UHGV-0138924

Genome information

Genome length 52,417 bps

CDS count 70

Completeness 100.00% (complete)

geNomad score 0.9811

Prediction confidence Confident

Genome information
Genome ID	UHGV-0138924
vOTU ID	vOTU-046015
vOTU representative	Yes
Source dataset	GPD
Original genome ID	uvig_375571
BioSample	NA
Country	United States
Virus prediction confidence	Confident

Quality assessment
CheckV method	DTR
CheckV completeness	100.00% (complete)
CheckV contamination	0.00%
Trimmed provirus	No
CheckV viral markers	20
CheckV host markers	0
Recoded stop codon	No

Viral signal
geNomad score	0.9811
Virus hallmark genes (geNomad)	8
Plasmid hallmark genes (geNomad)	0
viralVerify prediction	Virus
viralVerify score	82.53
Jumbo phage	No

Genome content
Genome length	52,417 bps
GC content	32.91%
Genetic code	The standard bacterial, archaeal and plant plastid code (11)
CDS count	70
CDS density	90.72%
Average CDS length	681.60 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-0138924_4	PHROG	phrog_33402	NA	unknown function
UHGV-0138924_7	KOfam	K01493	comEB; dCMP deaminase [EC:3.5.4.12]	NA
UHGV-0138924_7	PHROG	phrog_174	dCMP deaminase	DNA, RNA and nucleotide metabolism
UHGV-0138924_7	UniRef90	UniRef90_B2KDX9	Deoxycytidylate deaminase	NA
UHGV-0138924_7	eggNOG-mapper	1141106.CAIB01000280_gene2616	ComE operon protein 2	NA
UHGV-0138924_7	PADLOC	dCTPase	NA	NA
UHGV-0138924_7	Pfam	PF00383	Cytidine and deoxycytidylate deaminase zinc-binding region	dCMP_cyt_deam_1
UHGV-0138924_7	COG	COG2131	Deoxycytidylate deaminase	NA
UHGV-0138924_9	Pfam	PF01966	HD domain	HD
UHGV-0138924_9	COG	COG1418	HD superfamily phosphodieaserase, includes HD domain of RNase Y	NA
UHGV-0138924_17	KOfam	K03465	thyX, thy1; thymidylate synthase (FAD) [EC:2.1.1.148]	NA
UHGV-0138924_17	PHROG	phrog_85	thymidylate synthase	DNA, RNA and nucleotide metabolism
UHGV-0138924_17	UniRef90	UniRef90_A0A3A6K269	FAD-dependent thymidylate synthase	NA
UHGV-0138924_17	eggNOG-mapper	720554.Clocl_3035	Catalyzes the reductive methylation of 2'-deoxyuridine- 5'-monophosphate (dUMP) to 2'-deoxythymidine-5'-monophosphate (dTMP) while utilizing 5,10-methylenetetrahydrofolate (mTHF) as the methyl donor, and NADPH and FADH(2) as the reductant	NA
UHGV-0138924_17	Pfam	PF02511	Thymidylate synthase complementing protein	Thy1
UHGV-0138924_17	NCBIFam	TIGR02170.1	FAD-dependent thymidylate synthase	NA
UHGV-0138924_17	COG	COG1351	Thymidylate synthase ThyX, FAD-dependent family	NA
UHGV-0138924_17	Structural annotation	PF02511, MF_01408, TIGR02170, COG1351	NA	NA
UHGV-0138924_18	PHROG	phrog_34294	NA	unknown function
UHGV-0138924_18	Structural annotation	PF00303, MF_01686, TIGR03283, COG0207	NA	NA
UHGV-0138924_25	KOfam	K07505	repA; regulatory protein RepA	NA
UHGV-0138924_25	PHROG	phrog_3123	NA	unknown function
UHGV-0138924_25	UniRef90	UniRef90_A0A249XYW6	RepB_primase domain-containing protein	NA
UHGV-0138924_25	eggNOG-mapper	304371.MCP_2164	COG0467 RecA-superfamily ATPases implicated in signal transduction	NA
UHGV-0138924_25	Pfam	PF16793	RepB DNA-primase from phage plasmid	RepB_primase
UHGV-0138924_25	Pfam	PF13481	AAA domain	AAA_25
UHGV-0138924_25	COG	COG0467	RecA-superfamily ATPase, KaiC/GvpD/RAD55 family	NA
UHGV-0138924_25	Structural annotation	PF13481, PF16793, MF_00350, TIGR00416, NF040562, COG3598	NA	NA
UHGV-0138924_26	PHROG	phrog_28450	NA	unknown function
UHGV-0138924_27	PHROG	phrog_761	thymidylate kinase	other
UHGV-0138924_27	UniRef90	UniRef90_A0A2I6PI82	Thymidylate kinase	NA
UHGV-0138924_28	PHROG	phrog_12184	nucleotide pyrophosphohydrolase	other
UHGV-0138924_28	UniRef90	UniRef90_A0A843GTV8	dUTP diphosphatase	NA
UHGV-0138924_28	Pfam	PF08761	dUTPase	dUTPase_2
UHGV-0138924_28	Structural annotation	PF08761	NA	NA
UHGV-0138924_30	PHROG	phrog_34294	NA	unknown function
UHGV-0138924_30	Structural annotation	PF00303, MF_01686, TIGR03283, COG0207	NA	NA
UHGV-0138924_31	KOfam	K00560	thyA, TYMS; thymidylate synthase [EC:2.1.1.45]	NA
UHGV-0138924_31	PHROG	phrog_160	thymidylate synthase	DNA, RNA and nucleotide metabolism
UHGV-0138924_31	UniRef90	UniRef90_A0A5H2TTB3	Thymidylate synthase	NA
UHGV-0138924_31	eggNOG-mapper	1123318.KB904586_gene556	Catalyzes the reductive methylation of 2'-deoxyuridine- 5'-monophosphate (dUMP) to 2'-deoxythymidine-5'-monophosphate (dTMP) while utilizing 5,10-methylenetetrahydrofolate (mTHF) as the methyl donor and reductant in the reaction, yielding dihydrofolate (DHF) as a by-product. This enzymatic reaction provides an intracellular de novo source of dTMP, an essential precursor for DNA biosynthesis	NA
UHGV-0138924_31	Pfam	PF00303	Thymidylate synthase	Thymidylat_synt
UHGV-0138924_31	COG	COG0207	Thymidylate synthase	NA
UHGV-0138924_31	Structural annotation	PF00303, MF_01686, TIGR03283, COG0207	NA	NA
UHGV-0138924_32	KOfam	K02335	polA; DNA polymerase I [EC:2.7.7.7]	NA
UHGV-0138924_32	PHROG	phrog_17	DNA polymerase	DNA, RNA and nucleotide metabolism
UHGV-0138924_32	UniRef90	UniRef90_A0A316P160	DNA polymerase I (Fragment)	NA
UHGV-0138924_32	eggNOG-mapper	1340829.S5Y5D9_9CAUD	DNA polymerase family A	NA
UHGV-0138924_32	PADLOC	drt-cluster58	DRT	DRT
UHGV-0138924_32	Pfam	PF03167	Uracil DNA glycosylase superfamily	UDG
UHGV-0138924_32	Pfam	PF01612	3'-5' exonuclease	DNA_pol_A_exo1
UHGV-0138924_32	Pfam	PF00476	DNA polymerase family A	DNA_pol_A
UHGV-0138924_32	Structural annotation	PF00476, PF03167, PF01612, MF_04101, MF_01956, NF004397, COG0749, COG1573	NA	NA
UHGV-0138924_34	KOfam	K16899	addB; ATP-dependent helicase/nuclease subunit B [EC:5.6.2.4 3.1.-.-]	NA
UHGV-0138924_34	PHROG	phrog_1218	exonuclease	DNA, RNA and nucleotide metabolism
UHGV-0138924_34	UniRef90	UniRef90_A0A5H2TJR6	PDDEXK_1 domain-containing protein	NA
UHGV-0138924_34	Pfam	PF12705	PD-(D/E)XK nuclease superfamily	PDDEXK_1
UHGV-0138924_34	Structural annotation	PF12705, TIGR00372, COG2887	NA	NA
UHGV-0138924_35	PHROG	phrog_124	Sak4-like ssDNA annealing protein	DNA, RNA and nucleotide metabolism
UHGV-0138924_35	UniRef90	UniRef90_A0A1L6BY46	Nucleotide-binding protein	NA
UHGV-0138924_35	eggNOG-mapper	310539.Q5G7M3_9CAUD	AAA domain	NA
UHGV-0138924_35	Pfam	PF13479	AAA domain	AAA_24
UHGV-0138924_35	Structural annotation	PF13479, MF_00350, TIGR01618, COG2874	NA	NA
UHGV-0138924_36	PHROG	phrog_3724	NA	unknown function
UHGV-0138924_36	Pfam	PF05037	NA	DUF669
UHGV-0138924_36	Pfam	PF02037	SAP domain	SAP
UHGV-0138924_37	KOfam	K03698	cbf, cbf1; 3'-5' exoribonuclease [EC:3.1.-.-]	NA
UHGV-0138924_37	PHROG	phrog_28876	metal-dependent phosphohydrolase	other
UHGV-0138924_37	UniRef90	UniRef90_A0A373LVX6	HD domain-containing protein	NA
UHGV-0138924_37	eggNOG-mapper	1298920.KI911353_gene2728	Metal dependent phosphohydrolases with conserved 'HD' motif.	NA
UHGV-0138924_37	Pfam	PF01966	HD domain	HD
UHGV-0138924_37	COG	COG3481	3'-5' exoribonuclease YhaM, can participate in 23S rRNA maturation, HD superfamily	NA
UHGV-0138924_37	Structural annotation	PF07514, MF_01427, NF010007, COG3481	NA	NA
UHGV-0138924_39	PHROG	phrog_93	endonuclease	DNA, RNA and nucleotide metabolism
UHGV-0138924_39	UniRef90	UniRef90_UPI00164E5F39	VRR-NUC domain-containing protein	NA
UHGV-0138924_39	eggNOG-mapper	720554.Clocl_3676	pfam vrr-nuc	NA
UHGV-0138924_39	COG	COG1591	Holliday junction resolvase Hjc, archaeal type	NA
UHGV-0138924_40	KOfam	K14440	SMARCAL1, HARP; SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A-like protein 1 [EC:5.6.2.-]	NA
UHGV-0138924_40	PHROG	phrog_62	DNA helicase	DNA, RNA and nucleotide metabolism
UHGV-0138924_40	UniRef90	UniRef90_A0A1L6BY27	Helicase	NA
UHGV-0138924_40	eggNOG-mapper	887325.HMPREF0381_0366	SNF2 family N-terminal domain	NA
UHGV-0138924_40	PADLOC	DpdE_00003	DpdE	DPD
UHGV-0138924_40	Pfam	PF00176	SNF2-related domain	SNF2-rel_dom
UHGV-0138924_40	Pfam	PF00271	Helicase conserved C-terminal domain	Helicase_C
UHGV-0138924_40	COG	COG0553	Superfamily II DNA or RNA helicase, SNF2 family	NA
UHGV-0138924_40	Structural annotation	PF00176, PF00271, MF_01821, NF041790, COG0553	NA	NA
UHGV-0138924_42	PHROG	phrog_421	NA	unknown function
UHGV-0138924_42	UniRef90	UniRef90_A0A7U9X7X4	NA	NA
UHGV-0138924_42	eggNOG-mapper	1536769.P40081_01010	NA	NA
UHGV-0138924_42	Pfam	PF10979	NA	DUF2786
UHGV-0138924_42	COG	COG1451	UTP pyrophosphatase, metal-dependent hydrolase family	NA
UHGV-0138924_42	Structural annotation	PF10979	NA	NA
UHGV-0138924_44	KOfam	K03791	K03791; putative chitinase	NA
UHGV-0138924_44	PHROG	phrog_7854	endolysin	lysis
UHGV-0138924_44	UniRef90	UniRef90_A0A399IIP0	Lysozyme	NA
UHGV-0138924_44	eggNOG-mapper	985665.HPL003_05525	chitinase	NA
UHGV-0138924_44	Pfam	PF19127	Choline-binding repeat	Choline_bind_3
UHGV-0138924_44	COG	COG3179	Chitinase, GH19 family	NA
UHGV-0138924_45	PHROG	phrog_1129	holin	lysis
UHGV-0138924_45	UniRef90	UniRef90_UPI000CFA463C	phage holin family protein	NA
UHGV-0138924_45	eggNOG-mapper	1121115.AXVN01000006_gene2171	Phage holin family Hol44, in holin superfamily V	NA
UHGV-0138924_45	Pfam	PF16079	Phage holin family Hol44, in holin superfamily V	Phage_holin_5_2
UHGV-0138924_45	Structural annotation	PF16079	NA	NA
UHGV-0138924_46	PHROG	phrog_1863	NA	unknown function
UHGV-0138924_46	eggNOG-mapper	1196322.A370_02009	NA	NA
UHGV-0138924_47	PHROG	phrog_4492	tail fiber protein	tail
UHGV-0138924_47	UniRef90	UniRef90_UPI001DB7DE1F	phage tail protein	NA
UHGV-0138924_47	eggNOG-mapper	756499.Desde_1105	NA	NA
UHGV-0138924_48	PHROG	phrog_4492	tail fiber protein	tail
UHGV-0138924_48	UniRef90	UniRef90_UPI001DB7DE1F	phage tail protein	NA
UHGV-0138924_48	eggNOG-mapper	931276.Cspa_c10280	nuclear chromosome segregation	NA
UHGV-0138924_48	COG	COG5301	Phage-related tail fiber protein	NA
UHGV-0138924_48	Structural annotation	PF03425, NF033675	NA	NA
UHGV-0138924_49	Pfam	PF09693	Phage uncharacterised protein (Phage_XkdX)	Phage_XkdX
UHGV-0138924_49	NCBIFam	TIGR01669.1	XkdX family protein	NA
UHGV-0138924_49	Structural annotation	PF09693, TIGR01669	NA	NA
UHGV-0138924_50	PHROG	phrog_24451	NA	unknown function
UHGV-0138924_50	UniRef90	UniRef90_A0A3P6KYQ0	NA	NA
UHGV-0138924_50	eggNOG-mapper	931276.Cspa_c07590	NA	NA
UHGV-0138924_51	PHROG	phrog_4492	tail fiber protein	tail
UHGV-0138924_51	eggNOG-mapper	908340.HMPREF9406_2566	cellulose 1,4-beta-cellobiosidase activity	NA
UHGV-0138924_51	COG	COG5301	Phage-related tail fiber protein	NA
UHGV-0138924_52	PHROG	phrog_18444	NA	unknown function
UHGV-0138924_52	eggNOG-mapper	931276.Cspa_c07570	NA	NA
UHGV-0138924_53	PHROG	phrog_1067	minor head protein	head and packaging
UHGV-0138924_53	UniRef90	UniRef90_UPI001B36D8D4	phage tail protein	NA
UHGV-0138924_53	eggNOG-mapper	536233.CLO_1434	Phage minor structural protein	NA
UHGV-0138924_53	Pfam	PF18994	Prophage endopeptidase tail N-terminal domain	Prophage_tailD1
UHGV-0138924_53	Pfam	PF06605	Prophage endopeptidase tail	Prophage_tail
UHGV-0138924_53	NCBIFam	TIGR01665.1	phage tail spike protein	NA
UHGV-0138924_53	COG	COG4926	Phage-related protein	NA
UHGV-0138924_53	Structural annotation	PF06605, PF18994, PF18463, TIGR01665, COG4926	NA	NA
UHGV-0138924_54	PHROG	phrog_33	distal tail protein Dit	tail
UHGV-0138924_54	UniRef90	UniRef90_A0A6B0DXB1	Phage tail protein	NA
UHGV-0138924_54	eggNOG-mapper	1415774.U728_1243	NA	NA
UHGV-0138924_54	COG	COG4722	Phage-related protein YomH	NA
UHGV-0138924_54	Structural annotation	PF20195, TIGR01633, COG4722	NA	NA
UHGV-0138924_55	PHROG	phrog_1533	tail length tape measure protein	tail
UHGV-0138924_55	UniRef90	UniRef90_UPI001F070644	phage tail tape measure protein	NA
UHGV-0138924_55	eggNOG-mapper	411459.RUMOBE_01725	Phage tail tape measure protein, TP901 family	NA
UHGV-0138924_55	Pfam	PF10145	Phage-related minor tail protein	PhageMin_Tail
UHGV-0138924_55	NCBIFam	TIGR01760.1	phage tail tape measure protein	NA
UHGV-0138924_55	COG	COG5283	Phage-related tail protein	NA
UHGV-0138924_55	Structural annotation	PF10145, TIGR01760	NA	NA
UHGV-0138924_56	eggNOG-mapper	411902.CLOBOL_03872	NA	NA
UHGV-0138924_57	Structural annotation	PF16462	NA	NA
UHGV-0138924_58	PHROG	phrog_2175	protein with Ig domain	other
UHGV-0138924_58	UniRef90	UniRef90_A0A1C6G2I7	S-l_SbsC_C domain-containing protein	NA
UHGV-0138924_58	eggNOG-mapper	411468.CLOSCI_00281	NA	NA
UHGV-0138924_58	Pfam	PF18316	S-layer protein SbsC C-terminal domain	S-l_SbsC_C
UHGV-0138924_58	Structural annotation	PF18316, PF09393, TIGR01603, COG5437	NA	NA
UHGV-0138924_59	Structural annotation	PF12691	NA	NA
UHGV-0138924_60	PHROG	phrog_5	tail completion or Neck1 protein	connector
UHGV-0138924_60	UniRef90	UniRef90_A0A6M0SW62	HK97 gp10 family phage protein	NA
UHGV-0138924_60	eggNOG-mapper	411468.CLOSCI_00283	Bacteriophage HK97-gp10, putative tail-component	NA
UHGV-0138924_60	Pfam	PF04883	Bacteriophage HK97-gp10, putative tail-component	HK97-gp10_like
UHGV-0138924_61	UniRef90	UniRef90_A0A1D7XLS5	Phage head-tail adapter protein	NA
UHGV-0138924_61	eggNOG-mapper	411468.CLOSCI_00284	NA	NA
UHGV-0138924_61	Structural annotation	PF07405, TIGR01563, COG5614	NA	NA
UHGV-0138924_62	Pfam	PF05135	Phage gp6-like head-tail connector protein	Phage_connect_1
UHGV-0138924_64	PHROG	phrog_1328	major head protein	head and packaging
UHGV-0138924_64	UniRef90	UniRef90_UPI001D09835C	NA	NA
UHGV-0138924_64	eggNOG-mapper	665950.HMPREF1025_01353	NA	NA
UHGV-0138924_64	Pfam	PF17236	NA	DUF5309
UHGV-0138924_64	Structural annotation	PF17236, MF_04119, NF033394, COG4834	NA	NA
UHGV-0138924_65	PHROG	phrog_172	head scaffolding protein	head and packaging
UHGV-0138924_65	UniRef90	UniRef90_UPI0013DF0D35	NA	NA
UHGV-0138924_65	eggNOG-mapper	1123405.AUMM01000039_gene152	NA	NA
UHGV-0138924_65	Pfam	PF14265	NA	DUF4355
UHGV-0138924_65	Structural annotation	PF14265	NA	NA
UHGV-0138924_67	PHROG	phrog_4728	head morphogenesis	head and packaging
UHGV-0138924_67	UniRef90	UniRef90_UPI00164A9CF9	minor capsid protein	NA
UHGV-0138924_67	eggNOG-mapper	1540257.JQMW01000009_gene3369	Phage Mu protein F like protein	NA
UHGV-0138924_67	Pfam	PF04233	Phage Mu protein F like protein	Phage_Mu_F
UHGV-0138924_67	COG	COG2369	NA	NA
UHGV-0138924_68	PHROG	phrog_64	portal protein	head and packaging
UHGV-0138924_68	UniRef90	UniRef90_UPI001C3CC14D	phage portal protein	NA
UHGV-0138924_68	eggNOG-mapper	1123250.KB908417_gene647	Phage portal protein, SPP1 Gp6-like	NA
UHGV-0138924_68	Pfam	PF05133	Phage portal protein, SPP1 Gp6-like	Phage_prot_Gp6
UHGV-0138924_68	NCBIFam	TIGR01538.1	phage portal protein	NA
UHGV-0138924_68	Structural annotation	PF05133, MF_04120, TIGR01538, COG5518	NA	NA
UHGV-0138924_69	KOfam	K06909	xtmB; phage terminase large subunit	NA
UHGV-0138924_69	PHROG	phrog_3717	terminase large subunit	head and packaging
UHGV-0138924_69	UniRef90	UniRef90_UPI000C766542	PBSX family phage terminase large subunit	NA
UHGV-0138924_69	eggNOG-mapper	610130.Closa_1390	Terminase RNAseH like domain	NA
UHGV-0138924_69	Pfam	PF04466	Phage terminase large subunit	Terminase_3
UHGV-0138924_69	Pfam	PF17288	Terminase RNAseH like domain	Terminase_3C
UHGV-0138924_69	NCBIFam	TIGR01547.1	PBSX family phage terminase large subunit	NA
UHGV-0138924_69	COG	COG1783	Phage terminase large subunit	NA
UHGV-0138924_69	Structural annotation	PF04466, PF17288, MF_04145, TIGR01547, COG1783	NA	NA
UHGV-0138924_70	KOfam	K07474	xtmA; phage terminase small subunit	NA
UHGV-0138924_70	PHROG	phrog_2606	terminase small subunit	head and packaging
UHGV-0138924_70	UniRef90	UniRef90_A0A8F5H3F8	Terminase small subunit	NA
UHGV-0138924_70	eggNOG-mapper	224308.BSU12570	phage terminase small subunit	NA
UHGV-0138924_70	Pfam	PF03592	Terminase small subunit	Terminase_2
UHGV-0138924_70	COG	COG3728	Phage terminase, small subunit	NA