UHGV-0004117

Genome information

Genome length 39,479 bps

CDS count 66

Completeness 94.42% (high-quality)

geNomad score 0.9732

Prediction confidence Confident

Genome information
Genome ID	UHGV-0004117
vOTU ID	vOTU-065791
vOTU representative	Yes
Source dataset	Hadza
Original genome ID	Hadza_MoBio_C-REDO_F_3_1566__NODE_704_length_51684_cov_16.139090_1
BioSample	SAMEA4765856
Country	Tanzania
Virus prediction confidence	Confident

Quality assessment
CheckV method	AAI-based
CheckV completeness	94.42% (high-quality)
CheckV contamination	0.00%
Trimmed provirus	No
CheckV viral markers	16
CheckV host markers	0
Recoded stop codon	No

Viral signal
geNomad score	0.9732
Virus hallmark genes (geNomad)	6
Plasmid hallmark genes (geNomad)	0
viralVerify prediction	Virus
viralVerify score	36.17
Jumbo phage	No

Genome content
Genome length	39,479 bps
GC content	42.55%
Genetic code	The standard bacterial, archaeal and plant plastid code (11)
CDS count	66
CDS density	94.50%
Average CDS length	570.23 bps
tRNA count	2
Suppressor tRNA genes	0

Genome content

Select view: Genome viewer Functional annotation

Functional annotation

Gene ID	Reference	Reference ID	Information	Category
UHGV-0004117_1	Structural annotation	PF13404, TIGR01636	NA	NA
UHGV-0004117_2	KOfam	K01448	amiABC; N-acetylmuramoyl-L-alanine amidase [EC:3.5.1.28]	NA
UHGV-0004117_2	PHROG	phrog_435	endolysin	lysis
UHGV-0004117_2	UniRef90	UniRef90_B0MAM2	N-acetylmuramoyl-L-alanine amidase	NA
UHGV-0004117_2	eggNOG-mapper	411490.ANACAC_00597	Cell wall hydrolase autolysin	NA
UHGV-0004117_2	Pfam	PF01520	N-acetylmuramoyl-L-alanine amidase	Amidase_3
UHGV-0004117_2	COG	COG0860	N-acetylmuramoyl-L-alanine amidase	NA
UHGV-0004117_2	Structural annotation	PF01520, PF18342, MF_00417, TIGR02883, COG0860, COG4991	NA	NA
UHGV-0004117_3	PHROG	phrog_443	holin	lysis
UHGV-0004117_3	UniRef90	UniRef90_A0A1I1Y2T2	Phage r1t holin	NA
UHGV-0004117_3	eggNOG-mapper	1469948.JPNB01000002_gene3855	Putative lactococcus lactis phage r1t holin	NA
UHGV-0004117_3	Pfam	PF16945	Putative lactococcus lactis phage r1t holin	Phage_r1t_holin
UHGV-0004117_3	Structural annotation	PF16945	NA	NA
UHGV-0004117_4	PHROG	phrog_4105	NA	unknown function
UHGV-0004117_4	UniRef90	UniRef90_A0A8D9UHA9	Holin protein	NA
UHGV-0004117_4	eggNOG-mapper	428125.CLOLEP_01431	NA	NA
UHGV-0004117_5	UniRef90	UniRef90_A0A845QMU2	PBECR3 domain-containing protein	NA
UHGV-0004117_5	eggNOG-mapper	1408437.JNJN01000060_gene452	heme binding	NA
UHGV-0004117_5	COG	COG0503	Adenine/guanine phosphoribosyltransferase or related PRPP-binding protein	NA
UHGV-0004117_11	Structural annotation	NF040910	NA	NA
UHGV-0004117_13	PHROG	phrog_37900	NA	unknown function
UHGV-0004117_13	UniRef90	UniRef90_A0A2V2GNJ9	NA	NA
UHGV-0004117_13	eggNOG-mapper	693746.OBV_22720	cellulose 1,4-beta-cellobiosidase activity	NA
UHGV-0004117_13	Pfam	PF19789	NA	DUF6273
UHGV-0004117_13	COG	COG3827	Cell pole-organizing protein PopZ	NA
UHGV-0004117_13	Structural annotation	PF19789	NA	NA
UHGV-0004117_14	eggNOG-mapper	768710.DesyoDRAFT_5195	NA	NA
UHGV-0004117_14	Pfam	PF18454	Major tropism determinant N-terminal domain	Mtd_N
UHGV-0004117_15	PHROG	phrog_5207	NA	unknown function
UHGV-0004117_15	UniRef90	UniRef90_A0A1C6GKY2	Mtd_N domain-containing protein	NA
UHGV-0004117_15	eggNOG-mapper	696281.Desru_3489	exo-alpha-(2->6)-sialidase activity	NA
UHGV-0004117_15	Pfam	PF18454	Major tropism determinant N-terminal domain	Mtd_N
UHGV-0004117_15	COG	COG4409	Neuraminidase (sialidase) NanH, contains C-terminal autotransporter domain	NA
UHGV-0004117_15	Structural annotation	PF18454	NA	NA
UHGV-0004117_16	eggNOG-mapper	397290.C810_05240	NA	NA
UHGV-0004117_17	PHROG	phrog_3287	virion structural protein	head and packaging
UHGV-0004117_17	eggNOG-mapper	1232449.BAHV02000016_gene1816	NA	NA
UHGV-0004117_17	Structural annotation	PF11134, MF_01282, TIGR03300, COG5276	NA	NA
UHGV-0004117_19	Structural annotation	PF07100, COG4288	NA	NA
UHGV-0004117_20	PHROG	phrog_267	major head protein	head and packaging
UHGV-0004117_20	UniRef90	UniRef90_A0A4R3KBP0	N4-gp56 family major capsid protein	NA
UHGV-0004117_20	eggNOG-mapper	665956.HMPREF1032_03906	P22 coat protein-protein 5 domain protein	NA
UHGV-0004117_20	Structural annotation	PF19821, MF_04119, TIGR04387, COG4653	NA	NA
UHGV-0004117_22	PHROG	phrog_156	portal protein	head and packaging
UHGV-0004117_22	eggNOG-mapper	1232449.BAHV02000016_gene1822	NA	NA
UHGV-0004117_22	Structural annotation	PF16510, MF_04120, TIGR01538, COG5511	NA	NA
UHGV-0004117_24	PHROG	phrog_38	terminase large subunit	head and packaging
UHGV-0004117_24	UniRef90	UniRef90_A0A845QMQ7	Terminase	NA
UHGV-0004117_24	eggNOG-mapper	755731.Clo1100_2438	TIGRFAM Phage	NA
UHGV-0004117_24	Pfam	PF03237	Terminase large subunit, T4likevirus-type, N-terminal	Terminase_6N
UHGV-0004117_24	Pfam	PF17289	Terminase RNaseH-like domain	Terminase_6C
UHGV-0004117_24	NCBIFam	TIGR01630.1	phage terminase large subunit	NA
UHGV-0004117_24	COG	COG5362	Phage terminase large subunit	NA
UHGV-0004117_24	Structural annotation	PF17289, PF05876, MF_04147, NF033889, COG5362, COG5410	NA	NA
UHGV-0004117_27	Structural annotation	PF09392	NA	NA
UHGV-0004117_28	Structural annotation	PF00181	NA	NA
UHGV-0004117_32	PHROG	phrog_36	transcriptional regulator	transcription regulation
UHGV-0004117_32	Structural annotation	PF05263, TIGR01636	NA	NA
UHGV-0004117_34	PHROG	phrog_1770	Holliday junction resolvase	DNA, RNA and nucleotide metabolism
UHGV-0004117_34	UniRef90	UniRef90_A0A7V8QMV9	Crossover junction endodeoxyribonuclease RuvC	NA
UHGV-0004117_34	eggNOG-mapper	1144932.ATTF01000015_gene1210	Nuclease that resolves Holliday junction intermediates in genetic recombination. Cleaves the cruciform structure in supercoiled DNA by nicking to strands with the same polarity at sites symmetrically opposed at the junction in the homologous arms and leaves a 5'-terminal phosphate and a 3'-terminal hydroxyl group	NA
UHGV-0004117_34	COG	COG0817	Holliday junction resolvasome RuvABC endonuclease subunit RuvC	NA
UHGV-0004117_34	Structural annotation	PF16921, MF_00034, NF000711, COG0817	NA	NA
UHGV-0004117_35	PHROG	phrog_10714	NA	unknown function
UHGV-0004117_36	Pfam	PF14354	Restriction alleviation protein Lar	Lar_restr_allev
UHGV-0004117_41	PHROG	phrog_21026	NA	unknown function
UHGV-0004117_45	KOfam	K03111	ssb; single-strand DNA-binding protein	NA
UHGV-0004117_45	PHROG	phrog_44	single strand DNA binding protein	DNA, RNA and nucleotide metabolism
UHGV-0004117_45	UniRef90	UniRef90_A0A1C5T9Y0	Single-stranded DNA-binding protein	NA
UHGV-0004117_45	eggNOG-mapper	883109.HMPREF0380_00268	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-0004117_45	Pfam	PF00436	Single-strand binding protein family	SSB
UHGV-0004117_45	NCBIFam	TIGR00621.2	single-stranded DNA-binding protein	NA
UHGV-0004117_45	COG	COG0629	Single-stranded DNA-binding protein	NA
UHGV-0004117_45	HAMAP	MF_00984	Single-stranded DNA-binding protein	NA
UHGV-0004117_45	Structural annotation	PF00436, MF_00984, NF005580, COG0629	NA	NA
UHGV-0004117_46	PHROG	phrog_25385	NA	unknown function
UHGV-0004117_46	eggNOG-mapper	718252.FP2_16450	NA	NA
UHGV-0004117_47	PHROG	phrog_72	NinB/ Orf homologous recombination mediator	DNA, RNA and nucleotide metabolism
UHGV-0004117_47	UniRef90	UniRef90_A0A8D9PDS2	NinB protein	NA
UHGV-0004117_47	eggNOG-mapper	1507.HMPREF0262_00432	NA	NA
UHGV-0004117_47	Structural annotation	PF05772, NF007281	NA	NA
UHGV-0004117_48	PHROG	phrog_4433	NA	unknown function
UHGV-0004117_48	eggNOG-mapper	394503.Ccel_3068	regulation of DNA-templated transcription, elongation	NA
UHGV-0004117_48	COG	COG5164	Transcription elongation factor SPT5	NA
UHGV-0004117_49	PHROG	phrog_7370	HNH endonuclease	DNA, RNA and nucleotide metabolism
UHGV-0004117_49	UniRef90	UniRef90_A0A498CPV0	HNH endonuclease	NA
UHGV-0004117_49	eggNOG-mapper	358681.BBR47_35660	HNH endonuclease	NA
UHGV-0004117_49	Pfam	PF01844	HNH endonuclease	HNH
UHGV-0004117_49	COG	COG1403	5-methylcytosine-specific restriction endonuclease McrA	NA
UHGV-0004117_50	PHROG	phrog_674	NA	unknown function
UHGV-0004117_50	UniRef90	UniRef90_A0A6N7XHF2	NA	NA
UHGV-0004117_50	eggNOG-mapper	1095750.HMPREF9970_1676	NA	NA
UHGV-0004117_50	Pfam	PF07083	NA	DUF1351
UHGV-0004117_50	Structural annotation	PF07083	NA	NA
UHGV-0004117_51	PHROG	phrog_155	Erf-like ssDNA annealing protein	DNA, RNA and nucleotide metabolism
UHGV-0004117_51	UniRef90	UniRef90_UPI0018AC33A4	ERF family protein	NA
UHGV-0004117_51	eggNOG-mapper	1497679.EP56_08440	ERF superfamily	NA
UHGV-0004117_51	Pfam	PF04404	ERF superfamily	ERF
UHGV-0004117_51	Structural annotation	PF04404, TIGR00607, COG4712	NA	NA
UHGV-0004117_53	PHROG	phrog_2113	NA	unknown function
UHGV-0004117_54	PHROG	phrog_9804	NA	unknown function
UHGV-0004117_54	UniRef90	UniRef90_A0A174S716	Inhibitor_G39P domain-containing protein	NA
UHGV-0004117_54	eggNOG-mapper	585394.RHOM_14005	Loader and inhibitor of phage G40P	NA
UHGV-0004117_54	AcrCatalog	cluster_137185	NA	NA
UHGV-0004117_54	Pfam	PF11417	Loader and inhibitor of phage G40P	Inhibitor_G39P
UHGV-0004117_54	Structural annotation	PF11417	NA	NA
UHGV-0004117_55	PHROG	phrog_2514	DnaD-like helicase loader	DNA, RNA and nucleotide metabolism
UHGV-0004117_55	eggNOG-mapper	1415775.U729_2588	DnaD domain protein	NA
UHGV-0004117_55	COG	COG3935	DNA replication protein DnaD	NA
UHGV-0004117_55	Structural annotation	PF09681, TIGR01714, COG0640	NA	NA
UHGV-0004117_58	KOfam	K08309	slt; soluble lytic murein transglycosylase [EC:4.2.2.-]	NA
UHGV-0004117_58	PHROG	phrog_19349	NA	unknown function
UHGV-0004117_58	UniRef90	UniRef90_UPI000DE563D6	transglycosylase SLT domain-containing protein	NA
UHGV-0004117_58	eggNOG-mapper	742740.HMPREF9474_02375	lytic transglycosylase activity	NA
UHGV-0004117_58	Pfam	PF01464	Transglycosylase SLT domain	SLT
UHGV-0004117_58	COG	COG0741	Soluble lytic murein transglycosylase or regulatory protein s ( may contain LysM/invasin domain)	NA
UHGV-0004117_58	Structural annotation	PF01464, MF_01616, NF011856, COG0741	NA	NA
UHGV-0004117_59	PHROG	phrog_989	NA	unknown function
UHGV-0004117_59	UniRef90	UniRef90_A0A7V7UB01	Helix-turn-helix domain-containing protein	NA
UHGV-0004117_59	eggNOG-mapper	1540257.JQMW01000013_gene708	NA	NA
UHGV-0004117_60	PHROG	phrog_8	transcriptional regulator	transcription regulation
UHGV-0004117_60	UniRef90	UniRef90_UPI0018FF108F	helix-turn-helix domain-containing protein	NA
UHGV-0004117_60	eggNOG-mapper	1140001.I571_01806	Helix-turn-helix XRE-family like proteins	NA
UHGV-0004117_60	Pfam	PF13443	Cro/C1-type HTH DNA-binding domain	HTH_26
UHGV-0004117_60	COG	COG1396	Transcriptional regulator, contains XRE-family HTH domain	NA
UHGV-0004117_63	PHROG	phrog_8	transcriptional regulator	transcription regulation
UHGV-0004117_63	UniRef90	UniRef90_UPI000BA57F70	helix-turn-helix transcriptional regulator	NA
UHGV-0004117_63	eggNOG-mapper	1285586.H131_11663	Helix-turn-helix XRE-family like proteins	NA
UHGV-0004117_63	COG	COG1396	Transcriptional regulator, contains XRE-family HTH domain	NA
UHGV-0004117_65	eggNOG-mapper	1449050.JNLE01000003_gene3644	domain protein	NA
UHGV-0004117_65	COG	COG2333	DNA uptake channel protein ComEC C-terminal domain, metallo-beta-lactamase superfamily	NA
UHGV-0004117_66	KOfam	K14059	int; integrase	NA
UHGV-0004117_66	PHROG	phrog_1	integrase	integration and excision
UHGV-0004117_66	UniRef90	UniRef90_A0A173T4L7	Site-specific recombinase XerD	NA
UHGV-0004117_66	eggNOG-mapper	1235798.C817_02625	Arm DNA-binding domain	NA
UHGV-0004117_66	Pfam	PF14657	Arm DNA-binding domain	Arm-DNA-bind_4
UHGV-0004117_66	Pfam	PF14659	Phage integrase, N-terminal SAM-like domain	Phage_int_SAM_3
UHGV-0004117_66	Pfam	PF00589	Phage integrase family	Phage_integrase
UHGV-0004117_66	COG	COG0582	Integrase/recombinase, includes phage integrase	NA
UHGV-0004117_66	Structural annotation	PF00589, MF_01808, TIGR02224, COG4974	NA	NA