UHGV-0059160

Genome information

Genome length 30,461 bps

CDS count 56

Completeness 61.79% (medium-quality)

geNomad score 0.9679

Prediction confidence Confident

Genome information
Genome ID	UHGV-0059160
vOTU ID	vOTU-034086
vOTU representative	Yes
Source dataset	GPD
Original genome ID	uvig_80173
BioSample	NA
Country	Spain
Virus prediction confidence	Confident

Quality assessment
CheckV method	AAI-based
CheckV completeness	61.79% (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	0.9679
Virus hallmark genes (geNomad)	4
Plasmid hallmark genes (geNomad)	0
viralVerify prediction	Virus
viralVerify score	41.98
Jumbo phage	No

Genome content
Genome length	30,461 bps
GC content	58.20%
Genetic code	The standard bacterial, archaeal and plant plastid code (11)
CDS count	56
CDS density	84.76%
Average CDS length	463.34 bps
tRNA count	12
Suppressor tRNA genes	0

Genome content

Select view: Genome viewer Functional annotation

Functional annotation

Gene ID	Reference	Reference ID	Information	Category
UHGV-0059160_1	KOfam	K14059	int; integrase	NA
UHGV-0059160_1	PHROG	phrog_1	integrase	integration and excision
UHGV-0059160_1	UniRef90	UniRef90_UPI001106575D	tyrosine-type recombinase/integrase	NA
UHGV-0059160_1	eggNOG-mapper	1125712.HMPREF1316_1553	DNA integration	NA
UHGV-0059160_1	Pfam	PF14659	Phage integrase, N-terminal SAM-like domain	Phage_int_SAM_3
UHGV-0059160_1	COG	COG0582	Integrase/recombinase, includes phage integrase	NA
UHGV-0059160_1	Structural annotation	PF00589, MF_01808, TIGR02224, COG4974	NA	NA
UHGV-0059160_2	PHROG	phrog_6837	NA	unknown function
UHGV-0059160_2	Structural annotation	PF02701, TIGR04165	NA	NA
UHGV-0059160_3	KOfam	K22300	dicA; HTH-type transcriptional regulator, cell division transcriptional repressor	NA
UHGV-0059160_3	PHROG	phrog_8	transcriptional regulator	transcription regulation
UHGV-0059160_3	UniRef90	UniRef90_A0A3N0BBP1	HTH cro/C1-type domain-containing protein	NA
UHGV-0059160_3	eggNOG-mapper	742735.HMPREF9467_01754	Helix-turn-helix XRE-family like proteins	NA
UHGV-0059160_3	Pfam	PF01381	Helix-turn-helix	HTH_3
UHGV-0059160_3	Structural annotation	PF01381, MF_02017, NF041951, COG1476	NA	NA
UHGV-0059160_4	UniRef90	UniRef90_A0A2V2FRC8	Transcriptional regulator	NA
UHGV-0059160_4	eggNOG-mapper	1282664.H354_06791	Transcriptional regulator	NA
UHGV-0059160_4	Pfam	PF01381	Helix-turn-helix	HTH_3
UHGV-0059160_4	COG	COG1396	Transcriptional regulator, contains XRE-family HTH domain	NA
UHGV-0059160_7	KOfam	K07741	antB; anti-repressor protein	NA
UHGV-0059160_7	PHROG	phrog_130	anti-repressor Ant	transcription regulation
UHGV-0059160_7	UniRef90	UniRef90_A0A087D547	Phage antirepressor protein	NA
UHGV-0059160_7	eggNOG-mapper	78346.BRUM_0415	BRO family, N-terminal domain	NA
UHGV-0059160_7	Pfam	PF02498	BRO family, N-terminal domain	Bro-N
UHGV-0059160_7	Pfam	PF03374	Phage antirepressor protein KilAC domain	ANT
UHGV-0059160_7	COG	COG3617	Prophage antirepressor	NA
UHGV-0059160_7	Structural annotation	PF03374, PF02498, TIGR02681, COG3617, COG3645	NA	NA
UHGV-0059160_8	UniRef90	UniRef90_UPI0013A6734E	helix-turn-helix domain-containing protein	NA
UHGV-0059160_9	PHROG	phrog_140	RusA-like Holliday junction resolvase	DNA, RNA and nucleotide metabolism
UHGV-0059160_9	UniRef90	UniRef90_UPI0011061354	RusA family crossover junction endodeoxyribonuclease	NA
UHGV-0059160_9	eggNOG-mapper	1504822.CCNO01000013_gene309	crossover junction endodeoxyribonuclease activity	NA
UHGV-0059160_9	Pfam	PF05866	Endodeoxyribonuclease RusA	RusA
UHGV-0059160_9	COG	COG4570	Holliday junction resolvase RusA (prophage-encoded endonuclease)	NA
UHGV-0059160_9	Structural annotation	PF05866, NF007305, COG4570	NA	NA
UHGV-0059160_10	PHROG	phrog_434	RecE-like recombination exonuclease	DNA, RNA and nucleotide metabolism
UHGV-0059160_10	UniRef90	UniRef90_UPI00110603B3	YqaJ viral recombinase family protein	NA
UHGV-0059160_10	eggNOG-mapper	1504822.CCNO01000015_gene597	YqaJ viral recombinase family	NA
UHGV-0059160_10	Pfam	PF09588	YqaJ-like viral recombinase domain	YqaJ
UHGV-0059160_10	NCBIFam	TIGR03033.1	putative phage-type endonuclease	NA
UHGV-0059160_10	COG	COG5377	Phage-related protein, predicted endonuclease	NA
UHGV-0059160_10	Structural annotation	PF09588, MF_03030, TIGR03033, COG5377	NA	NA
UHGV-0059160_11	KOfam	K07455	recT; recombination protein RecT	NA
UHGV-0059160_11	PHROG	phrog_148	RecT-like ssDNA annealing protein	DNA, RNA and nucleotide metabolism
UHGV-0059160_11	UniRef90	UniRef90_UPI0014858083	recombinase RecT	NA
UHGV-0059160_11	eggNOG-mapper	1504822.CCNO01000015_gene598	DNA synthesis involved in double-strand break repair via homologous recombination	NA
UHGV-0059160_11	Pfam	PF03837	RecT family	RecT
UHGV-0059160_11	NCBIFam	TIGR00616.1	recombinase, phage RecT family	NA
UHGV-0059160_11	COG	COG3723	Recombinational DNA repair protein RecT	NA
UHGV-0059160_11	Structural annotation	PF03837, NF007351, COG3723	NA	NA
UHGV-0059160_12	UniRef90	UniRef90_A0A6N3DMH1	30S ribosomal protein S13	NA
UHGV-0059160_12	eggNOG-mapper	561175.KB894098_gene5480	Helix-hairpin-helix DNA-binding motif class 1	NA
UHGV-0059160_12	NCBIFam	NF041260.1	integration host factor, actinobacterial type	NA
UHGV-0059160_12	COG	COG0099	Ribosomal protein S13	NA
UHGV-0059160_12	Structural annotation	PF00416, MF_01315, NF041260, COG0099	NA	NA
UHGV-0059160_13	KOfam	K03111	ssb; single-strand DNA-binding protein	NA
UHGV-0059160_13	PHROG	phrog_44	single strand DNA binding protein	DNA, RNA and nucleotide metabolism
UHGV-0059160_13	UniRef90	UniRef90_R6Z1V7	Single-stranded DNA-binding protein	NA
UHGV-0059160_13	eggNOG-mapper	1118060.CAGZ01000028_gene971	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-0059160_13	Pfam	PF00436	Single-strand binding protein family	SSB
UHGV-0059160_13	NCBIFam	TIGR00621.2	single-stranded DNA-binding protein	NA
UHGV-0059160_13	COG	COG0629	Single-stranded DNA-binding protein	NA
UHGV-0059160_13	HAMAP	MF_00984	Single-stranded DNA-binding protein	NA
UHGV-0059160_13	Structural annotation	PF00436, MF_00984, NF005579, COG0629	NA	NA
UHGV-0059160_16	KOfam	K01520	dut, DUT; dUTP pyrophosphatase [EC:3.6.1.23]	NA
UHGV-0059160_16	PHROG	phrog_135	dUTPase	DNA, RNA and nucleotide metabolism
UHGV-0059160_16	UniRef90	UniRef90_UPI001E3E2DB2	dUTP diphosphatase	NA
UHGV-0059160_16	eggNOG-mapper	936375.HMPREF1152_0316	This enzyme is involved in nucleotide metabolism it produces dUMP, the immediate precursor of thymidine nucleotides and it decreases the intracellular concentration of dUTP so that uracil cannot be incorporated into DNA	NA
UHGV-0059160_16	Pfam	PF00692	dUTPase	dUTPase
UHGV-0059160_16	NCBIFam	NF001862.0	dUTP diphosphatase	NA
UHGV-0059160_16	COG	COG0756	dUTP pyrophosphatase (dUTPase)	NA
UHGV-0059160_16	Structural annotation	PF00692, MF_00116, NF001862, COG0756	NA	NA
UHGV-0059160_17	KOfam	K14415	RTCB, rtcB; tRNA-splicing ligase RtcB (3'-phosphate/5'-hydroxy nucleic acid ligase) [EC:6.5.1.8]	NA
UHGV-0059160_17	PHROG	phrog_1075	tRNA splicing ligase	DNA, RNA and nucleotide metabolism
UHGV-0059160_17	UniRef90	UniRef90_A0A6N9JGK3	RNA-splicing ligase RtcB	NA
UHGV-0059160_17	eggNOG-mapper	479437.Elen_2615	Belongs to the RtcB family	NA
UHGV-0059160_17	Pfam	PF01139	tRNA-splicing ligase RtcB	RtcB
UHGV-0059160_17	COG	COG1690	RNA-splicing ligase RtcB, repairs tRNA damage	NA
UHGV-0059160_17	Structural annotation	PF01139, MF_03144, NF007153, COG1690	NA	NA
UHGV-0059160_19	eggNOG-mapper	1122201.AUAZ01000057_gene6	NA	NA
UHGV-0059160_20	KOfam	K00558	DNMT1, dcm; DNA (cytosine-5)-methyltransferase 1 [EC:2.1.1.37]	NA
UHGV-0059160_20	PHROG	phrog_26324	DNA methyltransferase	other
UHGV-0059160_20	UniRef90	UniRef90_R9KXL4	DNA (cytosine-5-)-methyltransferase	NA
UHGV-0059160_20	eggNOG-mapper	1235794.C811_01553	DNA (cytosine-5-)-methyltransferase activity	NA
UHGV-0059160_20	Pfam	PF00145	C-5 cytosine-specific DNA methylase	DNA_methylase
UHGV-0059160_20	COG	COG0270	DNA-cytosine methylase	NA
UHGV-0059160_22	Structural annotation	PF09889, MF_00649	NA	NA
UHGV-0059160_24	Pfam	PF11753	NA	DUF3310
UHGV-0059160_24	Structural annotation	PF11753	NA	NA
UHGV-0059160_28	PHROG	phrog_986	RNA-binding protein	DNA, RNA and nucleotide metabolism
UHGV-0059160_28	UniRef90	UniRef90_A4E7A3	NA	NA
UHGV-0059160_28	eggNOG-mapper	211110.gbs1152	NA	NA
UHGV-0059160_28	Pfam	PF12961	NA	DUF3850
UHGV-0059160_28	Structural annotation	PF12961, MF_00684, NF003443, COG4043	NA	NA
UHGV-0059160_32	PHROG	phrog_355	nucleoside 2-deoxyribosyltransferase	DNA, RNA and nucleotide metabolism
UHGV-0059160_32	UniRef90	UniRef90_UPI001E585BFA	NA	NA
UHGV-0059160_32	eggNOG-mapper	97138.C820_00250	NA	NA
UHGV-0059160_32	Pfam	PF14359	NA	DUF4406
UHGV-0059160_32	Structural annotation	PF14359, COG3613	NA	NA
UHGV-0059160_34	PHROG	phrog_21525	NA	unknown function
UHGV-0059160_37	Structural annotation	NF033863	NA	NA
UHGV-0059160_38	PHROG	phrog_478	site-specific recombination directionality factor RDF	integration and excision
UHGV-0059160_38	UniRef90	UniRef90_R6R5K5	Protein 64 protein	NA
UHGV-0059160_38	eggNOG-mapper	1111121.HMPREF1247_0834	NA	NA
UHGV-0059160_40	PHROG	phrog_8489	DnaD-like helicase loader	DNA, RNA and nucleotide metabolism
UHGV-0059160_40	UniRef90	UniRef90_UPI001105FF6B	replisome organizer	NA
UHGV-0059160_40	eggNOG-mapper	1139219.I569_00860	DnaD domain protein	NA
UHGV-0059160_40	COG	COG3935	DNA replication protein DnaD	NA
UHGV-0059160_40	Structural annotation	PF09681, TIGR01714	NA	NA
UHGV-0059160_41	KOfam	K02315	dnaC; DNA replication protein DnaC	NA
UHGV-0059160_41	PHROG	phrog_50	DnaC-like helicase loader	DNA, RNA and nucleotide metabolism
UHGV-0059160_41	UniRef90	UniRef90_UPI00110588D4	ATP-binding protein	NA
UHGV-0059160_41	eggNOG-mapper	1410625.JHWK01000005_gene1316	IstB-like ATP binding protein	NA
UHGV-0059160_41	Pfam	PF01695	IstB-like ATP binding protein	IstB_IS21
UHGV-0059160_41	COG	COG1484	DNA replication protein DnaC	NA
UHGV-0059160_41	Structural annotation	PF01695, PF06827, MF_00377, NF005992, COG1484	NA	NA
UHGV-0059160_43	Structural annotation	PF06530	NA	NA
UHGV-0059160_45	Pfam	PF14297	Lin1244/Lin1753-like, N-terminal	Lin1244_N
UHGV-0059160_46	Structural annotation	PF09202	NA	NA
UHGV-0059160_51	PHROG	phrog_3007	RusA-like Holliday junction resolvase	DNA, RNA and nucleotide metabolism
UHGV-0059160_52	UniRef90	UniRef90_UPI001C98641B	helix-turn-helix domain-containing protein	NA
UHGV-0059160_52	Pfam	PF01381	Helix-turn-helix	HTH_3
UHGV-0059160_52	COG	COG3636	NA	NA
UHGV-0059160_52	Structural annotation	PF20075, TIGR02612, COG1396	NA	NA
UHGV-0059160_53	KOfam	K14060	pinR; putative DNA-invertase from lambdoid prophage Rac	NA
UHGV-0059160_53	PHROG	phrog_125	DNA invertase	DNA, RNA and nucleotide metabolism
UHGV-0059160_53	UniRef90	UniRef90_UPI001BB21D57	recombinase family protein	NA
UHGV-0059160_53	eggNOG-mapper	1408423.JHYA01000001_gene988	Resolvase, N terminal domain	NA
UHGV-0059160_53	Pfam	PF00239	Resolvase, N terminal domain	Resolvase
UHGV-0059160_53	COG	COG1961	Site-specific DNA recombinase SpoIVCA/DNA invertase PinE	NA
UHGV-0059160_53	Structural annotation	PF00239, PF02796, MF_00489, NF009949, COG1961	NA	NA
UHGV-0059160_54	PHROG	phrog_38	terminase large subunit	head and packaging
UHGV-0059160_54	UniRef90	UniRef90_UPI001106681D	phage terminase large subunit	NA
UHGV-0059160_54	eggNOG-mapper	1121866.AUGK01000003_gene1428	chromosome segregation	NA
UHGV-0059160_54	NCBIFam	TIGR01630.1	phage terminase large subunit	NA
UHGV-0059160_54	COG	COG5410	NA	NA
UHGV-0059160_54	Structural annotation	PF17289, PF04466, MF_04147, NF033889, COG5410, COG5362	NA	NA
UHGV-0059160_55	PHROG	phrog_64	portal protein	head and packaging
UHGV-0059160_55	UniRef90	UniRef90_UPI0011063BFA	phage portal protein	NA
UHGV-0059160_55	eggNOG-mapper	1121866.AUGK01000003_gene1429	Phage portal protein, SPP1 Gp6-like	NA
UHGV-0059160_55	Pfam	PF05133	Phage portal protein, SPP1 Gp6-like	Phage_prot_Gp6
UHGV-0059160_55	Structural annotation	PF05133, MF_04120, TIGR01538, COG5511	NA	NA