi s.s. | Casjens etal 02.25.2009 | 498740 | Download |
|
| B31 | B. burgdorferi s.s. | Fraser_etal 1997 & Casjens_etal 2000 | 224326 | A | Download |
| ZS7 | B. burgdorferi s.s. | Casjens etal 02.25.2009 | 445985 | Download |
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| BOL26 | B. burgdorferi s.s. | Casjens etal 02.25.2009 | 445984 | Download |
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| 156a | B. burgdorferi s.s. | 10.14.2008 | 445983 | Download |
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| CA-11.2A | B. burgdorferi s.s. | Casjens etal 02.25.2009 | 498739 | Download |
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| 72a | B. burgdorferi s.s. | 10.14.2008 | 476211 | Download |
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| 29805 | B. burgdorferi s.s. | 498738 | Download |
||
| JD1 | B. burgdorferi s.s. | 07.26.2007 | 521008 | Download |
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| 94a | B. burgdorferi s.s. | 476212 | Download |
||
| 118a | B. burgdorferi s.s. | 10.14.2008 | 476210 | Download |
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| WI91-23 | B. burgdorferi s.s. | Casjens etal 02.25.2009 | 498737 | Download |
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| N40 | B. burgdorferi s.s. | 07.26.2007 | 521007 | Download |
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| SV1 | B. burgdorferi s.s. | Casjens etal 02.25.2009 | 498741 | Download |
|
| DN127 | B. burgdorferi s.s. | 08.16.2005 | 521010 | Download |
cp9
cp26
unknown
lp17
lp28-3
lp28-4
lp28-8
lp36
lp38
lp54
cp32
cp32
cp32
cp32
cp32
cp32
cp32
cp32
cp32
cp32
cp32
cp32
cp32
cp32
cp32
cp32
cp32
cp32
cp32
cp32
cp32
cp32
cp32
cp32
cp32
cp32
main
main
main
main
main
main
main
main
main
lp36
cp26
lp54
lp17
lp25
lp32-10
lp28-1
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
lp54
cp32-10
cp26
cp32-5
lp28-3
lp28-4
lp28-7
lp17
lp28-1
lp36
lp25
chromosome
chromosome
chromosome
chromosome
lp17
lp28-5
lp38
lp36
lp28-3
lp28-2
lp28-4
lp54
lp28-1
cp26
cp32-9
cp32-1
cp32-11
cp32-5
cp32-6
cp32-7
cp32-4
cp32-3+8
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
main
cp26(plasmid_B)
cp32-1(plasmid_P)
cp32-3(plasmid_S)
cp32-4(plasmid_R)
cp32-6(plasmid_M)
cp32-7(plasmid_O)
cp32-8(plasmid_L)
cp32-9(plasmid_N)
cp9(plasmid_C)
lp17(plasmid_D)
lp21(plasmid_U)
lp25(plasmid_E)
lp28-1(plasmid_F)
lp28-2(plasmid_G)
lp28-3(plasmid_H)
lp28-4(plasmid_I)
lp36(plasmid_K)
lp38(plasmid_J)
lp5(plasmid_T)
lp54(plasmid_A)
lp56(plasmid_Q)
cp26
cp32-1
cp32-3+10
cp32-4
cp32-9
cp32-12
lp17
lp25
lp28-1
lp28-2
lp28-3
lp28-4
lp36
lp54
chromosome
cp26
cp32-5
cp32-9
cp32-12
lp17
lp28-1
lp28-3
lp28-4
lp36
lp54
cp32-10
cp32-4
cp32-?-Fragment–noPFam32gene
cp32-?-Fragment–noPFam32gene
cp32-11
cp32-?-Fragmentconnectedtocon197
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
lp56
cp26
cp32-10
lp38
cp32-13
cp32-3
cp32-1
cp32-5
lp54
lp28-3
lp17
lp36+28-4
chromosome
chromosome
chromosome
chromosome
chromosome
lp28-2
lp28-4
lp54
lp25
lp28-3
lp17
lp36
lp28-6
cp32-12
cp32-7
cp32-4
cp26
cp32-5
cp32-9
lp38
main
main
main
main
main
main
main
main
main
main
main
main
main
main
main
main
main
main
main
main
main
main
main
main
main
main
main
main
main
main
main
main
main
main
main
main
main
main
lp28-1
cp32-6
lp25
cp32-11
cp32-1+5
cp32-8
chromosome
lp17
lp28-3
lp36
cp26
lp28-5
lp28-4
lp28-7
cp32-3
cp32-12
lp54
cp32-9
cp32-10
lp28-6
lp38
lp28-8
lp28-8
lp28-8
cp9
lp36
lp56
lp17
cp26
cp32-11
cp32-7
cp32-6
cp32-10
cp32-5
lp54
lp28-3
lp28-4
main
main
main
main
main
main
main
main
cp9-3
cp9-1part1
cp9-1part2
cp9-1part3
cp26
cp32-1
cp32-4
cp32-5
cp32-6
cp32-7
cp32-10
cp32-11
lp5
lp17
lp25
lp28-1
lp28-3
lp28-4
lp28-6
lp36
lp38
lp54
lp56
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
chromosome
cp32-5
chromosome
cp32-2
lp36
cp9
lp28-2
lp25
cp32-4
lp28-5
lp28-4
lp38
cp32-12
lp54
cp26
cp32-10
lp17
cp32-9
cp26
cp32-4
cp32-7
cp32-3
lp17
lp28-4
lp32-6
lp54
lp32-12
lp28-2
main
main
main
main
main
main
lp54
cp26
lp28-2
lp28-3
lp28-4
lp25
lp36
lp17
cp9
cp32-3
cp32-4
cp32-6
cp32-7
cp32-x1
cp32-x2
cp32-x3
Design: Samwell Freeman
This work was made possible by a generous grant from the
National Institute of Health |
Fraser-Liggett, C.M. (Unviersity of Maryland) |
Mongodin, E.F. (University of Maryland) |
Casjens, S.R. (University of Utah Medical Center) |
Dunn, J. (Brookhaven National Labs) |
Luft, B.J. (Stony Brook University) |
Qiu, W.G. (Hunter College of the City University of New York) |
Schutzer, S.E. (New Jersey Medical School)