UHGV-0134516

Genome information

Genome length 57,560 bps

CDS count 97

Completeness 100.00% (complete)

geNomad score 0.9742

Prediction confidence Confident

Genome information
Genome ID	UHGV-0134516
vOTU ID	vOTU-045970
vOTU representative	Yes
Source dataset	GPD
Original genome ID	uvig_363740
BioSample	NA
Country	Denmark
Virus prediction confidence	Confident

Quality assessment
CheckV method	DTR
CheckV completeness	100.00% (complete)
CheckV contamination	0.00%
Trimmed provirus	No
CheckV viral markers	18
CheckV host markers	0
Recoded stop codon	No

Viral signal
geNomad score	0.9742
Virus hallmark genes (geNomad)	6
Plasmid hallmark genes (geNomad)	0
viralVerify prediction	Virus
viralVerify score	41.52
Jumbo phage	No

Genome content
Genome length	57,560 bps
GC content	29.51%
Genetic code	The standard bacterial, archaeal and plant plastid code (11)
CDS count	97
CDS density	89.75%
Average CDS length	534.65 bps
tRNA count	3
Suppressor tRNA genes	0

Genome content

Select view: Genome viewer Functional annotation

Functional annotation

Gene ID	Reference	Reference ID	Information	Category
UHGV-0134516_1	PHROG	phrog_1252	DNA polymerase	DNA, RNA and nucleotide metabolism
UHGV-0134516_1	UniRef90	UniRef90_UPI00189DB5D1	DNA polymerase elongation subunit (family B)	NA
UHGV-0134516_1	eggNOG-mapper	1444310.JANV01000096_gene3242	DNA polymerase elongation subunit (Family B)	NA
UHGV-0134516_1	COG	COG0417	DNA polymerase B elongation subunit	NA
UHGV-0134516_1	Structural annotation	PF08490, MF_04010, NF004416, COG0417	NA	NA
UHGV-0134516_2	PHROG	phrog_1252	DNA polymerase	DNA, RNA and nucleotide metabolism
UHGV-0134516_2	eggNOG-mapper	1121866.AUGK01000003_gene1403	DNA replication proofreading	NA
UHGV-0134516_2	COG	COG0417	DNA polymerase B elongation subunit	NA
UHGV-0134516_5	KOfam	K18959	uvsW; ATP-dependent DNA helicase UvsW [EC:5.6.2.4]	NA
UHGV-0134516_5	PHROG	phrog_16	DNA helicase	DNA, RNA and nucleotide metabolism
UHGV-0134516_5	UniRef90	UniRef90_A0A3D2MTJ6	DNA or RNA helicase of superfamily II	NA
UHGV-0134516_5	eggNOG-mapper	1449050.JNLE01000003_gene3908	Type III restriction protein res subunit	NA
UHGV-0134516_5	PADLOC	mREase_IV_00004	Type IV methyl-directed restriction enzyme	RM
UHGV-0134516_5	Pfam	PF04851	Type III restriction enzyme, res subunit	ResIII
UHGV-0134516_5	Pfam	PF00271	Helicase conserved C-terminal domain	Helicase_C
UHGV-0134516_5	COG	COG1061	Superfamily II DNA or RNA helicase	NA
UHGV-0134516_5	Structural annotation	PF04851, PF16203, MF_01489, TIGR00603, COG1061	NA	NA
UHGV-0134516_6	Pfam	PF01870	Archaeal holliday junction resolvase (hjc)	Hjc
UHGV-0134516_10	Structural annotation	PF20384, COG1862	NA	NA
UHGV-0134516_12	Structural annotation	PF06372, MF_01077, NF011232, COG1958	NA	NA
UHGV-0134516_20	Pfam	PF07453	NUMOD1 domain	NUMOD1
UHGV-0134516_20	Structural annotation	PF07453	NA	NA
UHGV-0134516_22	KOfam	K00571	E2.1.1.72; site-specific DNA-methyltransferase (adenine-specific) [EC:2.1.1.72]	NA
UHGV-0134516_22	PHROG	phrog_67	DNA methyltransferase	other
UHGV-0134516_22	UniRef90	UniRef90_UPI001D0062AB	site-specific DNA-methyltransferase	NA
UHGV-0134516_22	eggNOG-mapper	877240.E1AC06_9CAUD	helicase activity	NA
UHGV-0134516_22	PADLOC	MTase_II_00157	Type II methyltransferase	RM
UHGV-0134516_22	Pfam	PF01555	DNA methylase	N6_N4_Mtase
UHGV-0134516_22	Structural annotation	PF01555, MF_01872, NF008572, COG0863	NA	NA
UHGV-0134516_26	Structural annotation	PF01104, NF041014	NA	NA
UHGV-0134516_32	PHROG	phrog_695	DNA polymerase/primase	DNA, RNA and nucleotide metabolism
UHGV-0134516_32	UniRef90	UniRef90_UPI001EE1B367	bifunctional DNA primase/polymerase	NA
UHGV-0134516_32	Pfam	PF09250	Bifunctional DNA primase/polymerase, N-terminal	Prim-Pol
UHGV-0134516_32	Structural annotation	PF09250, COG4983	NA	NA
UHGV-0134516_36	PHROG	phrog_256	DNA helicase	DNA, RNA and nucleotide metabolism
UHGV-0134516_36	UniRef90	UniRef90_A0A1V5XFC1	Virulence-associated protein E	NA
UHGV-0134516_36	eggNOG-mapper	536232.CLM_2670	virulence-associated E family protein	NA
UHGV-0134516_36	Pfam	PF05272	Virulence-associated protein E-like domain	VapE-like_dom
UHGV-0134516_36	COG	COG5545	Predicted P-loop ATPase and inactivated derivatives	NA
UHGV-0134516_36	Structural annotation	PF05272, MF_00016, NF005477, COG5545	NA	NA
UHGV-0134516_39	PHROG	phrog_424	phosphoadenosine phosphosulfate reductase	moron, auxiliary metabolic gene and host takeover
UHGV-0134516_39	UniRef90	UniRef90_UPI001C2BB323	phosphoadenosine phosphosulfate reductase family protein	NA
UHGV-0134516_39	eggNOG-mapper	1151292.QEW_4547	NA	NA
UHGV-0134516_39	COG	COG0175	3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase or related enzyme	NA
UHGV-0134516_39	Structural annotation	PF01507, MF_00063, NF006327, COG0175	NA	NA
UHGV-0134516_42	PHROG	phrog_388	nucleotidyltransferase	DNA, RNA and nucleotide metabolism
UHGV-0134516_42	UniRef90	UniRef90_A0A843FSU3	Nucleotidyltransferase domain-containing protein	NA
UHGV-0134516_42	eggNOG-mapper	498761.HM1_0723	Predicted nucleotidyltransferase	NA
UHGV-0134516_42	Structural annotation	PF10127, PF08222, MF_00621, TIGR02787, NF000079, COG4465, COG3541	NA	NA
UHGV-0134516_43	KOfam	K14680	E6.5.1.3; RNA ligase [EC:6.5.1.3]	NA
UHGV-0134516_43	PHROG	phrog_8238	RNA ligase	DNA, RNA and nucleotide metabolism
UHGV-0134516_43	UniRef90	UniRef90_A0A7X2N4V7	AAA family ATPase	NA
UHGV-0134516_43	eggNOG-mapper	411474.COPEUT_00782	AAA domain	NA
UHGV-0134516_43	Pfam	PF13671	AAA domain	AAA_33
UHGV-0134516_43	Pfam	PF00149	Calcineurin-like phosphoesterase	Metallophos
UHGV-0134516_43	Pfam	PF09511	RNA ligase	RNA_lig_T4_1
UHGV-0134516_43	COG	COG0639	Diadenosine tetraphosphatase ApaH/serine/threonine protein phosphatase, PP2A family	NA
UHGV-0134516_43	Structural annotation	PF09511, PF13671, MF_04149, MF_01443, MF_03171, TIGR04075, COG5324, COG4639, COG2129	NA	NA
UHGV-0134516_44	PHROG	phrog_7488	NA	unknown function
UHGV-0134516_45	PHROG	phrog_478	site-specific recombination directionality factor RDF	integration and excision
UHGV-0134516_45	eggNOG-mapper	1123263.AUKY01000096_gene1821	NA	NA
UHGV-0134516_48	Pfam	PF01381	Helix-turn-helix	HTH_3
UHGV-0134516_49	Pfam	PF16677	DNA-packaging protein gp3	GP3_package
UHGV-0134516_56	PHROG	phrog_38	terminase large subunit	head and packaging
UHGV-0134516_56	UniRef90	UniRef90_A0A810QA10	Terminase	NA
UHGV-0134516_56	eggNOG-mapper	1121866.AUGK01000003_gene1428	chromosome segregation	NA
UHGV-0134516_56	COG	COG5410	NA	NA
UHGV-0134516_56	Structural annotation	PF17289, PF03237, MF_04147, NF033889, COG5410, COG5362	NA	NA
UHGV-0134516_57	PHROG	phrog_64	portal protein	head and packaging
UHGV-0134516_57	UniRef90	UniRef90_A0A5C7LYZ5	Phage portal protein	NA
UHGV-0134516_57	eggNOG-mapper	1449342.JQMR01000001_gene1009	Phage portal protein, SPP1 Gp6-like	NA
UHGV-0134516_57	Pfam	PF05133	Phage portal protein, SPP1 Gp6-like	Phage_prot_Gp6
UHGV-0134516_57	Structural annotation	PF05133, MF_04120, TIGR01538, COG5511	NA	NA
UHGV-0134516_58	Structural annotation	PF14265	NA	NA
UHGV-0134516_59	PHROG	phrog_909	major head protein	head and packaging
UHGV-0134516_59	UniRef90	UniRef90_A0A0K9GRK0	NA	NA
UHGV-0134516_59	eggNOG-mapper	1158612.I580_01911	NA	NA
UHGV-0134516_59	Pfam	PF02924	Bacteriophage lambda head decoration protein D	HDPD
UHGV-0134516_60	PHROG	phrog_29	major head protein	head and packaging
UHGV-0134516_60	UniRef90	UniRef90_UPI00082C04A5	major capsid protein	NA
UHGV-0134516_60	eggNOG-mapper	1158612.I580_01912	Phage major capsid protein E	NA
UHGV-0134516_60	Pfam	PF03864	Phage major capsid protein E	Phage_cap_E
UHGV-0134516_60	Structural annotation	PF03864, MF_04133, NF041162, COG4653	NA	NA
UHGV-0134516_64	Structural annotation	PF07405, TIGR01563, COG5614	NA	NA
UHGV-0134516_65	Structural annotation	PF17395, TIGR01725	NA	NA
UHGV-0134516_66	Structural annotation	PF05657	NA	NA
UHGV-0134516_67	eggNOG-mapper	1211844.CBLM010000023_gene989	NA	NA
UHGV-0134516_67	Structural annotation	PF16463, TIGR02241, COG5437	NA	NA
UHGV-0134516_68	eggNOG-mapper	1211844.CBLM010000023_gene988	NA	NA
UHGV-0134516_68	Pfam	PF16478	NA	DUF5055
UHGV-0134516_68	Structural annotation	PF16478	NA	NA
UHGV-0134516_69	eggNOG-mapper	1121333.JMLH01000047_gene1011	NA	NA
UHGV-0134516_70	PHROG	phrog_1535	tail length tape measure protein	tail
UHGV-0134516_70	UniRef90	UniRef90_A0A1C6JAZ8	Phage-related protein	NA
UHGV-0134516_70	eggNOG-mapper	1232449.BAHV02000010_gene2723	domain protein	NA
UHGV-0134516_70	COG	COG1511	NA	NA
UHGV-0134516_71	PHROG	phrog_1194	NA	unknown function
UHGV-0134516_71	Pfam	PF20458	NA	DUF6711
UHGV-0134516_71	Structural annotation	PF20458, TIGR01633, COG3499	NA	NA
UHGV-0134516_73	PHROG	phrog_372	tail protein	tail
UHGV-0134516_73	eggNOG-mapper	1507.HMPREF0262_00218	tail collar domain protein	NA
UHGV-0134516_73	Pfam	PF05895	NA	DUF859
UHGV-0134516_73	COG	COG4675	Phage tail collar domain	NA
UHGV-0134516_73	Structural annotation	PF05895, MF_04116, NF010681, COG3291, COG2967	NA	NA
UHGV-0134516_75	eggNOG-mapper	476272.RUMHYD_00002	NA	NA
UHGV-0134516_77	eggNOG-mapper	1123075.AUDP01000020_gene1531	NA	NA
UHGV-0134516_80	Structural annotation	PF04545, MF_00245, NF001067, COG2771	NA	NA
UHGV-0134516_83	KOfam	K19304	mepM; murein DD-endopeptidase [EC:3.4.24.-]	NA
UHGV-0134516_83	PHROG	phrog_7767	metallo-endopeptidase	other
UHGV-0134516_83	UniRef90	UniRef90_A0A843GUL6	M23 family metallopeptidase	NA
UHGV-0134516_83	eggNOG-mapper	1122918.KB907247_gene4918	Membrane proteins related to metalloendopeptidases	NA
UHGV-0134516_83	Pfam	PF01551	Peptidase family M23	Peptidase_M23
UHGV-0134516_83	Pfam	PF08239	Bacterial SH3 domain	SH3_3
UHGV-0134516_83	COG	COG0739	Murein DD-endopeptidase MepM and murein hydrolase activator NlpD, contains LysM domain	NA
UHGV-0134516_84	eggNOG-mapper	857293.CAAU_1000	NA	NA
UHGV-0134516_85	PHROG	phrog_3754	NA	unknown function
UHGV-0134516_85	eggNOG-mapper	1278311.AUAL01000001_gene36	NA	NA
UHGV-0134516_86	eggNOG-mapper	476272.RUMHYD_01772	NA	NA
UHGV-0134516_87	Structural annotation	PF18573, NF033147	NA	NA
UHGV-0134516_89	PHROG	phrog_9084	homing endonuclease	DNA, RNA and nucleotide metabolism
UHGV-0134516_89	UniRef90	UniRef90_A0A6G6ZQZ0	Uyr/REP helicase	NA
UHGV-0134516_89	eggNOG-mapper	176652.VF307_IIV6	NA	NA
UHGV-0134516_90	PHROG	phrog_16490	NA	unknown function
UHGV-0134516_90	eggNOG-mapper	476272.RUMHYD_01770	NA	NA
UHGV-0134516_92	eggNOG-mapper	397290.C810_01326	NA	NA
UHGV-0134516_95	Structural annotation	PF05037, NF005674	NA	NA
UHGV-0134516_96	PHROG	phrog_434	RecE-like recombination exonuclease	DNA, RNA and nucleotide metabolism
UHGV-0134516_96	UniRef90	UniRef90_UPI001A9C0D6F	YqaJ viral recombinase family protein	NA
UHGV-0134516_96	eggNOG-mapper	1121866.AUGK01000003_gene1405	YqaJ viral recombinase family	NA
UHGV-0134516_96	Pfam	PF09588	YqaJ-like viral recombinase domain	YqaJ
UHGV-0134516_96	COG	COG5377	Phage-related protein, predicted endonuclease	NA
UHGV-0134516_96	Structural annotation	PF09588, TIGR03033, COG5377	NA	NA