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Vix

Locally BLAST this genome
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Detailed Information for Phage Vix
Discovery Information
Found by Megan Ludwig
Found in Holland, MI USA
Finding Institution Hope College
Year Found 2009
From enriched soil sample? Unknown
Program SEA Program
GPS Coordinates 42.789061 N, 86.100782 W Map
Discovery Notes Soil
Sequencing Information
Sequencing Complete? Yes
Sequencing Facility JGI
Shotgun Sequencing Method 454 and Illumina
Genome length (bp) 50963
GC Content 64.0%
Character of genome ends Defined physical ends
3' Overhang Length 10 bp
Fasta file available? Yes: Download fasta file
Characterization
Cluster A
Other Cluster Members

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Abrogate (A1)

Aeneas (A1)

Anglerfish (A1)

Bethlehem (A1)

BillKnuckles (A1)

Bob3 (A1)

BPBiebs31 (A1)

Bruns (A1)

BuckeyeNut (A1)

Bxb1 (A1)

ConceptII (A1)

DD5 (A1)

Doom (A1)

Dreamboat (A1)

Euphoria (A1)

Fascinus (A1)

FlowerChild (A1)

Fushigi (A1)

Jasper (A1)

JC27 (A1)

KatAttack (A1)

KBG (A1)

KSSJEB (A1)

Kugel (A1)

Lesedi (A1)

Lockley (A1)

Magnito (A1)

Manatee (A1)

Marcell (A1)

Minion (A1)

MPlant7149 (A1)

MrGordo (A1)

Museum (A1)

Nepal (A1)

Pari (A1)

PattyP (A1)

Perseus (A1)

RidgeCB (A1)

SkiPole (A1)

Solon (A1)

Spite (A1)

Switzer (A1)

Target (A1)

Trouble (A1)

U2 (A1)

Violet (A1)

Goose (A10)

Severus (A10)

Twister (A10)

Buddy (A2)

Che12 (A2)

D29 (A2)

Epoch (A2)

Goethe (A2)

GridersLegacy (A2)

KingSt (A2)

L5 (A2)

Lincaica11 (A2)

Nemo (A2)

Pukovnik (A2)

RedRock (A2)

Scorpio7 (A2)

Stumpy (A2)

Trixie (A2)

Turbido (A2)

Tyrone (A2)

Bxz2 (A3)

Dumpling (A3)

FloMo (A3)

HelDan (A3)

JHC117 (A3)

Jobu08 (A3)

Methuselah (A3)

Microwolf (A3)

Misomonster (A3)

Norbert (A3)

Rockstar (A3)

Vix (A3)

Wonder (A3)

Arturo (A4)

Backyardigan (A4)

Dhanush (A4)

Eagle (A4)

Flapjack (A4)

Flux (A4)

ICleared (A4)

LHTSCC (A4)

Maverick (A4)

MeeZee (A4)

Mundrea (A4)

Peaches (A4)

Sabertooth (A4)

Shaka (A4)

TiroTheta9 (A4)

TygerBlood (A4)

Wile (A4)

Wizard007 (A4)

Airmid (A5)

Benedict (A5)

Chadwick (A5)

Cuco (A5)

ElTiger69 (A5)

George (A5)

LittleCherry (A5)

Theia (A5)

Tiger (A5)

Blue7 (A6)

DaVinci (A6)

EricB (A6)

Gladiator (A6)

Hammer (A6)

Jeffabunny (A6)

HINdeR (A7)

Timshel (A7)

Astro (A8)

Saintus (A8)

Smeadley (A8)

Alma (A9)

PackMan (A9)

Afua (Unknown)

BaxterTD (Unknown)

Brooklyn (Unknown)

Butters (Unknown)

HerbSipe (Unknown)

Loser (Unknown)

Nakoi (Unknown)

Norris007 (Unknown)

Ousia (Unknown)

Oxente (Unknown)

Pbnep65 (Unknown)

PhrostyMug (Unknown)

Sabinator (Unknown)

SargentsShorty (Unknown)

Scooter (Unknown)

Skpmule (Unknown)

SmallSoldier (Unknown)

Spheric (Unknown)

Star (Unknown)

Uffda (Unknown)

Zeeba (Unknown)

Subcluster A3
Morphotype Siphoviridae
Has been Phamerated? Yes
Has been Annotated? Yes
Gene List

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Vix_gp1
(phi:0000326 - phage function unknown)

Vix_gp2
(phi:0000326 - phage function unknown)

Vix_gp3
(phi:0000326 - phage function unknown)

Vix_gp4
(phi:0000326 - phage function unknown Possible function triple helix repeat-containing collagen. Almost every hit in BLAST showed as possible function. No AMIGO term.)

Vix_gp5
(phi:0000326 - phage function unknown)

Vix_gp6
(phi:0000326 - phage function unknown)

Vix_gp7
(phi:0000326 - phage function unknown)

Vix_gp8
(phi:0000339 - phage lysozyme activity)

Vix_gp9
(phi:0000326 - phage function unknown)

Vix_gp10
(phi:0000073 - phage terminase large subunit)

Vix_gp11
(phi:0000068 - phage portal protein)

Vix_gp12
(phi:0000123 - prohead protease activity)

Vix_gp13
(phi:0000065 - phage scaffolding protein)

Vix_gp14
(phi:0000064 - phage head/capsid protein)

Vix_gp15
(phi:0000326 - phage function unknown)

Vix_gp16
(phi:0000326 - phage function unknown Phage gp19 superfamily but no function given.)

Vix_gp17
(phi:0000326 - phage function unknown)

Vix_gp18
(phi:0000326 - phage function unknown)

Vix_gp19
(phi:0000326 - phage function unknown)

Vix_gp20
(phi:0000326 - phage function unknown)

Vix_gp21
(phi:0000326 - phage function unknown)

Vix_gp22
(phi:0000326 - phage function unknown)

Vix_gp23
(phi:0000326 - phage function unknown)

Vix_gp24
(phi:0000086 - phage tail tape measure protein)

Vix_gp25
(phi:0000178 - phage minor tail protein)

Vix_gp26
(phi:0000178 - phage minor tail protein)

Vix_gp27
(phi:0000326 - phage function unknown)

Vix_gp28
(phi:0000326 - phage function unknown)

Vix_gp29
(phi:0000326 - phage function unknown)

Vix_gp30
(phi:0000178 - phage minor tail protein)

Vix_gp31
(phi:0000326 - phage function unknown)

Vix_gp32
(phi:0000326 - phage function unknown)

Vix_gp33
(phi:0000145 - tyrosine based integrase activity)

Vix_gp34
(phi:0000122 - excisionase activity)

Vix_gp35
(phi:0000109 - DNA binding activity)

Vix_gp36
(phi:0000326 - phage function unknown)

Vix_gp37
(phi:0000326 - phage function unknown)

Vix_gp38
(phi:0000326 - phage function unknown)

Vix_gp39
(phi:0000326 - phage function unknown)

Vix_gp40
(phi:0000326 - phage function unknown)

Vix_gp41
(phi:0000326 - phage function unknown)

Vix_gp42
(phi:0000326 - phage function unknown)

Vix_gp43
(phi:0000326 - phage function unknown)

Vix_gp44
(phi:0000326 - phage function unknown)

Vix_gp45
(phi:0000115 - DNA directed DNA polymerase activity)

Vix_gp46
(phi:0000184 - transcription factor activity)

Vix_gp47
(phi:0000326 - phage function unknown The highesst percentage with phi term was for the endonuclease, wih a coverage of only 56%, but since the lised above were only hypothetical proteins, I decided to use this phi term. The superfamily had two different functions, one being antidote protein and the ther helix proteins. When compared with Bxz2 the sequence matched with gene 46.)

Vix_gp48
(phi:0000326 - phage function unknown)

Vix_gp49
(phi:0000326 - phage function unknown This superfamily is associated with the tymidylate synthase, and there were many blast hits with this sequence. I couldn)

Vix_gp50
(phi:0000326 - phage function unknown)

Vix_gp51
(phi:0000326 - phage function unknown This gene was in the RNR_PLF superfamily with the Multi-domain RTPR. The function was conserved in 499 genes as ribonucleoside reductase; however, there was no amiGO term for this function, the superfamily, or the multi-domain.)

Vix_gp52
(phi:0000326 - phage function unknown)

Vix_gp53
(phi:0000326 - phage function unknown)

Vix_gp54
(phi:0000326 - phage function unknown When the psiBLAST was done with only one iteneration, there were 17 genes that had the same protein conserved. 15 of these genes were from mycobacteriophage. The gene was annotated as Calcineurin-like phosphoesterase in the majority of these cases. The first seven of these genes, which all had 100% query coverage using the psiBLASTp, had this annotation. There was no amiGO term for this function, the superfamily, or the multifamily.)

Vix_gp55
(phi:0000326 - phage function unknown)

Vix_gp56
(phi:0000326 - phage function unknown)

Vix_gp57
(phi:0000118 - DNA primase activity)

Vix_gp58
(phi:0000126 - DNA endonuclease activity)

Vix_gp59
(phi:0000326 - phage function unknown This gene hit seven other mycobacteriophage genes with the psiBLASTp. For all of these genes, the function of the gene was annotated as Esterase Lipase. These genes all had a query coverage of 84% or above. However, there was no amiGO term for this function or for the superfamily.)

Vix_gp60
(phi:0000326 - phage function unknown This gene is part of the lysine dercarboxylase superfamily and hit 10 mycobacteriophages with a query coverage of 85% or higher in this family when a psiBLASTp was used. Athough this region is conserved, the function of the region is unknown.)

Vix_gp61
(phi:0000326 - phage function unknown)

Vix_gp62
(phi:0000114 - DNA helicase activity)

Vix_gp63
(phi:0000326 - phage function unknown)

Vix_gp64
(phi:0000326 - phage function unknown)

Vix_gp65
(phi:0000326 - phage function unknown)

Vix_gp66
(phi:0000326 - phage function unknown)

Vix_gp67
(phi:0000326 - phage function unknown)

Vix_gp68
(phi:0000119 - DNA exonuclease activity)

Vix_gp69
(phi:0000326 - phage function unknown)

Vix_gp70
(phi:0000326 - phage function unknown)

Vix_gp71
(phi:0000326 - phage function unknown)

Vix_gp72
(phi:0000326 - phage function unknown)

Vix_gp73
(phi:0000326 - phage function unknown)

Vix_gp74
(phi:0000326 - phage function unknown)

Vix_gp75
(phi:0000326 - phage function unknown)

Vix_gp76
(phi:0000326 - phage function unknown)

Vix_gp77
(phi:0000326 - phage function unknown)

Vix_gp78
(phi:0000326 - phage function unknown)

Vix_gp79
(phi:0000326 - phage function unknown)

Vix_gp80
(phi:0000101 - ATPase activity)

Vix_gp81
(phi:0000326 - phage function unknown)

Vix_gp82
(phi:0000326 - phage function unknown)

Vix_gp83
(phi:0000326 - phage function unknown)

Number of Genes 82
Number of tRNAs 3
Number of tmRNAs 0
Is live and searchable in GenBank? Yes: JF704114
Available Multimedia
Virtual Digest Picture Download
Archiving Info
SEA Designator 2009HOPEvixMLL
SEA Lysate Titer 1.4e10
Pitt Freezer Box# 4
Pitt Freezer Box Grid# 15