UHGV-0078259

Genome information

Genome length 24,726 bps

CDS count 36

Completeness 63.64% (medium-quality)

geNomad score 0.9747

Prediction confidence Confident

Genome information
Genome ID	UHGV-0078259
vOTU ID	vOTU-018024
vOTU representative	Yes
Source dataset	GPD
Original genome ID	uvig_151340
BioSample	NA
Country	Sweden
Virus prediction confidence	Confident

Quality assessment
CheckV method	AAI-based
CheckV completeness	63.64% (medium-quality)
CheckV contamination	0.00%
Trimmed provirus	No
CheckV viral markers	11
CheckV host markers	0
Recoded stop codon	No

Viral signal
geNomad score	0.9747
Virus hallmark genes (geNomad)	6
Plasmid hallmark genes (geNomad)	0
viralVerify prediction	Virus
viralVerify score	15.51
Jumbo phage	No

Genome content
Genome length	24,726 bps
GC content	45.42%
Genetic code	The standard bacterial, archaeal and plant plastid code (11)
CDS count	36
CDS density	86.74%
Average CDS length	600.25 bps
tRNA count	1
Suppressor tRNA genes	0

Genome content

Select view: Genome viewer Functional annotation

Functional annotation

Gene ID	Reference	Reference ID	Information	Category
UHGV-0078259_1	PHROG	phrog_13199	NA	unknown function
UHGV-0078259_1	eggNOG-mapper	476272.RUMHYD_02851	NA	NA
UHGV-0078259_2	PHROG	phrog_2303	head scaffolding protein	head and packaging
UHGV-0078259_2	eggNOG-mapper	1304866.K413DRAFT_0806	NA	NA
UHGV-0078259_3	PHROG	phrog_422	major head protein	head and packaging
UHGV-0078259_3	UniRef90	UniRef90_UPI001C03381A	phage capsid protein	NA
UHGV-0078259_3	eggNOG-mapper	663278.Ethha_1589	NA	NA
UHGV-0078259_3	Structural annotation	PF19821, MF_04119, TIGR04387, COG4653	NA	NA
UHGV-0078259_4	PHROG	phrog_541	head-tail adaptor	connector
UHGV-0078259_4	eggNOG-mapper	1298920.KI911353_gene4848	NA	NA
UHGV-0078259_5	PHROG	phrog_8710	NA	unknown function
UHGV-0078259_5	eggNOG-mapper	742740.HMPREF9474_03508	NA	NA
UHGV-0078259_5	Structural annotation	PF10665, TIGR01563, COG5614	NA	NA
UHGV-0078259_6	PHROG	phrog_556	minor head protein	head and packaging
UHGV-0078259_6	eggNOG-mapper	742740.HMPREF9474_03509	NA	NA
UHGV-0078259_7	PHROG	phrog_2595	head-tail connector protein	connector
UHGV-0078259_7	UniRef90	UniRef90_UPI001C00BA9C	minor capsid protein	NA
UHGV-0078259_7	eggNOG-mapper	483218.BACPEC_01150	NA	NA
UHGV-0078259_7	Pfam	PF12691	Bacteriophage minor capsid protein	Minor_capsid_3
UHGV-0078259_7	Structural annotation	PF12691, COG5003	NA	NA
UHGV-0078259_8	PHROG	phrog_820	major tail protein	tail
UHGV-0078259_8	eggNOG-mapper	1282664.H354_06691	NA	NA
UHGV-0078259_8	Structural annotation	PF06199, TIGR02126, COG5437	NA	NA
UHGV-0078259_9	PHROG	phrog_8300	NA	unknown function
UHGV-0078259_9	eggNOG-mapper	1282664.H354_06701	NA	NA
UHGV-0078259_9	Structural annotation	PF06854	NA	NA
UHGV-0078259_10	PHROG	phrog_8355	NA	unknown function
UHGV-0078259_10	UniRef90	UniRef90_UPI001C031F13	Gp15 family bacteriophage protein	NA
UHGV-0078259_10	eggNOG-mapper	33035.JPJF01000093_gene2244	NA	NA
UHGV-0078259_11	PHROG	phrog_1535	tail length tape measure protein	tail
UHGV-0078259_11	UniRef90	UniRef90_A0A1C5PIN9	Phage-related protein	NA
UHGV-0078259_11	eggNOG-mapper	33035.JPJF01000093_gene2243	phage tail tape measure protein	NA
UHGV-0078259_11	COG	COG3941	Phage tail tape-measure protein, controls tail length	NA
UHGV-0078259_11	Structural annotation	PF20155, TIGR01760, COG3941	NA	NA
UHGV-0078259_12	PHROG	phrog_1194	NA	unknown function
UHGV-0078259_12	eggNOG-mapper	33035.JPJF01000093_gene2242	NA	NA
UHGV-0078259_12	Structural annotation	PF20458, TIGR02126, COG3499	NA	NA
UHGV-0078259_13	PHROG	phrog_6616	tail protein	tail
UHGV-0078259_13	UniRef90	UniRef90_UPI00085BC306	tail fiber domain-containing protein	NA
UHGV-0078259_13	eggNOG-mapper	1121866.AUGK01000003_gene1439	Phage minor structural protein	NA
UHGV-0078259_13	COG	COG4926	Phage-related protein	NA
UHGV-0078259_13	Structural annotation	PF05113, NF033848, COG3500	NA	NA
UHGV-0078259_14	eggNOG-mapper	1408428.JNJP01000079_gene3365	Phage tail-collar fibre protein	NA
UHGV-0078259_14	COG	COG4675	Phage tail collar domain	NA
UHGV-0078259_14	Structural annotation	PF18614, MF_00216, NF003076, COG1585	NA	NA
UHGV-0078259_15	KOfam	K03646	tolA; colicin import membrane protein	NA
UHGV-0078259_15	PHROG	phrog_16164	NA	unknown function
UHGV-0078259_15	eggNOG-mapper	33035.JPJF01000093_gene2236	NA	NA
UHGV-0078259_17	PHROG	phrog_199	holin	lysis
UHGV-0078259_17	UniRef90	UniRef90_A0A3D4RB03	Holin	NA
UHGV-0078259_17	eggNOG-mapper	411459.RUMOBE_01714	Bacteriophage holin family	NA
UHGV-0078259_17	Pfam	PF05105	Bacteriophage holin family	Phage_holin_4_1
UHGV-0078259_17	NCBIFam	TIGR01593.1	toxin secretion/phage lysis holin	NA
UHGV-0078259_17	COG	COG4824	Phage-related holin (Lysis protein)	NA
UHGV-0078259_17	Structural annotation	PF05105, TIGR01593, COG4824	NA	NA
UHGV-0078259_18	KOfam	K11062	entD; probable enterotoxin D	NA
UHGV-0078259_18	PHROG	phrog_1794	amidase	lysis
UHGV-0078259_18	UniRef90	UniRef90_A0A1C5QWL7	N-acetylmuramoyl-L-alanine amidase AmiD	NA
UHGV-0078259_18	eggNOG-mapper	411470.RUMGNA_02087	N-Acetylmuramoyl-L-alanine amidase	NA
UHGV-0078259_18	Pfam	PF01510	N-acetylmuramoyl-L-alanine amidase	Amidase_2
UHGV-0078259_18	COG	COG0860	N-acetylmuramoyl-L-alanine amidase	NA
UHGV-0078259_18	Structural annotation	PF01510, MF_04111, NF008758, COG5632	NA	NA
UHGV-0078259_19	KOfam	K14059	int; integrase	NA
UHGV-0078259_19	PHROG	phrog_1	integrase	integration and excision
UHGV-0078259_19	UniRef90	UniRef90_A0A1C5V7Z7	Tyrosine recombinase XerD	NA
UHGV-0078259_19	eggNOG-mapper	397288.C806_02995	Phage integrase family	NA
UHGV-0078259_19	Pfam	PF14659	Phage integrase, N-terminal SAM-like domain	Phage_int_SAM_3
UHGV-0078259_19	Pfam	PF00589	Phage integrase family	Phage_integrase
UHGV-0078259_19	COG	COG0582	Integrase/recombinase, includes phage integrase	NA
UHGV-0078259_19	Structural annotation	PF00589, PF13102, MF_01808, TIGR02224, COG4974	NA	NA
UHGV-0078259_20	KOfam	K18830	pezA; HTH-type transcriptional regulator / antitoxin PezA	NA
UHGV-0078259_20	PHROG	phrog_8	transcriptional regulator	transcription regulation
UHGV-0078259_20	UniRef90	UniRef90_R6RLS4	Helix-turn-helix domain protein	NA
UHGV-0078259_20	eggNOG-mapper	397288.C806_02792	Helix-turn-helix XRE-family like proteins	NA
UHGV-0078259_20	PADLOC	retron_type_VI_hth_cluster2_1	NA	Retron
UHGV-0078259_20	Pfam	PF01381	Helix-turn-helix	HTH_3
UHGV-0078259_20	COG	COG1396	Transcriptional regulator, contains XRE-family HTH domain	NA
UHGV-0078259_21	UniRef90	UniRef90_A0A1C5V846	HTH cro/C1-type domain-containing protein	NA
UHGV-0078259_21	eggNOG-mapper	397291.C804_01600	Cro/C1-type HTH DNA-binding domain	NA
UHGV-0078259_21	Pfam	PF13443	Cro/C1-type HTH DNA-binding domain	HTH_26
UHGV-0078259_21	Structural annotation	PF13443, NF041951, COG1476	NA	NA
UHGV-0078259_24	UniRef90	UniRef90_A0A3D4R9M2	Excisionase	NA
UHGV-0078259_24	eggNOG-mapper	397288.C806_03001	NA	NA
UHGV-0078259_24	Pfam	PF12728	Helix-turn-helix domain	HTH_17
UHGV-0078259_24	NCBIFam	TIGR01764.1	excisionase family DNA-binding protein	NA
UHGV-0078259_24	Structural annotation	PF12728, TIGR01764, COG3311	NA	NA
UHGV-0078259_26	PHROG	phrog_5708	DnaD-like helicase loader	DNA, RNA and nucleotide metabolism
UHGV-0078259_26	UniRef90	UniRef90_UPI0018994D15	replisome organizer	NA
UHGV-0078259_26	eggNOG-mapper	1507.HMPREF0262_00303	DnaD domain protein	NA
UHGV-0078259_26	COG	COG3935	DNA replication protein DnaD	NA
UHGV-0078259_26	Structural annotation	PF09681, TIGR01714	NA	NA
UHGV-0078259_27	KOfam	K02315	dnaC; DNA replication protein DnaC	NA
UHGV-0078259_27	PHROG	phrog_50	DnaC-like helicase loader	DNA, RNA and nucleotide metabolism
UHGV-0078259_27	UniRef90	UniRef90_A0A3D4R9K4	IstB_IS21 domain-containing protein	NA
UHGV-0078259_27	eggNOG-mapper	397291.C804_01604	Bacterial dnaA protein	NA
UHGV-0078259_27	Pfam	PF01695	IstB-like ATP binding protein	IstB_IS21
UHGV-0078259_27	COG	COG1484	DNA replication protein DnaC	NA
UHGV-0078259_27	Structural annotation	PF01695, MF_00377, NF005992, COG1484	NA	NA
UHGV-0078259_30	KOfam	K07741	antB; anti-repressor protein	NA
UHGV-0078259_30	PHROG	phrog_5817	anti-repressor Ant	transcription regulation
UHGV-0078259_30	UniRef90	UniRef90_A0A1C5V9D1	Phage anti-repressor protein	NA
UHGV-0078259_30	eggNOG-mapper	1094491.BBbe_08140	protein HI1422 of Haemophilus influenzae (P44193)	NA
UHGV-0078259_30	Pfam	PF08346	AntA/AntB antirepressor	AntA
UHGV-0078259_30	COG	COG3561	Phage anti-repressor protein Ant	NA
UHGV-0078259_33	KOfam	K07339	hicA; mRNA interferase HicA [EC:3.1.-.-]	NA
UHGV-0078259_33	PHROG	phrog_353	toxin	moron, auxiliary metabolic gene and host takeover
UHGV-0078259_33	UniRef90	UniRef90_A0A1C5V986	YcfA-like protein	NA
UHGV-0078259_33	eggNOG-mapper	397287.C807_02050	HicA toxin of bacterial toxin-antitoxin,	NA
UHGV-0078259_33	Pfam	PF07927	HicA toxin of bacterial toxin-antitoxin,	HicA_toxin
UHGV-0078259_33	COG	COG1724	Predicted RNA binding protein YcfA, dsRBD-like fold, HicA-like mRNA interferase family	NA
UHGV-0078259_33	Structural annotation	PF07927, COG1724	NA	NA
UHGV-0078259_34	KOfam	K18843	hicB; antitoxin HicB	NA
UHGV-0078259_34	PHROG	phrog_497	toxin-antitoxin system HicB-like	moron, auxiliary metabolic gene and host takeover
UHGV-0078259_34	UniRef90	UniRef90_R6BL72	HicB-like domain-containing protein	NA
UHGV-0078259_34	eggNOG-mapper	397287.C807_02051	HicB_like antitoxin of bacterial toxin-antitoxin system	NA
UHGV-0078259_34	Pfam	PF15919	HicB_like antitoxin of bacterial toxin-antitoxin system	HicB_lk_antitox
UHGV-0078259_34	COG	COG1598	Antitoxin component HicB of the HicAB toxin-antitoxin system	NA
UHGV-0078259_34	Structural annotation	PF15919, COG1598	NA	NA
UHGV-0078259_36	KOfam	K03086	rpoD; RNA polymerase primary sigma factor	NA
UHGV-0078259_36	PHROG	phrog_351	RNA polymerase sigma factor	transcription regulation
UHGV-0078259_36	UniRef90	UniRef90_A0A1C5V9K3	RNA polymerase sigma factor rpoD	NA
UHGV-0078259_36	eggNOG-mapper	1232453.BAIF02000002_gene1280	Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This sigma factor is the primary sigma factor during exponential growth	NA
UHGV-0078259_36	PADLOC	MzaA_00001	NA	mzaABCDE
UHGV-0078259_36	Pfam	PF04542	Sigma-70 region 2	Sigma70_r2
UHGV-0078259_36	Pfam	PF04545	Sigma-70, region 4	Sigma70_r4
UHGV-0078259_36	NCBIFam	TIGR02937.1	sigma-70 family RNA polymerase sigma factor	NA
UHGV-0078259_36	COG	COG0568	DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)	NA
UHGV-0078259_36	Structural annotation	PF04545, PF04542, PF04539, MF_00959, TIGR02980, COG0568	NA	NA