UHGV-0071617

Genome information

Genome length 31,003 bps

CDS count 51

Completeness 50.95% (medium-quality)

geNomad score 0.9756

Prediction confidence Confident

Genome information
Genome ID	UHGV-0071617
vOTU ID	vOTU-041381
vOTU representative	Yes
Source dataset	GPD
Original genome ID	uvig_121491
BioSample	SAMEA2580060
Country	Denmark
Virus prediction confidence	Confident

Quality assessment
CheckV method	AAI-based
CheckV completeness	50.95% (medium-quality)
CheckV contamination	0.00%
Trimmed provirus	No
CheckV viral markers	11
CheckV host markers	1
Recoded stop codon	No

Viral signal
geNomad score	0.9756
Virus hallmark genes (geNomad)	12
Plasmid hallmark genes (geNomad)	0
viralVerify prediction	Virus
viralVerify score	31.94
Jumbo phage	No

Genome content
Genome length	31,003 bps
GC content	44.87%
Genetic code	The standard bacterial, archaeal and plant plastid code (11)
CDS count	51
CDS density	93.70%
Average CDS length	573.18 bps
tRNA count	2
Suppressor tRNA genes	0

Genome content

Select view: Genome viewer Functional annotation

Functional annotation

Gene ID	Reference	Reference ID	Information	Category
UHGV-0071617_1	KOfam	K06400	spoIVCA; site-specific DNA recombinase	NA
UHGV-0071617_1	PHROG	phrog_95	integrase	integration and excision
UHGV-0071617_1	UniRef90	UniRef90_E8LBZ4	Resolvase, N-terminal domain protein	NA
UHGV-0071617_1	eggNOG-mapper	626939.HMPREF9443_00357	overlaps another CDS with the same product name	NA
UHGV-0071617_1	Pfam	PF00239	Resolvase, N terminal domain	Resolvase
UHGV-0071617_1	Pfam	PF07508	Recombinase	Recombinase
UHGV-0071617_1	Pfam	PF13408	Recombinase zinc beta ribbon domain	Zn_ribbon_recom
UHGV-0071617_1	COG	COG1961	Site-specific DNA recombinase SpoIVCA/DNA invertase PinE	NA
UHGV-0071617_1	Structural annotation	PF07508, PF00239, NF041201, COG1961	NA	NA
UHGV-0071617_2	Structural annotation	PF16747	NA	NA
UHGV-0071617_5	PHROG	phrog_87	metallo-protease	other
UHGV-0071617_5	UniRef90	UniRef90_A0A316S783	ImmA/IrrE family metallo-endopeptidase	NA
UHGV-0071617_5	eggNOG-mapper	679201.HMPREF9334_00293	IrrE N-terminal-like domain	NA
UHGV-0071617_5	Pfam	PF06114	IrrE N-terminal-like domain	Peptidase_M78
UHGV-0071617_5	COG	COG2856	Zn-dependent peptidase ImmA, M78 family	NA
UHGV-0071617_5	Structural annotation	PF06114, COG2856	NA	NA
UHGV-0071617_6	KOfam	K22299	rghR; HTH-type transcriptional regulator, competence development regulator	NA
UHGV-0071617_6	PHROG	phrog_8	transcriptional regulator	transcription regulation
UHGV-0071617_6	UniRef90	UniRef90_A0A316SAV3	Transcriptional regulator	NA
UHGV-0071617_6	eggNOG-mapper	866775.HMPREF9243_0613	transcriptional	NA
UHGV-0071617_6	PADLOC	retron_type_VI_hth_cluster2_1	NA	Retron
UHGV-0071617_6	Pfam	PF01381	Helix-turn-helix	HTH_3
UHGV-0071617_6	COG	COG1396	Transcriptional regulator, contains XRE-family HTH domain	NA
UHGV-0071617_6	Structural annotation	PF01381, MF_00535, NF007257, COG1396	NA	NA
UHGV-0071617_7	KOfam	K07729	K07729; putative transcriptional regulator	NA
UHGV-0071617_7	PHROG	phrog_3	transcriptional repressor	transcription regulation
UHGV-0071617_7	UniRef90	UniRef90_A0A3A8W2G0	XRE family transcriptional regulator	NA
UHGV-0071617_7	eggNOG-mapper	103690.17132056	Helix-turn-helix domain	NA
UHGV-0071617_7	PADLOC	retron_type_VI_hth_cluster2_1	NA	Retron
UHGV-0071617_7	Pfam	PF01381	Helix-turn-helix	HTH_3
UHGV-0071617_7	COG	COG1476	DNA-binding transcriptional regulator, XRE-family HTH domain	NA
UHGV-0071617_7	Structural annotation	PF12844, NF041951, COG1476	NA	NA
UHGV-0071617_9	Structural annotation	MF_02014, NF010723, COG1388	NA	NA
UHGV-0071617_11	PHROG	phrog_434	RecE-like recombination exonuclease	DNA, RNA and nucleotide metabolism
UHGV-0071617_11	UniRef90	UniRef90_A0A316S6Q6	Endonuclease	NA
UHGV-0071617_11	eggNOG-mapper	706434.HMPREF9429_00551	YqaJ viral recombinase family protein	NA
UHGV-0071617_11	Pfam	PF09588	YqaJ-like viral recombinase domain	YqaJ
UHGV-0071617_11	NCBIFam	TIGR03033.1	putative phage-type endonuclease	NA
UHGV-0071617_11	COG	COG5377	Phage-related protein, predicted endonuclease	NA
UHGV-0071617_11	Structural annotation	PF09588, MF_03030, TIGR03033, COG5377	NA	NA
UHGV-0071617_12	KOfam	K07455	recT; recombination protein RecT	NA
UHGV-0071617_12	PHROG	phrog_148	RecT-like ssDNA annealing protein	DNA, RNA and nucleotide metabolism
UHGV-0071617_12	UniRef90	UniRef90_A0A316S9I2	Recombinase RecT	NA
UHGV-0071617_12	eggNOG-mapper	272626.lin0085	Recombinational DNA repair protein (RecE pathway)	NA
UHGV-0071617_12	Pfam	PF03837	RecT family	RecT
UHGV-0071617_12	NCBIFam	TIGR00616.1	recombinase, phage RecT family	NA
UHGV-0071617_12	COG	COG3723	Recombinational DNA repair protein RecT	NA
UHGV-0071617_12	Structural annotation	PF03837, TIGR00616, COG3723	NA	NA
UHGV-0071617_15	PHROG	phrog_11233	replication initiation protein	DNA, RNA and nucleotide metabolism
UHGV-0071617_15	UniRef90	UniRef90_UPI0018C576A5	DnaD domain protein	NA
UHGV-0071617_15	eggNOG-mapper	1298920.KI911353_gene2714	DnaD domain protein	NA
UHGV-0071617_15	Pfam	PF07261	Replication initiation and membrane attachment	DnaB_2
UHGV-0071617_15	NCBIFam	TIGR01446.1	DnaD domain protein	NA
UHGV-0071617_15	COG	COG3935	DNA replication protein DnaD	NA
UHGV-0071617_15	Structural annotation	PF07106, MF_01819, NF040642, COG1846	NA	NA
UHGV-0071617_16	PHROG	phrog_9804	NA	unknown function
UHGV-0071617_16	UniRef90	UniRef90_A0A316S7J6	Inhibitor_G39P domain-containing protein	NA
UHGV-0071617_16	Pfam	PF11417	Loader and inhibitor of phage G40P	Inhibitor_G39P
UHGV-0071617_19	UniRef90	UniRef90_A0A6N7WVF3	Restriction endonuclease subunit S	NA
UHGV-0071617_20	Structural annotation	PF21173	NA	NA
UHGV-0071617_23	KOfam	K01520	dut, DUT; dUTP pyrophosphatase [EC:3.6.1.23]	NA
UHGV-0071617_23	PHROG	phrog_135	dUTPase	DNA, RNA and nucleotide metabolism
UHGV-0071617_23	UniRef90	UniRef90_A0A7C1CA11	dUTP diphosphatase	NA
UHGV-0071617_23	eggNOG-mapper	596315.HMPREF0634_0877	dUTPase	NA
UHGV-0071617_23	Pfam	PF00692	dUTPase	dUTPase
UHGV-0071617_23	COG	COG0756	dUTP pyrophosphatase (dUTPase)	NA
UHGV-0071617_23	Structural annotation	PF00692, MF_00116, NF010561, COG0756	NA	NA
UHGV-0071617_24	KOfam	K01160	rusA; crossover junction endodeoxyribonuclease RusA [EC:3.1.21.10]	NA
UHGV-0071617_24	PHROG	phrog_1682	RusA-like Holliday junction resolvase	DNA, RNA and nucleotide metabolism
UHGV-0071617_24	UniRef90	UniRef90_UPI00055C0AEA	RusA family crossover junction endodeoxyribonuclease	NA
UHGV-0071617_24	eggNOG-mapper	1120985.AUMI01000019_gene2247	Endonuclease that resolves Holliday junction intermediates made during homologous genetic recombination and DNA repair. Exhibits sequence and structure-selective cleavage of four-way DNA junctions, where it introduces symmetrical nicks in two strands of the same polarity at the 5' side of dinucleotides. Corrects the defects in genetic recombination and DNA repair associated with inactivation of ruvAB or ruvC	NA
UHGV-0071617_24	COG	COG4570	Holliday junction resolvase RusA (prophage-encoded endonuclease)	NA
UHGV-0071617_24	Structural annotation	PF19595, NF007305, COG4570	NA	NA
UHGV-0071617_27	KOfam	K03111	ssb; single-strand DNA-binding protein	NA
UHGV-0071617_27	PHROG	phrog_44	single strand DNA binding protein	DNA, RNA and nucleotide metabolism
UHGV-0071617_27	UniRef90	UniRef90_R6I9W6	Single-stranded DNA-binding protein	NA
UHGV-0071617_27	eggNOG-mapper	1262915.BN574_00939	Plays an important role in DNA replication, recombination and repair. Binds to ssDNA and to an array of partner proteins to recruit them to their sites of action during DNA metabolism	NA
UHGV-0071617_27	Pfam	PF00436	Single-strand binding protein family	SSB
UHGV-0071617_27	NCBIFam	TIGR00621.2	single-stranded DNA-binding protein	NA
UHGV-0071617_27	COG	COG0629	Single-stranded DNA-binding protein	NA
UHGV-0071617_27	HAMAP	MF_00984	Single-stranded DNA-binding protein	NA
UHGV-0071617_27	Structural annotation	PF00436, MF_00984, NF005580, COG0629	NA	NA
UHGV-0071617_28	PHROG	phrog_28936	NA	unknown function
UHGV-0071617_28	eggNOG-mapper	573061.Clocel_3563	NA	NA
UHGV-0071617_28	Structural annotation	PF11645, MF_01490, NF040854	NA	NA
UHGV-0071617_29	UniRef90	UniRef90_A0A1Q6R577	NA	NA
UHGV-0071617_29	Structural annotation	PF18892	NA	NA
UHGV-0071617_31	PHROG	phrog_289	GTP-binding domain	other
UHGV-0071617_31	UniRef90	UniRef90_UPI001BB42FF0	SLOG family protein	NA
UHGV-0071617_31	eggNOG-mapper	1258572.M9PKE4_9CAUD	NA	NA
UHGV-0071617_31	Pfam	PF10686	YspA, cpYpsA-related SLOG family	YAcAr
UHGV-0071617_31	Structural annotation	PF18306, MF_01575, TIGR00732, COG0758	NA	NA
UHGV-0071617_32	PHROG	phrog_236	nucleotide kinase	other
UHGV-0071617_32	UniRef90	UniRef90_UPI000FDC8671	NA	NA
UHGV-0071617_32	eggNOG-mapper	1111454.HMPREF1250_1038	NA	NA
UHGV-0071617_32	Pfam	PF11753	NA	DUF3310
UHGV-0071617_35	eggNOG-mapper	401526.TcarDRAFT_1279	phage transcriptional regulator, RinA family	NA
UHGV-0071617_35	Structural annotation	PF05263, MF_00245, TIGR01636, COG2739	NA	NA
UHGV-0071617_36	PHROG	phrog_31110	NA	unknown function
UHGV-0071617_37	KOfam	K07474	xtmA; phage terminase small subunit	NA
UHGV-0071617_37	PHROG	phrog_51	terminase small subunit	head and packaging
UHGV-0071617_37	UniRef90	UniRef90_A0A8B2QP55	Phage terminase small subunit	NA
UHGV-0071617_37	eggNOG-mapper	52979.O03926_9CAUD	Terminase small subunit	NA
UHGV-0071617_37	Pfam	PF03592	Terminase small subunit	Terminase_2
UHGV-0071617_37	Structural annotation	PF03592, COG3728	NA	NA
UHGV-0071617_38	KOfam	K06909	xtmB; phage terminase large subunit	NA
UHGV-0071617_38	PHROG	phrog_5902	NA	unknown function
UHGV-0071617_38	UniRef90	UniRef90_UPI001D015CB7	terminase	NA
UHGV-0071617_38	eggNOG-mapper	2754.EH55_08530	A helicase nuclease that prepares dsDNA breaks (DSB) for recombinational DNA repair. Binds to DSBs and unwinds DNA via a highly rapid and processive ATP-dependent bidirectional helicase activity. Unwinds dsDNA until it encounters a Chi (crossover hotspot instigator) sequence from the 3' direction. Cuts ssDNA a few nucleotides 3' to the Chi site. The properties and activities of the enzyme are changed at Chi. The Chi-altered holoenzyme produces a long 3'-ssDNA overhang and facilitates RecA-binding to the ssDNA for homologous DNA recombination and repair. Holoenzyme degrades any linearized DNA that is unable to undergo homologous recombination. In the holoenzyme this subunit has ssDNA-dependent ATPase and 5'-3' helicase activity. When added to pre-assembled RecBC greatly stimulates nuclease activity and augments holoenzyme processivity. Negatively regulates the RecA-loading ability of RecBCD	NA
UHGV-0071617_38	COG	COG0507	ATPase/5'-3' helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V)	NA
UHGV-0071617_38	Structural annotation	PF03237, PF20441, MF_04145, TIGR01547, COG1783	NA	NA
UHGV-0071617_39	Structural annotation	PF21621, MF_01255, NF009806, COG4766	NA	NA
UHGV-0071617_40	PHROG	phrog_1216	portal protein	head and packaging
UHGV-0071617_40	UniRef90	UniRef90_A0A0U1L376	Phage portal protein	NA
UHGV-0071617_40	eggNOG-mapper	1232428.CAVO010000067_gene425	Membrane	NA
UHGV-0071617_40	COG	COG3064	Membrane protein TolA involved in colicin uptake	NA
UHGV-0071617_40	Structural annotation	PF16510, MF_04120, TIGR01538, COG4383	NA	NA
UHGV-0071617_42	eggNOG-mapper	1232428.CAVO010000067_gene424	NA	NA
UHGV-0071617_43	PHROG	phrog_1328	major head protein	head and packaging
UHGV-0071617_43	UniRef90	UniRef90_UPI000413677B	NA	NA
UHGV-0071617_43	eggNOG-mapper	1232428.CAVO010000067_gene423	NA	NA
UHGV-0071617_43	Pfam	PF17236	NA	DUF5309
UHGV-0071617_43	Structural annotation	PF17236, MF_04133, NF033394, COG4834	NA	NA
UHGV-0071617_45	Structural annotation	PF20387	NA	NA
UHGV-0071617_46	eggNOG-mapper	1485543.JMME01000020_gene785	NA	NA
UHGV-0071617_46	Structural annotation	PF20387	NA	NA
UHGV-0071617_47	eggNOG-mapper	1232428.CAVO010000067_gene421	cellulase activity	NA
UHGV-0071617_47	COG	COG4733	Phage-related protein, tail protein J	NA
UHGV-0071617_47	Structural annotation	PF18001, PF01828, PF16389, MF_01905, NF010681, COG3401, COG3506	NA	NA
UHGV-0071617_48	PHROG	phrog_5417	NA	unknown function
UHGV-0071617_48	UniRef90	UniRef90_H8FY63	Putative BcepGomrgp18	NA
UHGV-0071617_48	eggNOG-mapper	1459636.NTE_01434	NA	NA
UHGV-0071617_48	Structural annotation	PF12571	NA	NA
UHGV-0071617_49	eggNOG-mapper	1150626.PHAMO_80093	extracellular polysaccharide biosynthetic process	NA
UHGV-0071617_49	COG	COG3206	Exopolysaccharide export protein/domain GumC/Wzc1	NA
UHGV-0071617_49	Structural annotation	PF05660, NF012201	NA	NA
UHGV-0071617_50	PHROG	phrog_6465	tail protein	tail
UHGV-0071617_50	UniRef90	UniRef90_K4F7V9	Putative structural protein	NA
UHGV-0071617_50	eggNOG-mapper	742742.HMPREF9452_00376	tail collar domain protein	NA
UHGV-0071617_50	COG	COG4675	Phage tail collar domain	NA