UHGV-0048601

Genome information

Genome length 43,332 bps

CDS count 73

Completeness 97.28% (high-quality)

geNomad score 0.9804

Prediction confidence Confident

Genome information
Genome ID	UHGV-0048601
vOTU ID	vOTU-014178
vOTU representative	Yes
Source dataset	GPD
Original genome ID	ivig_4016
BioSample	NA
Country	Unknown
Virus prediction confidence	Confident

Quality assessment
CheckV method	AAI-based
CheckV completeness	97.28% (high-quality)
CheckV contamination	0.00%
Trimmed provirus	No
CheckV viral markers	24
CheckV host markers	1
Recoded stop codon	No

Viral signal
geNomad score	0.9804
Virus hallmark genes (geNomad)	7
Plasmid hallmark genes (geNomad)	0
viralVerify prediction	Virus
viralVerify score	69.74
Jumbo phage	No

Genome content
Genome length	43,332 bps
GC content	41.77%
Genetic code	The standard bacterial, archaeal and plant plastid code (11)
CDS count	73
CDS density	93.44%
Average CDS length	558.86 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-0048601_1	KOfam	K01790	rfbC, rmlC; dTDP-4-dehydrorhamnose 3,5-epimerase [EC:5.1.3.13]	NA
UHGV-0048601_1	PHROG	phrog_8784	dTDP-4-dehydrorhamnose 3,5-epimerase	moron, auxiliary metabolic gene and host takeover
UHGV-0048601_1	UniRef90	UniRef90_A0A173TJD9	dTDP-4-dehydrorhamnose 3,5-epimerase	NA
UHGV-0048601_1	eggNOG-mapper	309803.CTN_0032	Catalyzes the epimerization of the C3' and C5'positions of dTDP-6-deoxy-D-xylo-4-hexulose, forming dTDP-6-deoxy-L-lyxo-4- hexulose	NA
UHGV-0048601_1	Pfam	PF00908	dTDP-4-dehydrorhamnose 3,5-epimerase	dTDP_sugar_isom
UHGV-0048601_1	COG	COG1898	dTDP-4-dehydrorhamnose 3,5-epimerase or related enzyme	NA
UHGV-0048601_1	Structural annotation	PF00908, MF_01410, TIGR01221, COG1898	NA	NA
UHGV-0048601_2	KOfam	K01448	amiABC; N-acetylmuramoyl-L-alanine amidase [EC:3.5.1.28]	NA
UHGV-0048601_2	PHROG	phrog_435	endolysin	lysis
UHGV-0048601_2	UniRef90	UniRef90_D4L3U3	N-acetylmuramoyl-L-alanine amidase	NA
UHGV-0048601_2	eggNOG-mapper	411490.ANACAC_00597	Cell wall hydrolase autolysin	NA
UHGV-0048601_2	Pfam	PF01520	N-acetylmuramoyl-L-alanine amidase	Amidase_3
UHGV-0048601_2	COG	COG0860	N-acetylmuramoyl-L-alanine amidase	NA
UHGV-0048601_2	Structural annotation	PF01520, PF18342, MF_00417, TIGR02883, COG0860, COG4991	NA	NA
UHGV-0048601_3	PHROG	phrog_443	holin	lysis
UHGV-0048601_3	UniRef90	UniRef90_UPI000C75746C	holin	NA
UHGV-0048601_3	eggNOG-mapper	626523.GCWU000342_01012	Putative lactococcus lactis phage r1t holin	NA
UHGV-0048601_3	Pfam	PF16945	Putative lactococcus lactis phage r1t holin	Phage_r1t_holin
UHGV-0048601_3	Structural annotation	PF16945	NA	NA
UHGV-0048601_4	PHROG	phrog_4105	NA	unknown function
UHGV-0048601_4	eggNOG-mapper	521003.COLINT_02361	NA	NA
UHGV-0048601_5	PHROG	phrog_17196	kinase	other
UHGV-0048601_5	UniRef90	UniRef90_D4L3U0	Peptidase S74 domain-containing protein	NA
UHGV-0048601_5	eggNOG-mapper	1235790.C805_00090	NA	NA
UHGV-0048601_5	Pfam	PF03903	Phage T4 tail fibre	Phage_T4_gp36
UHGV-0048601_5	Pfam	PF13884	Chaperone of endosialidase	Peptidase_S74
UHGV-0048601_7	PHROG	phrog_18190	NA	unknown function
UHGV-0048601_7	UniRef90	UniRef90_C7GBZ4	Peptidase S74 domain-containing protein	NA
UHGV-0048601_7	eggNOG-mapper	1235790.C805_00089	NA	NA
UHGV-0048601_7	Pfam	PF13884	Chaperone of endosialidase	Peptidase_S74
UHGV-0048601_7	Structural annotation	PF05113, NF033848, COG3500	NA	NA
UHGV-0048601_8	PHROG	phrog_1194	NA	unknown function
UHGV-0048601_8	eggNOG-mapper	1235790.C805_00088	NA	NA
UHGV-0048601_8	Pfam	PF20458	NA	DUF6711
UHGV-0048601_8	Structural annotation	PF20458, TIGR01633, COG3499	NA	NA
UHGV-0048601_9	PHROG	phrog_1535	tail length tape measure protein	tail
UHGV-0048601_9	UniRef90	UniRef90_A0A174WQ97	Phage-like protein	NA
UHGV-0048601_9	eggNOG-mapper	1235790.C805_00087	tape measure	NA
UHGV-0048601_9	COG	COG3941	Phage tail tape-measure protein, controls tail length	NA
UHGV-0048601_9	Structural annotation	PF20155, TIGR01760, COG3941	NA	NA
UHGV-0048601_10	PHROG	phrog_706	NA	unknown function
UHGV-0048601_10	UniRef90	UniRef90_C7GBZ7	Bacteriophage Gp15 protein	NA
UHGV-0048601_10	eggNOG-mapper	1235790.C805_00084	Bacteriophage Gp15 protein	NA
UHGV-0048601_10	Pfam	PF06854	Bacteriophage Gp15 protein	Phage_Gp15
UHGV-0048601_10	Structural annotation	PF06854	NA	NA
UHGV-0048601_11	PHROG	phrog_11299	NA	unknown function
UHGV-0048601_11	UniRef90	UniRef90_A0A412KF72	RNA polymerase subunit sigma	NA
UHGV-0048601_11	eggNOG-mapper	1120746.CCNL01000014_gene2103	NA	NA
UHGV-0048601_11	Pfam	PF20378	NA	DUF6673
UHGV-0048601_11	Structural annotation	PF10666	NA	NA
UHGV-0048601_12	PHROG	phrog_3099	NA	unknown function
UHGV-0048601_12	Structural annotation	PF06199, TIGR02126, COG5437	NA	NA
UHGV-0048601_13	PHROG	phrog_3266	tail completion	connector
UHGV-0048601_13	eggNOG-mapper	397290.C810_05232	NA	NA
UHGV-0048601_13	Structural annotation	PF12691	NA	NA
UHGV-0048601_14	PHROG	phrog_3366	NA	unknown function
UHGV-0048601_14	eggNOG-mapper	476272.RUMHYD_01779	NA	NA
UHGV-0048601_14	Structural annotation	PF20536, COG5614	NA	NA
UHGV-0048601_16	PHROG	phrog_541	head-tail adaptor	connector
UHGV-0048601_16	eggNOG-mapper	476272.RUMHYD_01778	NA	NA
UHGV-0048601_17	PHROG	phrog_247	major head protein	head and packaging
UHGV-0048601_17	UniRef90	UniRef90_A0A3R6GNQ1	Phage coat protein	NA
UHGV-0048601_17	eggNOG-mapper	536233.CLO_0886	NA	NA
UHGV-0048601_17	Pfam	PF20036	Major capsid protein 13-like	Gp13-like
UHGV-0048601_17	COG	COG1106	ATPase/GTPase, AAA15 family	NA
UHGV-0048601_17	Structural annotation	PF20036, MF_04113, TIGR04387, COG4653	NA	NA
UHGV-0048601_18	eggNOG-mapper	1539298.JO41_08210	Phage minor structural protein GP20	NA
UHGV-0048601_22	KOfam	K07741	antB; anti-repressor protein	NA
UHGV-0048601_22	PHROG	phrog_5817	anti-repressor Ant	transcription regulation
UHGV-0048601_22	UniRef90	UniRef90_A0A415TWU5	AntA domain-containing protein	NA
UHGV-0048601_22	eggNOG-mapper	1235802.C823_01054	AntA/AntB antirepressor	NA
UHGV-0048601_22	Pfam	PF08346	AntA/AntB antirepressor	AntA
UHGV-0048601_22	COG	COG3561	Phage anti-repressor protein Ant	NA
UHGV-0048601_22	Structural annotation	PF09669, TIGR02681, COG3646	NA	NA
UHGV-0048601_23	KOfam	K14056	puuR; HTH-type transcriptional regulator, repressor for puuD	NA
UHGV-0048601_23	PHROG	phrog_3	transcriptional repressor	transcription regulation
UHGV-0048601_23	UniRef90	UniRef90_A0A3R6KB83	XRE family transcriptional regulator	NA
UHGV-0048601_23	eggNOG-mapper	1196322.A370_02181	Cro/C1-type HTH DNA-binding domain	NA
UHGV-0048601_23	Pfam	PF13443	Cro/C1-type HTH DNA-binding domain	HTH_26
UHGV-0048601_23	Structural annotation	PF01381, NF041951, COG3655	NA	NA
UHGV-0048601_24	KOfam	K22299	rghR; HTH-type transcriptional regulator, competence development regulator	NA
UHGV-0048601_24	PHROG	phrog_8	transcriptional regulator	transcription regulation
UHGV-0048601_24	UniRef90	UniRef90_A0A3R6KSN7	XRE family transcriptional regulator	NA
UHGV-0048601_24	eggNOG-mapper	572479.Hprae_0053	PFAM metal-dependent phosphohydrolase, HD sub domain	NA
UHGV-0048601_24	PADLOC	retron_type_VI_hth_cluster2_1	NA	Retron
UHGV-0048601_24	Pfam	PF01381	Helix-turn-helix	HTH_3
UHGV-0048601_24	COG	COG2206	HD-GYP domain, c-di-GMP phosphodiesterase class II (or its inactivated variant)	NA
UHGV-0048601_24	Structural annotation	PF01381, MF_00535, NF041951, COG3655	NA	NA
UHGV-0048601_25	UniRef90	UniRef90_R6BU26	Peptidyl-dipeptidase Dcp	NA
UHGV-0048601_26	PHROG	phrog_581	minor head protein	head and packaging
UHGV-0048601_26	UniRef90	UniRef90_A0A6L5YIK0	Phage capsid protein	NA
UHGV-0048601_26	eggNOG-mapper	663278.Ethha_0091	NA	NA
UHGV-0048601_26	Pfam	PF06152	Phage minor capsid protein 2	Phage_min_cap2
UHGV-0048601_26	COG	COG2369	NA	NA
UHGV-0048601_26	Structural annotation	PF06152	NA	NA
UHGV-0048601_27	PHROG	phrog_556	minor head protein	head and packaging
UHGV-0048601_27	UniRef90	UniRef90_UPI000E4A8F9F	minor capsid protein	NA
UHGV-0048601_27	eggNOG-mapper	476272.RUMHYD_01780	NA	NA
UHGV-0048601_27	Pfam	PF11114	Minor capsid protein	Minor_capsid_2
UHGV-0048601_27	Structural annotation	PF11114	NA	NA
UHGV-0048601_29	PHROG	phrog_533	portal protein	head and packaging
UHGV-0048601_29	UniRef90	UniRef90_A0A3B9CD47	Phage capsid protein	NA
UHGV-0048601_29	eggNOG-mapper	476272.RUMHYD_01758	phage minor capsid protein	NA
UHGV-0048601_29	Structural annotation	PF05133, MF_04120, TIGR01542, COG5511	NA	NA
UHGV-0048601_30	PHROG	phrog_1233	NA	unknown function
UHGV-0048601_30	UniRef90	UniRef90_UPI001C39EFB9	Dienelactone hydrolase family protein	NA
UHGV-0048601_30	eggNOG-mapper	357809.Cphy_2967	NA	NA
UHGV-0048601_31	KOfam	K06909	xtmB; phage terminase large subunit	NA
UHGV-0048601_31	PHROG	phrog_3717	terminase large subunit	head and packaging
UHGV-0048601_31	UniRef90	UniRef90_A0A3R6H2I4	Terminase_3 domain-containing protein	NA
UHGV-0048601_31	eggNOG-mapper	33035.JPJF01000106_gene3136	Terminase small subunit	NA
UHGV-0048601_31	Pfam	PF10668	Phage terminase small subunit	Phage_terminase
UHGV-0048601_31	Pfam	PF03592	Terminase small subunit	Terminase_2
UHGV-0048601_31	Pfam	PF04466	Phage terminase large subunit	Terminase_3
UHGV-0048601_31	COG	COG1783	Phage terminase large subunit	NA
UHGV-0048601_31	Structural annotation	PF04466, PF17288, PF06056, MF_04145, TIGR01547, COG1783	NA	NA
UHGV-0048601_32	PHROG	phrog_9479	NA	unknown function
UHGV-0048601_32	eggNOG-mapper	1514668.JOOA01000002_gene2680	NA	NA
UHGV-0048601_32	Structural annotation	PF15529	NA	NA
UHGV-0048601_33	PHROG	phrog_8680	NA	unknown function
UHGV-0048601_33	UniRef90	UniRef90_A0A3R6K733	NA	NA
UHGV-0048601_33	eggNOG-mapper	411470.RUMGNA_02208	NA	NA
UHGV-0048601_33	Pfam	PF14386	NA	DUF4417
UHGV-0048601_33	Structural annotation	PF14386	NA	NA
UHGV-0048601_34	UniRef90	UniRef90_A0A3R6LT65	ABC transporter ATP-binding protein	NA
UHGV-0048601_35	Structural annotation	PF09889, COG4068	NA	NA
UHGV-0048601_38	eggNOG-mapper	411459.RUMOBE_01111	NA	NA
UHGV-0048601_39	KOfam	K06223	dam; DNA adenine methylase [EC:2.1.1.72]	NA
UHGV-0048601_39	PHROG	phrog_56	DNA methyltransferase	other
UHGV-0048601_39	UniRef90	UniRef90_A0A413Z5T1	DNA adenine methylase	NA
UHGV-0048601_39	eggNOG-mapper	1511.CLOST_1547	D12 class N6 adenine-specific DNA methyltransferase	NA
UHGV-0048601_39	PADLOC	MTase_II_00030	Type II methyltransferase	RM
UHGV-0048601_39	Pfam	PF02086	D12 class N6 adenine-specific DNA methyltransferase	MethyltransfD12
UHGV-0048601_39	COG	COG0338	DNA-adenine methylase	NA
UHGV-0048601_39	Structural annotation	PF02086, MF_01872, NF008152, COG0338	NA	NA
UHGV-0048601_40	KOfam	K00390	cysH; phosphoadenosine phosphosulfate reductase [EC:1.8.4.8 1.8.4.10]	NA
UHGV-0048601_40	PHROG	phrog_424	phosphoadenosine phosphosulfate reductase	moron, auxiliary metabolic gene and host takeover
UHGV-0048601_40	UniRef90	UniRef90_A0A316M8X6	PAPS_reduct domain-containing protein	NA
UHGV-0048601_40	eggNOG-mapper	1235800.C819_02256	Phosphoadenosine phosphosulfate reductase family	NA
UHGV-0048601_40	Pfam	PF01507	Phosphoadenosine phosphosulfate reductase family	PAPS_reduct
UHGV-0048601_40	COG	COG0175	3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase or related enzyme	NA
UHGV-0048601_40	Structural annotation	PF01507, MF_00063, TIGR00434, COG0175	NA	NA
UHGV-0048601_43	PHROG	phrog_874	NA	unknown function
UHGV-0048601_43	UniRef90	UniRef90_A0A6N7W7Q7	ASCH domain-containing protein	NA
UHGV-0048601_43	eggNOG-mapper	411468.CLOSCI_00298	NA	NA
UHGV-0048601_43	Structural annotation	PF04266, MF_00684, NF003443, COG4405	NA	NA
UHGV-0048601_45	PHROG	phrog_20593	NA	unknown function
UHGV-0048601_47	PHROG	phrog_8684	NA	unknown function
UHGV-0048601_47	UniRef90	UniRef90_C7GC23	YopX domain-containing protein	NA
UHGV-0048601_47	eggNOG-mapper	397290.C810_01526	YopX protein	NA
UHGV-0048601_47	Pfam	PF09643	YopX protein	YopX
UHGV-0048601_47	Structural annotation	PF09643, TIGR01671	NA	NA
UHGV-0048601_48	PHROG	phrog_26165	NA	unknown function
UHGV-0048601_50	PHROG	phrog_38832	NA	unknown function
UHGV-0048601_50	UniRef90	UniRef90_A0A415TX35	BAH domain-containing protein	NA
UHGV-0048601_50	eggNOG-mapper	476272.RUMHYD_03348	NA	NA
UHGV-0048601_51	UniRef90	UniRef90_C7GC26	NA	NA
UHGV-0048601_51	eggNOG-mapper	1256908.HMPREF0373_00667	NA	NA
UHGV-0048601_51	Pfam	PF04448	NA	DUF551
UHGV-0048601_52	PHROG	phrog_21026	NA	unknown function
UHGV-0048601_54	PHROG	phrog_37044	NA	unknown function
UHGV-0048601_54	eggNOG-mapper	397290.C810_00402	NA	NA
UHGV-0048601_55	PHROG	phrog_16304	NA	unknown function
UHGV-0048601_55	UniRef90	UniRef90_A0A3R6H2J6	NA	NA
UHGV-0048601_55	eggNOG-mapper	411490.ANACAC_00800	NA	NA
UHGV-0048601_55	Pfam	PF19808	NA	DUF6291
UHGV-0048601_55	Structural annotation	PF19808	NA	NA
UHGV-0048601_56	KOfam	K01160	rusA; crossover junction endodeoxyribonuclease RusA [EC:3.1.21.10]	NA
UHGV-0048601_56	PHROG	phrog_1682	RusA-like Holliday junction resolvase	DNA, RNA and nucleotide metabolism
UHGV-0048601_56	UniRef90	UniRef90_A0A415TWS7	RusA family crossover junction endodeoxyribonuclease	NA
UHGV-0048601_56	eggNOG-mapper	910314.HMPREF9220_1104	Endonuclease that resolves Holliday junction intermediates made during homologous genetic recombination and DNA repair. Exhibits sequence and structure-selective cleavage of four-way DNA junctions, where it introduces symmetrical nicks in two strands of the same polarity at the 5' side of dinucleotides. Corrects the defects in genetic recombination and DNA repair associated with inactivation of ruvAB or ruvC	NA
UHGV-0048601_56	COG	COG4570	Holliday junction resolvase RusA (prophage-encoded endonuclease)	NA
UHGV-0048601_56	Structural annotation	PF19595, NF007305, COG4570	NA	NA
UHGV-0048601_57	KOfam	K07741	antB; anti-repressor protein	NA
UHGV-0048601_57	PHROG	phrog_463	anti-repressor	transcription regulation
UHGV-0048601_57	UniRef90	UniRef90_A0A3R6DHY3	Bro-N domain-containing protein	NA
UHGV-0048601_57	eggNOG-mapper	411490.ANACAC_00813	BRO family, N-terminal domain	NA
UHGV-0048601_57	Pfam	PF02498	BRO family, N-terminal domain	Bro-N
UHGV-0048601_57	Pfam	PF10552	ORF6C domain	ORF6C
UHGV-0048601_57	COG	COG3617	Prophage antirepressor	NA
UHGV-0048601_57	Structural annotation	PF10552, PF02498, TIGR02681, COG3617	NA	NA
UHGV-0048601_58	PHROG	phrog_7566	NA	unknown function
UHGV-0048601_58	eggNOG-mapper	1304866.K413DRAFT_3017	NA	NA
UHGV-0048601_59	PHROG	phrog_1227	exonuclease	DNA, RNA and nucleotide metabolism
UHGV-0048601_59	UniRef90	UniRef90_D4L3P7	NA	NA
UHGV-0048601_59	eggNOG-mapper	1304866.K413DRAFT_3016	NA	NA
UHGV-0048601_59	Pfam	PF12684	NA	DUF3799
UHGV-0048601_59	COG	COG1074	3'-5' helicase subunit RecB of the DNA repair enzyme RecBCD (exonuclease V)	NA
UHGV-0048601_59	Structural annotation	PF12684, TIGR01896, COG4343	NA	NA
UHGV-0048601_60	PHROG	phrog_3657	NA	unknown function
UHGV-0048601_60	eggNOG-mapper	1304866.K413DRAFT_3015	NA	NA
UHGV-0048601_61	PHROG	phrog_1499	NA	unknown function
UHGV-0048601_61	UniRef90	UniRef90_A0A316M6R3	AAA_23 domain-containing protein	NA
UHGV-0048601_61	eggNOG-mapper	742733.HMPREF9469_01850	DNA recombination	NA
UHGV-0048601_61	PADLOC	AAA_15	NA	NA
UHGV-0048601_61	COG	COG0497	DNA repair ATPase RecN	NA
UHGV-0048601_61	Structural annotation	PF11398, MF_00365, NF008121, COG0497	NA	NA
UHGV-0048601_65	UniRef90	UniRef90_A0A414RMV5	Lectin-1	NA
UHGV-0048601_65	Structural annotation	COG3296	NA	NA
UHGV-0048601_66	PHROG	phrog_36464	NA	unknown function
UHGV-0048601_66	eggNOG-mapper	1235798.C817_05488	NA	NA
UHGV-0048601_66	Structural annotation	PF09035	NA	NA
UHGV-0048601_67	PHROG	phrog_4621	NA	unknown function
UHGV-0048601_67	eggNOG-mapper	1196322.A370_02090	NA	NA
UHGV-0048601_71	UniRef90	UniRef90_UPI0015F7B8EC	XRE family transcriptional regulator	NA
UHGV-0048601_71	eggNOG-mapper	1321814.HMPREF9089_00909	Helix-turn-helix domain of resolvase	NA
UHGV-0048601_71	Structural annotation	PF21291, NF041951, COG1476	NA	NA
UHGV-0048601_72	KOfam	K22299	rghR; HTH-type transcriptional regulator, competence development regulator	NA
UHGV-0048601_72	PHROG	phrog_8	transcriptional regulator	transcription regulation
UHGV-0048601_72	UniRef90	UniRef90_A0A173S886	Transcriptional repressor DicA	NA
UHGV-0048601_72	eggNOG-mapper	483218.BACPEC_01181	Peptidase S24-like	NA
UHGV-0048601_72	Pfam	PF01381	Helix-turn-helix	HTH_3
UHGV-0048601_72	COG	COG1974	SOS-response transcriptional repressor LexA (RecA-mediated autopeptidase)	NA
UHGV-0048601_72	Structural annotation	PF12844, MF_00535, NF041951, COG1476	NA	NA
UHGV-0048601_73	PHROG	phrog_87	metallo-protease	other
UHGV-0048601_73	UniRef90	UniRef90_A0A3R6K8Y6	Peptidase_M78 domain-containing protein	NA
UHGV-0048601_73	eggNOG-mapper	553973.CLOHYLEM_07298	IrrE N-terminal-like domain	NA
UHGV-0048601_73	Pfam	PF06114	IrrE N-terminal-like domain	Peptidase_M78
UHGV-0048601_73	COG	COG2856	Zn-dependent peptidase ImmA, M78 family	NA
UHGV-0048601_73	Structural annotation	PF06114, COG2856	NA	NA