UHGV-2173886

Genome information

Genome length 40,780 bps

CDS count 76

Completeness 78.21% (medium-quality)

geNomad score 0.9654

Prediction confidence Confident

Genome information
Genome ID	UHGV-2173886
vOTU ID	vOTU-027177
vOTU representative	Yes
Source dataset	IMG/VR v4
Original genome ID	3300029880\|Ga0245255_100005\|provirus_275037_315816
BioSample	SAMEA3449306
Country	United Kingdom
Virus prediction confidence	Confident

Quality assessment
CheckV method	HMM-based
CheckV completeness	78.21% (medium-quality)
CheckV contamination	0.00%
Trimmed provirus	No
CheckV viral markers	19
CheckV host markers	1
Recoded stop codon	No

Viral signal
geNomad score	0.9654
Virus hallmark genes (geNomad)	12
Plasmid hallmark genes (geNomad)	0
viralVerify prediction	Virus
viralVerify score	46.74
Jumbo phage	No

Genome content
Genome length	40,780 bps
GC content	27.01%
Genetic code	The standard bacterial, archaeal and plant plastid code (11)
CDS count	76
CDS density	89.63%
Average CDS length	483.87 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-2173886_1	Pfam	PF09388	Spo0E like sporulation regulatory protein	SpoOE-like
UHGV-2173886_1	Structural annotation	PF02583, COG1937	NA	NA
UHGV-2173886_6	PHROG	phrog_374	HNH endonuclease	DNA, RNA and nucleotide metabolism
UHGV-2173886_7	eggNOG-mapper	1121385.AQXW01000003_gene327	NlpC/P60 family	NA
UHGV-2173886_7	Pfam	PF01471	Putative peptidoglycan binding domain	PG_binding_1
UHGV-2173886_7	COG	COG0791	Cell wall-associated hydrolase, NlpC_P60 family	NA
UHGV-2173886_8	eggNOG-mapper	1121929.KB898684_gene1949	N-acetylmuramoyl-L-alanine amidase	NA
UHGV-2173886_8	Pfam	PF01471	Putative peptidoglycan binding domain	PG_binding_1
UHGV-2173886_8	COG	COG3023	N-acetyl-anhydromuramyl-L-alanine amidase AmpD	NA
UHGV-2173886_9	KOfam	K01447	xlyAB; N-acetylmuramoyl-L-alanine amidase [EC:3.5.1.28]	NA
UHGV-2173886_9	PHROG	phrog_35436	amidase	lysis
UHGV-2173886_9	UniRef90	UniRef90_A0A1V5ZY63	N-acetylmuramoyl-L-alanine amidase	NA
UHGV-2173886_9	eggNOG-mapper	1504823.CCMM01000008_gene1019	Ami_2	NA
UHGV-2173886_9	Pfam	PF01510	N-acetylmuramoyl-L-alanine amidase	Amidase_2
UHGV-2173886_9	COG	COG3409	Peptidoglycan-binding (PGRP) domain of peptidoglycan hydrolases	NA
UHGV-2173886_9	Structural annotation	PF01510, MF_04111, NF008758, COG5632	NA	NA
UHGV-2173886_10	PHROG	phrog_443	holin	lysis
UHGV-2173886_10	UniRef90	UniRef90_UPI0002E2AC7F	holin	NA
UHGV-2173886_10	eggNOG-mapper	1235800.C819_01425	Putative lactococcus lactis phage r1t holin	NA
UHGV-2173886_10	Pfam	PF16945	Putative lactococcus lactis phage r1t holin	Phage_r1t_holin
UHGV-2173886_10	Structural annotation	PF16945	NA	NA
UHGV-2173886_11	PHROG	phrog_689	holin	lysis
UHGV-2173886_11	UniRef90	UniRef90_UPI000F62D424	hemolysin XhlA family protein	NA
UHGV-2173886_11	eggNOG-mapper	1230342.CTM_01534	Haemolysin XhlA	NA
UHGV-2173886_11	Pfam	PF10779	Haemolysin XhlA	XhlA
UHGV-2173886_20	PHROG	phrog_13564	minor tail protein	tail
UHGV-2173886_20	UniRef90	UniRef90_UPI0013797660	phage baseplate protein	NA
UHGV-2173886_20	eggNOG-mapper	1278311.AUAL01000001_gene19	NA	NA
UHGV-2173886_20	Pfam	PF16774	Distal tail protein, N-terminal domain	Dit_N
UHGV-2173886_20	Structural annotation	PF16774, PF20753, TIGR01633, COG4722	NA	NA
UHGV-2173886_21	PHROG	phrog_5319	outer membrane protein	other
UHGV-2173886_21	UniRef90	UniRef90_A0A1Q6JN93	zinc_ribbon_2 domain-containing protein	NA
UHGV-2173886_21	eggNOG-mapper	1042156.CXIVA_15870	sh3 domain protein	NA
UHGV-2173886_21	Pfam	PF13240	zinc-ribbon domain	zinc_ribbon_2
UHGV-2173886_21	COG	COG3103	NA	NA
UHGV-2173886_21	Structural annotation	PF03843, PF12773, MF_00984, TIGR00752, COG3065	NA	NA
UHGV-2173886_22	PHROG	phrog_1535	tail length tape measure protein	tail
UHGV-2173886_22	UniRef90	UniRef90_A0A429UYW4	Phage tail protein (Fragment)	NA
UHGV-2173886_22	eggNOG-mapper	33035.JPJF01000093_gene2243	phage tail tape measure protein	NA
UHGV-2173886_22	COG	COG3941	Phage tail tape-measure protein, controls tail length	NA
UHGV-2173886_23	PHROG	phrog_31409	tail length tape measure protein	tail
UHGV-2173886_23	UniRef90	UniRef90_UPI000C7A2D83	phage tail tape measure protein	NA
UHGV-2173886_23	eggNOG-mapper	1280689.AUJC01000003_gene976	phage tail tape measure protein	NA
UHGV-2173886_23	NCBIFam	TIGR01760.1	phage tail tape measure protein	NA
UHGV-2173886_23	COG	COG5283	Phage-related tail protein	NA
UHGV-2173886_23	Structural annotation	PF20155	NA	NA
UHGV-2173886_24	PHROG	phrog_709	NA	unknown function
UHGV-2173886_24	Structural annotation	PF11836	NA	NA
UHGV-2173886_25	PHROG	phrog_88	major tail protein	tail
UHGV-2173886_25	UniRef90	UniRef90_UPI00102F83A6	phage tail protein	NA
UHGV-2173886_25	eggNOG-mapper	1469948.JPNB01000001_gene698	phage major tail protein, phi13 family	NA
UHGV-2173886_25	NCBIFam	TIGR01603.1	major tail protein	NA
UHGV-2173886_25	Structural annotation	PF06488, TIGR01603, COG3498	NA	NA
UHGV-2173886_26	eggNOG-mapper	1235790.C805_01797	NA	NA
UHGV-2173886_26	Structural annotation	PF05657, MF_00281, COG0016	NA	NA
UHGV-2173886_28	PHROG	phrog_1951	head-tail adaptor	connector
UHGV-2173886_28	eggNOG-mapper	272626.lin2574	head-tail adaptor	NA
UHGV-2173886_28	NCBIFam	TIGR01563.1	phage head closure protein	NA
UHGV-2173886_28	COG	COG5614	Phage head-tail adaptor	NA
UHGV-2173886_28	Structural annotation	PF05521, TIGR01563, COG5614	NA	NA
UHGV-2173886_29	PHROG	phrog_5223	neck protein	connector
UHGV-2173886_30	PHROG	phrog_10	major head protein	head and packaging
UHGV-2173886_30	UniRef90	UniRef90_UPI000C087E3A	phage major capsid protein	NA
UHGV-2173886_30	eggNOG-mapper	97139.C824_05970	Phage major capsid protein, HK97 family	NA
UHGV-2173886_30	Pfam	PF05065	Phage capsid family	Phage_capsid
UHGV-2173886_30	NCBIFam	TIGR01554.2	phage major capsid protein	NA
UHGV-2173886_30	COG	COG4653	Predicted phage phi-C31 gp36 major capsid-like protein	NA
UHGV-2173886_30	Structural annotation	PF05065, MF_04119, TIGR01554, COG4653	NA	NA
UHGV-2173886_31	PHROG	phrog_16951	NA	unknown function
UHGV-2173886_31	eggNOG-mapper	1410617.JHXH01000012_gene652	NA	NA
UHGV-2173886_31	Structural annotation	PF09979, COG3740	NA	NA
UHGV-2173886_32	PHROG	phrog_12	portal protein	head and packaging
UHGV-2173886_32	UniRef90	UniRef90_UPI001B8210D7	phage portal protein	NA
UHGV-2173886_32	eggNOG-mapper	634956.Geoth_0787	Phage portal protein	NA
UHGV-2173886_32	Pfam	PF04860	Phage portal protein	Phage_portal
UHGV-2173886_32	NCBIFam	TIGR01537.1	phage portal protein	NA
UHGV-2173886_32	COG	COG4695	Phage portal protein BeeE	NA
UHGV-2173886_32	Structural annotation	PF04860, MF_04135, TIGR01537, COG4695	NA	NA
UHGV-2173886_33	PHROG	phrog_9	terminase large subunit	head and packaging
UHGV-2173886_33	UniRef90	UniRef90_A0A1C5VGI7	Phage terminase-like protein, large subunit	NA
UHGV-2173886_33	eggNOG-mapper	1219626.HMPREF1639_07410	Phage terminase-like protein large subunit	NA
UHGV-2173886_33	Pfam	PF03354	Terminase large subunit, ATPase domain	TerL_ATPase
UHGV-2173886_33	Pfam	PF20441	Terminase large subunit, endonuclease domain	TerL_nuclease
UHGV-2173886_33	COG	COG4626	Phage terminase-like protein, large subunit, contains N-terminal HTH domain	NA
UHGV-2173886_33	Structural annotation	PF20441, PF03354, MF_04146, TIGR01547, COG4626	NA	NA
UHGV-2173886_34	PHROG	phrog_83	terminase small subunit	head and packaging
UHGV-2173886_34	UniRef90	UniRef90_A0A1I3QJG2	Phage terminase, small subunit, putative, P27 family	NA
UHGV-2173886_34	eggNOG-mapper	1219626.HMPREF1639_07405	phage terminase small subunit	NA
UHGV-2173886_34	Pfam	PF05119	Phage terminase, small subunit	Terminase_4
UHGV-2173886_34	NCBIFam	TIGR01558.1	phage terminase small subunit P27 family	NA
UHGV-2173886_34	COG	COG3747	Phage terminase, small subunit	NA
UHGV-2173886_34	Structural annotation	PF05119, TIGR01558, COG3747	NA	NA
UHGV-2173886_36	PHROG	phrog_144	HNH endonuclease	DNA, RNA and nucleotide metabolism
UHGV-2173886_36	UniRef90	UniRef90_A0A1I2DVJ4	5-methylcytosine-specific restriction endonuclease McrA	NA
UHGV-2173886_36	eggNOG-mapper	1219626.HMPREF1639_07400	Endonuclease	NA
UHGV-2173886_36	Pfam	PF01844	HNH endonuclease	HNH
UHGV-2173886_36	COG	COG1403	5-methylcytosine-specific restriction endonuclease McrA	NA
UHGV-2173886_36	Structural annotation	PF09889, COG4068	NA	NA
UHGV-2173886_40	PHROG	phrog_10865	NA	unknown function
UHGV-2173886_40	eggNOG-mapper	1031288.AXAA01000022_gene1578	NA	NA
UHGV-2173886_40	Pfam	PF20505	NA	DUF6731
UHGV-2173886_40	Structural annotation	PF20505, NF001463	NA	NA
UHGV-2173886_41	Structural annotation	PF05263, TIGR01636	NA	NA
UHGV-2173886_44	PHROG	phrog_20735	NA	unknown function
UHGV-2173886_44	UniRef90	UniRef90_A0A662A6A1	RNA_ligase domain-containing protein	NA
UHGV-2173886_44	Pfam	PF09414	RNA ligase	RNA_ligase
UHGV-2173886_52	PHROG	phrog_1071	DNA methyltransferase	other
UHGV-2173886_52	UniRef90	UniRef90_A0A0R2A699	N6_Mtase domain-containing protein	NA
UHGV-2173886_52	eggNOG-mapper	146269.A8YQM7_9CAUD	DNA methylation	NA
UHGV-2173886_52	Pfam	PF02384	N-6 DNA Methylase	N6_Mtase
UHGV-2173886_53	KOfam	K14059	int; integrase	NA
UHGV-2173886_53	PHROG	phrog_1	integrase	integration and excision
UHGV-2173886_53	UniRef90	UniRef90_A0A7U9RPP2	Transposase from transposon Tn916	NA
UHGV-2173886_53	eggNOG-mapper	796940.HMPREF9628_00060	Phage integrase, N-terminal SAM-like domain	NA
UHGV-2173886_53	Pfam	PF14659	Phage integrase, N-terminal SAM-like domain	Phage_int_SAM_3
UHGV-2173886_53	Pfam	PF00589	Phage integrase family	Phage_integrase
UHGV-2173886_53	COG	COG0582	Integrase/recombinase, includes phage integrase	NA
UHGV-2173886_57	UniRef90	UniRef90_A0A1Q6M1X1	HTH_11 domain-containing protein	NA
UHGV-2173886_57	Pfam	PF08279	HTH domain	HTH_11
UHGV-2173886_57	Structural annotation	PF21715, TIGR00122	NA	NA
UHGV-2173886_59	KOfam	K02314	dnaB; replicative DNA helicase [EC:5.6.2.3]	NA
UHGV-2173886_59	PHROG	phrog_19	DnaB-like replicative helicase	DNA, RNA and nucleotide metabolism
UHGV-2173886_59	UniRef90	UniRef90_A0A7V2WT67	Replicative DNA helicase	NA
UHGV-2173886_59	eggNOG-mapper	246194.CHY_0041	Participates in initiation and elongation during chromosome replication	NA
UHGV-2173886_59	Pfam	PF03796	DnaB-like helicase C terminal domain	DnaB_C
UHGV-2173886_59	COG	COG0305	Replicative DNA helicase	NA
UHGV-2173886_59	Structural annotation	PF03796, MF_04155, NF006606, COG0305	NA	NA
UHGV-2173886_60	KOfam	K02314	dnaB; replicative DNA helicase [EC:5.6.2.3]	NA
UHGV-2173886_60	PHROG	phrog_19	DnaB-like replicative helicase	DNA, RNA and nucleotide metabolism
UHGV-2173886_60	UniRef90	UniRef90_A0A2N3AJ25	DNA helicase (Fragment)	NA
UHGV-2173886_60	eggNOG-mapper	1041504.RATSFB_1319	Participates in initiation and elongation during chromosome replication	NA
UHGV-2173886_60	Pfam	PF00772	DnaB-like helicase N terminal domain	DnaB
UHGV-2173886_60	Pfam	PF03796	DnaB-like helicase C terminal domain	DnaB_C
UHGV-2173886_60	COG	COG0305	Replicative DNA helicase	NA
UHGV-2173886_61	KOfam	K02086	dnaD; DNA replication protein	NA
UHGV-2173886_61	PHROG	phrog_186	DnaD-like helicase loader	DNA, RNA and nucleotide metabolism
UHGV-2173886_61	UniRef90	UniRef90_UPI0011E8B9D5	DnaD domain protein	NA
UHGV-2173886_61	eggNOG-mapper	218284.CCDN010000001_gene839	Helix-turn-helix domain	NA
UHGV-2173886_61	Pfam	PF13730	Helix-turn-helix domain	HTH_36
UHGV-2173886_61	Pfam	PF07261	Replication initiation and membrane attachment	DnaB_2
UHGV-2173886_61	NCBIFam	TIGR01446.1	DnaD domain protein	NA
UHGV-2173886_61	COG	COG3935	DNA replication protein DnaD	NA
UHGV-2173886_61	Structural annotation	PF13730, NF040939, COG3355	NA	NA
UHGV-2173886_62	PHROG	phrog_7370	HNH endonuclease	DNA, RNA and nucleotide metabolism
UHGV-2173886_62	UniRef90	UniRef90_R7IWH8	HNHc domain-containing protein	NA
UHGV-2173886_62	eggNOG-mapper	445972.ANACOL_01826	HNH nucleases	NA
UHGV-2173886_62	Pfam	PF14279	HNH endonuclease	HNH_5
UHGV-2173886_68	UniRef90	UniRef90_U7UK22	Ribbon-helix-helix protein, CopG family	NA
UHGV-2173886_68	Pfam	PF03869	Arc-like DNA binding domain	Arc
UHGV-2173886_70	UniRef90	UniRef90_UPI001898FD36	NA	NA
UHGV-2173886_70	eggNOG-mapper	186153.Q8SDN2_BPPHD	NA	NA
UHGV-2173886_70	Pfam	PF05339	NA	DUF739
UHGV-2173886_70	Structural annotation	PF05339, NF002773, COG1476	NA	NA
UHGV-2173886_71	KOfam	K22299	rghR; HTH-type transcriptional regulator, competence development regulator	NA
UHGV-2173886_71	PHROG	phrog_2967	transcriptional regulator	transcription regulation
UHGV-2173886_71	UniRef90	UniRef90_UPI000F8F6018	helix-turn-helix domain-containing protein	NA
UHGV-2173886_71	eggNOG-mapper	1215915.BN193_09255	Peptidase S24-like	NA
UHGV-2173886_71	Pfam	PF01381	Helix-turn-helix	HTH_3
UHGV-2173886_71	COG	COG1396	Transcriptional regulator, contains XRE-family HTH domain	NA
UHGV-2173886_71	Structural annotation	PF01381, MF_00535, NF041951, COG3655	NA	NA
UHGV-2173886_72	PHROG	phrog_87	metallo-protease	other
UHGV-2173886_72	UniRef90	UniRef90_R5PN39	NA	NA
UHGV-2173886_72	eggNOG-mapper	1415774.U728_3391	Zn peptidase	NA
UHGV-2173886_72	Pfam	PF06114	IrrE N-terminal-like domain	Peptidase_M78
UHGV-2173886_72	COG	COG2856	Zn-dependent peptidase ImmA, M78 family	NA
UHGV-2173886_72	Structural annotation	PF06114, COG2856	NA	NA
UHGV-2173886_73	KOfam	K14059	int; integrase	NA
UHGV-2173886_73	PHROG	phrog_1	integrase	integration and excision
UHGV-2173886_73	UniRef90	UniRef90_A0A1Q6LED8	Tyr recombinase domain-containing protein	NA
UHGV-2173886_73	eggNOG-mapper	1462527.CCDM010000010_gene473	Phage integrase family	NA
UHGV-2173886_73	Pfam	PF00589	Phage integrase family	Phage_integrase
UHGV-2173886_73	COG	COG0582	Integrase/recombinase, includes phage integrase	NA
UHGV-2173886_73	Structural annotation	PF00589, MF_01808, NF007246, COG4974	NA	NA
UHGV-2173886_75	KOfam	K03524	birA; BirA family transcriptional regulator, biotin operon repressor / biotin---[acetyl-CoA-carboxylase] ligase [EC:6.3.4.15]	NA
UHGV-2173886_75	UniRef90	UniRef90_R5XM71	Biotin--[acetyl-CoA-carboxylase] ligase	NA
UHGV-2173886_75	eggNOG-mapper	411462.DORLON_00878	Acts both as a biotin-- acetyl-CoA-carboxylase ligase and a repressor	NA
UHGV-2173886_75	Pfam	PF03099	Biotin/lipoate A/B protein ligase family	BPL_LplA_LipB
UHGV-2173886_75	NCBIFam	TIGR00121.1	biotin--[acetyl-CoA-carboxylase] ligase	NA
UHGV-2173886_75	COG	COG0340	Biotin-(acetyl-CoA carboxylase) ligase	NA
UHGV-2173886_76	Pfam	PF20124	NA	DUF6514