UHGV-2018676

Genome information

Genome length 25,519 bps

CDS count 33

Completeness 77.41% (medium-quality)

geNomad score 0.9630

Prediction confidence Confident

Genome information
Genome ID	UHGV-2018676
vOTU ID	vOTU-041466
vOTU representative	Yes
Source dataset	IMG/VR v4
Original genome ID	3300029198\|Ga0168723_100002\|provirus_359937_385455
BioSample	SAMEA2737704
Country	China
Virus prediction confidence	Confident

Quality assessment
CheckV method	AAI-based
CheckV completeness	77.41% (medium-quality)
CheckV contamination	0.00%
Trimmed provirus	No
CheckV viral markers	5
CheckV host markers	0
Recoded stop codon	No

Viral signal
geNomad score	0.9630
Virus hallmark genes (geNomad)	4
Plasmid hallmark genes (geNomad)	0
viralVerify prediction	Uncertain - viral or bacterial
viralVerify score	5.65
Jumbo phage	No

Genome content
Genome length	25,519 bps
GC content	52.45%
Genetic code	The standard bacterial, archaeal and plant plastid code (11)
CDS count	33
CDS density	88.66%
Average CDS length	688.91 bps
tRNA count	0
Suppressor tRNA genes	0

Genome content

Select view: Genome viewer Functional annotation

Functional annotation

Gene ID	Reference	Reference ID	Information	Category
UHGV-2018676_1	KOfam	K14059	int; integrase	NA
UHGV-2018676_1	PHROG	phrog_1	integrase	integration and excision
UHGV-2018676_1	UniRef90	UniRef90_A0A2N8HIT9	Tyr recombinase domain-containing protein	NA
UHGV-2018676_1	eggNOG-mapper	794903.OPIT5_01350	Belongs to the 'phage' integrase family	NA
UHGV-2018676_1	Pfam	PF00589	Phage integrase family	Phage_integrase
UHGV-2018676_1	COG	COG0582	Integrase/recombinase, includes phage integrase	NA
UHGV-2018676_1	Structural annotation	PF00589, PF14659, MF_02055, TIGR02224, COG4974	NA	NA
UHGV-2018676_3	PHROG	phrog_10865	NA	unknown function
UHGV-2018676_3	eggNOG-mapper	1031288.AXAA01000022_gene1578	NA	NA
UHGV-2018676_3	Pfam	PF20505	NA	DUF6731
UHGV-2018676_3	Structural annotation	PF20505, NF001463	NA	NA
UHGV-2018676_4	UniRef90	UniRef90_A0A410SEH8	YHYH domain-containing protein	NA
UHGV-2018676_4	eggNOG-mapper	935863.AWZR01000001_gene1964	Excalibur calcium-binding domain	NA
UHGV-2018676_4	NCBIFam	NF033223.2	YHYH domain-containing protein	NA
UHGV-2018676_4	COG	COG1525	Endonuclease YncB, thermonuclease family	NA
UHGV-2018676_5	eggNOG-mapper	452637.Oter_0531	protein tetramerization	NA
UHGV-2018676_5	Pfam	PF02556	Preprotein translocase subunit SecB	SecB
UHGV-2018676_5	COG	COG1952	Preprotein translocase subunit SecB	NA
UHGV-2018676_7	KOfam	K01356	lexA; repressor LexA [EC:3.4.21.88]	NA
UHGV-2018676_7	PHROG	phrog_4	transcriptional repressor	transcription regulation
UHGV-2018676_7	UniRef90	UniRef90_UPI000C9BC4B5	S24 family peptidase	NA
UHGV-2018676_7	eggNOG-mapper	349741.Amuc_1794	Peptidase S24-like	NA
UHGV-2018676_7	Pfam	PF00717	Peptidase S24-like	Peptidase_S24
UHGV-2018676_7	COG	COG1974	SOS-response transcriptional repressor LexA (RecA-mediated autopeptidase)	NA
UHGV-2018676_7	Structural annotation	PF00717, PF01381, MF_00015, NF007621, NF041951, COG2932	NA	NA
UHGV-2018676_13	PHROG	phrog_124	Sak4-like ssDNA annealing protein	DNA, RNA and nucleotide metabolism
UHGV-2018676_13	UniRef90	UniRef90_A0A410S908	ATP-binding protein	NA
UHGV-2018676_13	eggNOG-mapper	1410624.JNKK01000055_gene2198	AAA domain	NA
UHGV-2018676_13	Pfam	PF13479	AAA domain	AAA_24
UHGV-2018676_13	Structural annotation	PF13479, MF_00350, TIGR01618, COG0468	NA	NA
UHGV-2018676_14	UniRef90	UniRef90_A0A410S925	NA	NA
UHGV-2018676_14	eggNOG-mapper	1403819.BATR01000122_gene4275	NA	NA
UHGV-2018676_14	Pfam	PF10926	NA	DUF2800
UHGV-2018676_16	KOfam	K01159	ruvC; crossover junction endodeoxyribonuclease RuvC [EC:3.1.21.10]	NA
UHGV-2018676_16	PHROG	phrog_159	RuvC-like Holliday junction resolvase	DNA, RNA and nucleotide metabolism
UHGV-2018676_16	UniRef90	UniRef90_A0A410S940	Crossover junction endodeoxyribonuclease RuvC	NA
UHGV-2018676_16	eggNOG-mapper	1996.JOFO01000086_gene367	NA	NA
UHGV-2018676_16	Pfam	PF02075	Crossover junction endodeoxyribonuclease RuvC	RuvC
UHGV-2018676_16	Structural annotation	PF02075, MF_00034, NF000711, COG0817	NA	NA
UHGV-2018676_18	Structural annotation	MF_01326_A, NF007260, NF005100	NA	NA
UHGV-2018676_22	PHROG	phrog_954	DNA methyltransferase	other
UHGV-2018676_22	UniRef90	UniRef90_A0A410S9A2	Class I SAM-dependent methyltransferase	NA
UHGV-2018676_22	eggNOG-mapper	1284352.AOIG01000022_gene3791	methyltransferase	NA
UHGV-2018676_22	PADLOC	MTase_II_00074	Type II methyltransferase	RM
UHGV-2018676_22	Pfam	PF08241	Methyltransferase domain	Methyltransf_11
UHGV-2018676_22	COG	COG0500	SAM-dependent methyltransferase	NA
UHGV-2018676_22	Structural annotation	PF01170, MF_01057, TIGR00446, COG4123	NA	NA
UHGV-2018676_23	PHROG	phrog_5810	replication initiation protein	DNA, RNA and nucleotide metabolism
UHGV-2018676_23	UniRef90	UniRef90_UPI0015841E4F	conserved phage C-terminal domain-containing protein	NA
UHGV-2018676_23	eggNOG-mapper	402626.Rpic_2326	ROK family	NA
UHGV-2018676_23	COG	COG3355	Predicted transcriptional regulator	NA
UHGV-2018676_23	Structural annotation	PF10771, NF041413, COG0735	NA	NA
UHGV-2018676_24	KOfam	K02314	dnaB; replicative DNA helicase [EC:5.6.2.3]	NA
UHGV-2018676_24	PHROG	phrog_19	DnaB-like replicative helicase	DNA, RNA and nucleotide metabolism
UHGV-2018676_24	UniRef90	UniRef90_A0A410S8Z8	DNA helicase	NA
UHGV-2018676_24	eggNOG-mapper	349741.Amuc_1377	DnaB-like helicase C terminal domain	NA
UHGV-2018676_24	Pfam	PF00772	DnaB-like helicase N terminal domain	DnaB
UHGV-2018676_24	Pfam	PF03796	DnaB-like helicase C terminal domain	DnaB_C
UHGV-2018676_24	COG	COG0305	Replicative DNA helicase	NA
UHGV-2018676_24	Structural annotation	PF03796, PF00772, MF_04155, TIGR00665, COG0305	NA	NA
UHGV-2018676_26	UniRef90	UniRef90_A0A4Q5IVQ1	ADPrib_exo_Tox domain-containing protein	NA
UHGV-2018676_28	PHROG	phrog_1482	terminase small subunit	head and packaging
UHGV-2018676_28	UniRef90	UniRef90_UPI000C9ACC23	ubiquitin carboxyl-hydrolase	NA
UHGV-2018676_28	eggNOG-mapper	1072685.IX83_07125	NA	NA
UHGV-2018676_28	Pfam	PF20901	Bacteriophage Sf6, terminase small subunit-like	Sf6_terminase
UHGV-2018676_28	Structural annotation	PF20901	NA	NA
UHGV-2018676_29	PHROG	phrog_2	terminase large subunit	head and packaging
UHGV-2018676_29	UniRef90	UniRef90_A0A1C7PDG0	p-loop containing nucleoside triphosphate hydrolase	NA
UHGV-2018676_29	eggNOG-mapper	580331.Thit_1395	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-2018676_29	COG	COG0507	ATPase/5'-3' helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V)	NA
UHGV-2018676_29	Structural annotation	PF04466, PF20441, MF_04145, TIGR01547, COG4373	NA	NA
UHGV-2018676_30	Structural annotation	PF05587, PF03388, COG3506	NA	NA