UHGV-0180004

Genome information

Genome length 39,335 bps

CDS count 67

Completeness 100.00% (complete)

geNomad score 0.9603

Prediction confidence Confident

Genome information
Genome ID	UHGV-0180004
vOTU ID	vOTU-004610
vOTU representative	Yes
Source dataset	GPD
Original genome ID	uvig_593253
BioSample	SAMN09781784
Country	Madagascar
Virus prediction confidence	Confident

Quality assessment
CheckV method	DTR
CheckV completeness	100.00% (complete)
CheckV contamination	0.00%
Trimmed provirus	No
CheckV viral markers	25
CheckV host markers	0
Recoded stop codon	No

Viral signal
geNomad score	0.9603
Virus hallmark genes (geNomad)	16
Plasmid hallmark genes (geNomad)	0
viralVerify prediction	Virus
viralVerify score	71.58
Jumbo phage	No

Genome content
Genome length	39,335 bps
GC content	51.64%
Genetic code	The standard bacterial, archaeal and plant plastid code (11)
CDS count	67
CDS density	91.64%
Average CDS length	544.52 bps
tRNA count	1
Suppressor tRNA genes	0

Genome content

Select view: Genome viewer Functional annotation

Functional annotation

Gene ID	Reference	Reference ID	Information	Category
UHGV-0180004_2	KOfam	K06919	K06919; putative DNA primase/helicase	NA
UHGV-0180004_2	PHROG	phrog_2249	DNA primase	DNA, RNA and nucleotide metabolism
UHGV-0180004_2	UniRef90	UniRef90_UPI000A2A144E	NA	NA
UHGV-0180004_2	eggNOG-mapper	472759.Nhal_0978	Phage plasmid primase P4 family	NA
UHGV-0180004_2	Pfam	PF19263	NA	DUF5906
UHGV-0180004_2	COG	COG3378	DNA primase, phage- or plasmid-associated	NA
UHGV-0180004_2	Structural annotation	PF05272, PF03288, MF_04000, NF011296, TIGR00646, COG4643, COG3378	NA	NA
UHGV-0180004_4	KOfam	K09803	NA	NA
UHGV-0180004_4	PHROG	phrog_4399	ribonuclease toxin of AT system	moron, auxiliary metabolic gene and host takeover
UHGV-0180004_4	UniRef90	UniRef90_UPI001D191F5F	BrnT family toxin	NA
UHGV-0180004_4	eggNOG-mapper	1144319.PMI16_00912	Ribonuclease toxin, BrnT, of type II toxin-antitoxin system	NA
UHGV-0180004_4	Pfam	PF04365	Ribonuclease toxin, BrnT, of type II toxin-antitoxin system	BrnT_toxin
UHGV-0180004_4	COG	COG2929	NA	NA
UHGV-0180004_4	Structural annotation	PF04365, COG2929	NA	NA
UHGV-0180004_5	PHROG	phrog_4692	antitoxin from a toxin-antitoxin system	moron, auxiliary metabolic gene and host takeover
UHGV-0180004_5	UniRef90	UniRef90_A0A849V5D4	BrnA antitoxin family protein	NA
UHGV-0180004_5	eggNOG-mapper	1070319.CAGGBEG34_120007	BrnA antitoxin of type II toxin-antitoxin system	NA
UHGV-0180004_5	Pfam	PF14384	BrnA antitoxin of type II toxin-antitoxin system	BrnA_antitoxin
UHGV-0180004_5	COG	COG3514	NA	NA
UHGV-0180004_7	eggNOG-mapper	556268.OFAG_00849	NA	NA
UHGV-0180004_9	PHROG	phrog_163	CII-like transcriptional activator	transcription regulation
UHGV-0180004_9	UniRef90	UniRef90_UPI0018A21FE1	toxin YdaT family protein	NA
UHGV-0180004_9	eggNOG-mapper	762376.AXYL_02049	NA	NA
UHGV-0180004_9	Pfam	PF06254	Bacterial toxin ydaT	YdaT_toxin
UHGV-0180004_10	UniRef90	UniRef90_UPI001B392788	YdaS family helix-turn-helix protein	NA
UHGV-0180004_10	COG	COG4197	DNA-binding transcriptional regulator YdaS, prophage-encoded, Cro superfamily	NA
UHGV-0180004_11	UniRef90	UniRef90_A0A5Y2LPZ0	HTH cro/C1-type domain-containing protein	NA
UHGV-0180004_11	COG	COG2932	Phage repressor protein C, contains Cro/C1-type HTH and peptisase s24 domains	NA
UHGV-0180004_22	PHROG	phrog_599	Lar-like restriction alleviation protein	moron, auxiliary metabolic gene and host takeover
UHGV-0180004_22	Pfam	PF14354	Restriction alleviation protein Lar	Lar_restr_allev
UHGV-0180004_22	dbAPIS	APIS033	Lar is functionally similar to RaI, is able to alleviate restriction and enhance modification by EcoKI. And the nucleotide sequences of their genes share 47% identity, indicating a common origin.	NA
UHGV-0180004_24	PHROG	phrog_421	NA	unknown function
UHGV-0180004_24	UniRef90	UniRef90_A0A1Q8SZJ0	NA	NA
UHGV-0180004_24	eggNOG-mapper	754477.Q7C_808	NA	NA
UHGV-0180004_24	Pfam	PF10979	NA	DUF2786
UHGV-0180004_24	Structural annotation	TIGR03665	NA	NA
UHGV-0180004_26	KOfam	K06400	spoIVCA; site-specific DNA recombinase	NA
UHGV-0180004_26	PHROG	phrog_95	integrase	integration and excision
UHGV-0180004_26	UniRef90	UniRef90_A0A6M3ZNM6	Recombinase family protein	NA
UHGV-0180004_26	eggNOG-mapper	864073.HFRIS_014644	Recombinase	NA
UHGV-0180004_26	Pfam	PF00239	Resolvase, N terminal domain	Resolvase
UHGV-0180004_26	Pfam	PF07508	Recombinase	Recombinase
UHGV-0180004_26	COG	COG1961	Site-specific DNA recombinase SpoIVCA/DNA invertase PinE	NA
UHGV-0180004_26	Structural annotation	PF00239, PF13408, PF14235, NF041201, COG1961, COG1579	NA	NA
UHGV-0180004_28	PHROG	phrog_2812	NA	unknown function
UHGV-0180004_28	UniRef90	UniRef90_UPI000A2A2573	KilA-N domain-containing protein	NA
UHGV-0180004_28	eggNOG-mapper	398578.Daci_3253	BRO family, N-terminal domain	NA
UHGV-0180004_28	Pfam	PF04383	KilA-N domain	KilA-N
UHGV-0180004_28	COG	COG3378	DNA primase, phage- or plasmid-associated	NA
UHGV-0180004_30	UniRef90	UniRef90_UPI00161E495A	helix-turn-helix domain-containing protein	NA
UHGV-0180004_30	eggNOG-mapper	1276756.AUEX01000001_gene873	sequence-specific DNA binding	NA
UHGV-0180004_30	COG	COG2944	DNA-binding transcriptional regulator YiaG, XRE-type HTH domain	NA
UHGV-0180004_32	eggNOG-mapper	742738.HMPREF9460_00886	NA	NA
UHGV-0180004_38	KOfam	K14744	rzpD; prophage endopeptidase [EC:3.4.-.-]	NA
UHGV-0180004_38	PHROG	phrog_2466	Rz-like spanin	lysis
UHGV-0180004_38	UniRef90	UniRef90_A0A7W8YMP5	Tfp pilus assembly protein PilN	NA
UHGV-0180004_38	eggNOG-mapper	556268.OFAG_00348	Bacteriophage Rz lysis protein	NA
UHGV-0180004_38	Pfam	PF03245	Bacteriophage Rz lysis protein	Phage_lysis
UHGV-0180004_38	Structural annotation	PF03245, MF_04137	NA	NA
UHGV-0180004_39	UniRef90	UniRef90_A0A146G4F2	Anaerobic ribonucleoside-triphosphate reductase	NA
UHGV-0180004_39	eggNOG-mapper	398767.Glov_1780	Anaerobic ribonucleoside-triphosphate reductase	NA
UHGV-0180004_39	Pfam	PF13597	Anaerobic ribonucleoside-triphosphate reductase	NRDD
UHGV-0180004_39	COG	COG1328	Anaerobic ribonucleoside-triphosphate reductase	NA
UHGV-0180004_40	KOfam	K01185	E3.2.1.17; lysozyme [EC:3.2.1.17]	NA
UHGV-0180004_40	PHROG	phrog_7	endolysin	lysis
UHGV-0180004_40	UniRef90	UniRef90_UPI000A29F0D9	lysozyme	NA
UHGV-0180004_40	eggNOG-mapper	1402875.U3TK98_9CAUD	Phage lysozyme	NA
UHGV-0180004_40	Pfam	PF00959	Phage lysozyme	Phage_lysozyme
UHGV-0180004_40	HAMAP	MF_04110	Endolysin	NA
UHGV-0180004_40	Structural annotation	PF00959, MF_04110, COG3772	NA	NA
UHGV-0180004_42	UniRef90	UniRef90_C3X7Y3	NA	NA
UHGV-0180004_42	eggNOG-mapper	665942.HMPREF1022_02677	NA	NA
UHGV-0180004_42	Pfam	PF14301	NA	DUF4376
UHGV-0180004_42	Structural annotation	PF14301	NA	NA
UHGV-0180004_43	PHROG	phrog_5795	tail protein	tail
UHGV-0180004_43	UniRef90	UniRef90_C3X7Y2	Phage Tail Collar Domain protein	NA
UHGV-0180004_43	eggNOG-mapper	556269.ACDQ01000003_gene1357	tail collar domain protein	NA
UHGV-0180004_43	COG	COG4675	Phage tail collar domain	NA
UHGV-0180004_43	Structural annotation	COG4675	NA	NA
UHGV-0180004_44	PHROG	phrog_31	baseplate hub protein Tal	tail
UHGV-0180004_44	UniRef90	UniRef90_C3X7Y1	Phage-tail_3 domain-containing protein	NA
UHGV-0180004_44	eggNOG-mapper	556269.ACDQ01000003_gene1356	cellulase activity	NA
UHGV-0180004_44	Pfam	PF13550	Putative phage tail protein	Phage-tail_3
UHGV-0180004_44	NCBIFam	NF040662.1	host specificity factor TipJ family phage tail protein	NA
UHGV-0180004_44	COG	COG4733	Phage-related protein, tail protein J	NA
UHGV-0180004_44	Structural annotation	PF13550, PF02597, PF14879, MF_00460, NF040662, NF006231, COG4733, COG2104	NA	NA
UHGV-0180004_45	UniRef90	UniRef90_C3X7Y0	NlpC/P60 domain-containing protein	NA
UHGV-0180004_45	eggNOG-mapper	556269.ACDQ01000003_gene1355	to Bacteriophage D3 Orf25 SWALL Q9MC96 (EMBL AF165214) (135 aa) fasta scores E() 0.00047, 30.46 id in 128 aa	NA
UHGV-0180004_45	COG	COG0791	Cell wall-associated hydrolase, NlpC_P60 family	NA
UHGV-0180004_45	Structural annotation	PF05382, TIGR02594, COG0791	NA	NA
UHGV-0180004_47	PHROG	phrog_396	minor tail protein	tail
UHGV-0180004_47	UniRef90	UniRef90_A0A839HPU5	NA	NA
UHGV-0180004_47	eggNOG-mapper	556269.ACDQ01000003_gene1354	NA	NA
UHGV-0180004_47	Pfam	PF08875	NA	DUF1833
UHGV-0180004_47	Structural annotation	PF08875, TIGR01600, COG4672	NA	NA
UHGV-0180004_48	PHROG	phrog_384	virion structural protein	head and packaging
UHGV-0180004_48	UniRef90	UniRef90_A0A447L667	Alkanesulfonate ABC transporter permease	NA
UHGV-0180004_48	eggNOG-mapper	911008.GLAD_04141	NA	NA
UHGV-0180004_49	PHROG	phrog_24	tail length tape measure protein	tail
UHGV-0180004_49	UniRef90	UniRef90_UPI000A29F71C	phage tail length tape measure family protein	NA
UHGV-0180004_49	eggNOG-mapper	397945.Aave_1782	Prophage tail length tape measure	NA
UHGV-0180004_49	Pfam	PF06791	Prophage tail length tape measure protein	TMP_2
UHGV-0180004_49	Pfam	PF09718	Lambda phage tail tape-measure protein (Tape_meas_lam_C)	Tape_meas_lam_C
UHGV-0180004_49	COG	COG1196	Chromosome segregation ATPase Smc	NA
UHGV-0180004_50	PHROG	phrog_680	tail length tape measure protein	tail
UHGV-0180004_50	UniRef90	UniRef90_UPI001E5CFFD7	NA	NA
UHGV-0180004_50	eggNOG-mapper	1000565.METUNv1_01680	NA	NA
UHGV-0180004_50	Pfam	PF08809	NA	DUF1799
UHGV-0180004_50	Structural annotation	PF08809	NA	NA
UHGV-0180004_51	PHROG	phrog_569	tail length tape measure protein	tail
UHGV-0180004_51	UniRef90	UniRef90_UPI001C57EDB7	phage tail assembly chaperone	NA
UHGV-0180004_51	eggNOG-mapper	477184.KYC_18240	phage protein Ypo2117 SWALL Q8ZEP3 (EMBL AJ414151) (103 aa) fasta scores E() 2.7e-07, 36.79 id in 106 aa	NA
UHGV-0180004_51	Pfam	PF08748	Phage tail assembly chaperone	Phage_TAC_4
UHGV-0180004_51	Structural annotation	PF08748	NA	NA
UHGV-0180004_52	PHROG	phrog_584	major tail protein	tail
UHGV-0180004_52	UniRef90	UniRef90_UPI001CE3FD55	phage tail protein	NA
UHGV-0180004_52	eggNOG-mapper	686578.AFFX01000004_gene3952	Phage tail tube protein, TTP	NA
UHGV-0180004_52	Pfam	PF08813	Phage tail tube protein, TTP	Phage_tail_3
UHGV-0180004_52	COG	COG5492	NA	NA
UHGV-0180004_52	Structural annotation	PF08813, TIGR02126, COG5437	NA	NA
UHGV-0180004_54	PHROG	phrog_4757	NA	unknown function
UHGV-0180004_54	UniRef90	UniRef90_A0A0A1VFY7	Bacteriophage capsid protein	NA
UHGV-0180004_54	eggNOG-mapper	742821.HMPREF9464_01078	Phage portal protein, lambda family	NA
UHGV-0180004_54	COG	COG5511	Phage capsid protein	NA
UHGV-0180004_55	PHROG	phrog_347	tail terminator	connector
UHGV-0180004_55	UniRef90	UniRef90_H0FAE9	NA	NA
UHGV-0180004_55	eggNOG-mapper	477184.KYC_18255	NA	NA
UHGV-0180004_55	Pfam	PF11367	NA	DUF3168
UHGV-0180004_56	PHROG	phrog_5	tail completion or Neck1 protein	connector
UHGV-0180004_56	UniRef90	UniRef90_Q2L2A5	NA	NA
UHGV-0180004_56	eggNOG-mapper	360910.BAV1467	Bacteriophage HK97-gp10, putative tail-component	NA
UHGV-0180004_56	Pfam	PF04883	Bacteriophage HK97-gp10, putative tail-component	HK97-gp10_like
UHGV-0180004_56	NCBIFam	TIGR01725.1	HK97-gp10 family putative phage morphogenesis protein	NA
UHGV-0180004_57	PHROG	phrog_25	head closure Hc1	connector
UHGV-0180004_57	UniRef90	UniRef90_UPI001EFDFBEF	phage head closure protein	NA
UHGV-0180004_57	eggNOG-mapper	557598.LHK_01769	phage head-tail	NA
UHGV-0180004_57	Pfam	PF05521	Phage head-tail joining protein	Phage_H_T_join
UHGV-0180004_57	NCBIFam	TIGR01563.1	phage head closure protein	NA
UHGV-0180004_57	COG	COG5614	Phage head-tail adaptor	NA
UHGV-0180004_57	Structural annotation	PF05521, TIGR01563, COG5614	NA	NA
UHGV-0180004_58	PHROG	phrog_40	head-tail adaptor Ad1	connector
UHGV-0180004_58	UniRef90	UniRef90_A0A1X7N053	Phage gp6-like head-tail connector protein	NA
UHGV-0180004_58	eggNOG-mapper	1121116.KB894776_gene1858	Phage gp6-like head-tail connector protein	NA
UHGV-0180004_58	Pfam	PF05135	Phage gp6-like head-tail connector protein	Phage_connect_1
UHGV-0180004_58	NCBIFam	TIGR01560.2	head-tail connector protein	NA
UHGV-0180004_58	Structural annotation	PF05135, TIGR01560	NA	NA
UHGV-0180004_59	PHROG	phrog_10	major head protein	head and packaging
UHGV-0180004_59	UniRef90	UniRef90_UPI00041797C2	phage major capsid protein	NA
UHGV-0180004_59	eggNOG-mapper	1122962.AULH01000017_gene90	Phage capsid family	NA
UHGV-0180004_59	Pfam	PF05065	Phage capsid family	Phage_capsid
UHGV-0180004_59	NCBIFam	TIGR01554.2	phage major capsid protein	NA
UHGV-0180004_59	COG	COG4653	Predicted phage phi-C31 gp36 major capsid-like protein	NA
UHGV-0180004_59	Structural annotation	PF05065, MF_04119, TIGR01554, COG4653	NA	NA
UHGV-0180004_60	KOfam	K01358	clpP, CLPP; ATP-dependent Clp protease, protease subunit [EC:3.4.21.92]	NA
UHGV-0180004_60	PHROG	phrog_133	head maturation protease	head and packaging
UHGV-0180004_60	UniRef90	UniRef90_A0A3S1AYP4	ATP-dependent Clp protease proteolytic subunit	NA
UHGV-0180004_60	eggNOG-mapper	696748.ASU2_02715	Belongs to the peptidase S14 family	NA
UHGV-0180004_60	Pfam	PF00574	Clp protease	CLP_protease
UHGV-0180004_60	COG	COG0740	ATP-dependent protease ClpP, protease subunit	NA
UHGV-0180004_60	Structural annotation	PF00574, MF_00444, TIGR00493, COG0740	NA	NA
UHGV-0180004_61	PHROG	phrog_12	portal protein	head and packaging
UHGV-0180004_61	UniRef90	UniRef90_UPI0009B8436C	phage portal protein	NA
UHGV-0180004_61	eggNOG-mapper	573.JG24_10980	portal protein	NA
UHGV-0180004_61	Pfam	PF04860	Phage portal protein	Phage_portal
UHGV-0180004_61	NCBIFam	TIGR01537.1	phage portal protein	NA
UHGV-0180004_61	COG	COG4695	Phage portal protein BeeE	NA
UHGV-0180004_61	Structural annotation	PF04860, MF_04135, TIGR01537, COG4695	NA	NA
UHGV-0180004_62	PHROG	phrog_9	terminase large subunit	head and packaging
UHGV-0180004_62	UniRef90	UniRef90_A0A0C2BHX2	Terminase	NA
UHGV-0180004_62	eggNOG-mapper	511.JT27_15725	COG4626 Phage terminase-like protein, large subunit	NA
UHGV-0180004_62	Pfam	PF03354	Terminase large subunit, ATPase domain	TerL_ATPase
UHGV-0180004_62	Pfam	PF20441	Terminase large subunit, endonuclease domain	TerL_nuclease
UHGV-0180004_62	COG	COG4626	Phage terminase-like protein, large subunit, contains N-terminal HTH domain	NA
UHGV-0180004_62	Structural annotation	PF20441, PF03354, MF_04145, TIGR01547, COG4626	NA	NA
UHGV-0180004_63	PHROG	phrog_83	terminase small subunit	head and packaging
UHGV-0180004_63	UniRef90	UniRef90_UPI0014230F71	P27 family phage terminase small subunit	NA
UHGV-0180004_63	eggNOG-mapper	1196835.A458_06885	Phage terminase, small subunit	NA
UHGV-0180004_63	Pfam	PF05119	Phage terminase, small subunit	Terminase_4
UHGV-0180004_64	KOfam	K06223	dam; DNA adenine methylase [EC:2.1.1.72]	NA
UHGV-0180004_64	PHROG	phrog_56	DNA methyltransferase	other
UHGV-0180004_64	UniRef90	UniRef90_A0A432UL73	Site-specific DNA-methyltransferase (adenine-specific)	NA
UHGV-0180004_64	eggNOG-mapper	1042375.AFPL01000052_gene408	Site-specific DNA-methyltransferase (Adenine-specific)	NA
UHGV-0180004_64	PADLOC	MTase_II_00039	Type II methyltransferase	RM
UHGV-0180004_64	Pfam	PF02086	D12 class N6 adenine-specific DNA methyltransferase	MethyltransfD12
UHGV-0180004_64	NCBIFam	TIGR00571.1	Dam family site-specific DNA-(adenine-N6)-methyltransferase	NA
UHGV-0180004_64	COG	COG0338	DNA-adenine methylase	NA
UHGV-0180004_64	Structural annotation	PF02086, MF_01872, NF008152, COG0338	NA	NA
UHGV-0180004_65	KOfam	K07451	mcrA; 5-methylcytosine-specific restriction enzyme A [EC:3.1.21.-]	NA
UHGV-0180004_65	PHROG	phrog_144	HNH endonuclease	DNA, RNA and nucleotide metabolism
UHGV-0180004_65	UniRef90	UniRef90_UPI001240C787	HNH endonuclease	NA
UHGV-0180004_65	eggNOG-mapper	93220.LV28_18970	HNH nucleases	NA
UHGV-0180004_65	Pfam	PF01844	HNH endonuclease	HNH
UHGV-0180004_65	COG	COG1403	5-methylcytosine-specific restriction endonuclease McrA	NA
UHGV-0180004_65	Structural annotation	PF01844, COG1403	NA	NA
UHGV-0180004_66	Pfam	PF06530	Phage antitermination protein Q	Phage_antitermQ