UHGV-0038977

Genome information

Genome length 39,854 bps

CDS count 55

Completeness 86.37% (medium-quality)

geNomad score 0.9766

Prediction confidence Confident

Genome information
Genome ID	UHGV-0038977
vOTU ID	vOTU-011035
vOTU representative	Yes
Source dataset	Hadza
Original genome ID	Hadza_PheChl_Fiber-Hadza-Nepal_E_10_1530__NODE_1679_length_39854_cov_35.175906
BioSample	NA
Country	Tanzania
Virus prediction confidence	Confident

Quality assessment
CheckV method	AAI-based
CheckV completeness	86.37% (medium-quality)
CheckV contamination	0.00%
Trimmed provirus	No
CheckV viral markers	14
CheckV host markers	2
Recoded stop codon	No

Viral signal
geNomad score	0.9766
Virus hallmark genes (geNomad)	10
Plasmid hallmark genes (geNomad)	0
viralVerify prediction	Virus
viralVerify score	17.94
Jumbo phage	No

Genome content
Genome length	39,854 bps
GC content	41.33%
Genetic code	The standard bacterial, archaeal and plant plastid code (11)
CDS count	55
CDS density	92.50%
Average CDS length	674.02 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-0038977_1	eggNOG-mapper	1121115.AXVN01000063_gene717	COG COG0715 ABC-type nitrate sulfonate bicarbonate transport systems, periplasmic components	NA
UHGV-0038977_1	Pfam	PF09084	NMT1/THI5 like	NMT1
UHGV-0038977_1	COG	COG0715	ABC-type nitrate/sulfonate/bicarbonate transport system, periplasmic component	NA
UHGV-0038977_2	KOfam	K01447	xlyAB; N-acetylmuramoyl-L-alanine amidase [EC:3.5.1.28]	NA
UHGV-0038977_2	PHROG	phrog_670	endolysin	lysis
UHGV-0038977_2	UniRef90	UniRef90_UPI000E432ED8	N-acetylmuramoyl-L-alanine amidase	NA
UHGV-0038977_2	eggNOG-mapper	411459.RUMOBE_00909	Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase	NA
UHGV-0038977_2	Pfam	PF01832	Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase	Glucosaminidase
UHGV-0038977_2	Pfam	PF01510	N-acetylmuramoyl-L-alanine amidase	Amidase_2
UHGV-0038977_2	Pfam	PF01471	Putative peptidoglycan binding domain	PG_binding_1
UHGV-0038977_2	COG	COG0860	N-acetylmuramoyl-L-alanine amidase	NA
UHGV-0038977_2	Structural annotation	PF01832, NF008758, NF009354, COG5632, COG4193	NA	NA
UHGV-0038977_3	PHROG	phrog_18218	NA	unknown function
UHGV-0038977_3	UniRef90	UniRef90_UPI00093034BA	ribonuclease	NA
UHGV-0038977_3	eggNOG-mapper	411459.RUMOBE_00910	NA	NA
UHGV-0038977_3	Structural annotation	PF06946	NA	NA
UHGV-0038977_4	PHROG	phrog_4105	NA	unknown function
UHGV-0038977_4	eggNOG-mapper	397288.C806_00056	NA	NA
UHGV-0038977_5	KOfam	K04763	xerD; integrase/recombinase XerD	NA
UHGV-0038977_5	PHROG	phrog_1	integrase	integration and excision
UHGV-0038977_5	UniRef90	UniRef90_A0A373N0F6	Integrase	NA
UHGV-0038977_5	eggNOG-mapper	1235793.C809_01951	Phage integrase, N-terminal SAM-like domain	NA
UHGV-0038977_5	Pfam	PF13495	Phage integrase, N-terminal SAM-like domain	Phage_int_SAM_4
UHGV-0038977_5	Pfam	PF00589	Phage integrase family	Phage_integrase
UHGV-0038977_5	COG	COG4974	Site-specific recombinase XerD	NA
UHGV-0038977_5	Structural annotation	PF00589, PF02899, MF_01807, TIGR02224, COG4973	NA	NA
UHGV-0038977_7	KOfam	K00986	ltrA; RNA-directed DNA polymerase [EC:2.7.7.49]	NA
UHGV-0038977_7	PHROG	phrog_1423	Reverse transcriptase	DNA, RNA and nucleotide metabolism
UHGV-0038977_7	UniRef90	UniRef90_A0A1C5PK20	Retron-type reverse transcriptase	NA
UHGV-0038977_7	eggNOG-mapper	1160721.RBI_I01568	Reverse transcriptase (RNA-dependent DNA polymerase)	NA
UHGV-0038977_7	PADLOC	icity0040	RT (reverse transcriptase)	CRISPR-CAS
UHGV-0038977_7	Pfam	PF00078	Reverse transcriptase (RNA-dependent DNA polymerase)	RVT_1
UHGV-0038977_7	COG	COG3344	Retron-type reverse transcriptase	NA
UHGV-0038977_7	Structural annotation	PF00078, MF_01390, TIGR04416, COG3344	NA	NA
UHGV-0038977_8	eggNOG-mapper	658655.HMPREF0988_00872	NA	NA
UHGV-0038977_8	Structural annotation	PF05635, MF_04067, NF008911	NA	NA
UHGV-0038977_9	PHROG	phrog_19280	NA	unknown function
UHGV-0038977_9	UniRef90	UniRef90_A0A413UF00	NA	NA
UHGV-0038977_9	eggNOG-mapper	1160721.RBI_I01569	NA	NA
UHGV-0038977_9	Pfam	PF19789	NA	DUF6273
UHGV-0038977_9	Structural annotation	PF19789	NA	NA
UHGV-0038977_11	PHROG	phrog_26878	virion structural protein	head and packaging
UHGV-0038977_11	UniRef90	UniRef90_A0A1P8BMJ5	Baseplate/receptor binding protein	NA
UHGV-0038977_11	eggNOG-mapper	97138.C820_02500	lipolytic protein G-D-S-L family	NA
UHGV-0038977_11	COG	COG2755	Lysophospholipase L1 or related esterase. Includes spore coat protein LipC/YcsK	NA
UHGV-0038977_11	Structural annotation	PF16255, PF17065, NF011908, COG2755	NA	NA
UHGV-0038977_13	PHROG	phrog_9915	NA	unknown function
UHGV-0038977_14	PHROG	phrog_18190	NA	unknown function
UHGV-0038977_14	UniRef90	UniRef90_UPI000E4C0A8F	bacterial Ig-like domain-containing protein	NA
UHGV-0038977_14	eggNOG-mapper	428125.CLOLEP_00457	endo-1,4-beta-xylanase activity	NA
UHGV-0038977_14	Pfam	PF13306	BspA type Leucine rich repeat region (6 copies)	LRR_5
UHGV-0038977_14	Pfam	PF07523	Bacterial Ig-like domain (group 3)	Big_3
UHGV-0038977_14	COG	COG0683	ABC-type branched-chain amino acid transport system, periplasmic component	NA
UHGV-0038977_14	Structural annotation	PF13306, PF07523, PF05113, NF033848, NF040978, COG3500	NA	NA
UHGV-0038977_15	PHROG	phrog_1194	NA	unknown function
UHGV-0038977_15	Pfam	PF20458	NA	DUF6711
UHGV-0038977_15	Structural annotation	PF20458, TIGR01633, COG3499	NA	NA
UHGV-0038977_16	KOfam	K03529	smc; chromosome segregation protein	NA
UHGV-0038977_16	PHROG	phrog_5218	NA	unknown function
UHGV-0038977_16	UniRef90	UniRef90_A0A174CPF9	Phage-related minor tail protein	NA
UHGV-0038977_16	eggNOG-mapper	1235792.C808_03050	Phage-related minor tail protein	NA
UHGV-0038977_16	Pfam	PF10145	Phage-related minor tail protein	PhageMin_Tail
UHGV-0038977_16	COG	COG3941	Phage tail tape-measure protein, controls tail length	NA
UHGV-0038977_16	Structural annotation	PF10145, PF05384, NF033930, COG5280	NA	NA
UHGV-0038977_17	eggNOG-mapper	97139.C824_05964	NA	NA
UHGV-0038977_17	Structural annotation	PF11836	NA	NA
UHGV-0038977_18	PHROG	phrog_88	major tail protein	tail
UHGV-0038977_18	UniRef90	UniRef90_N1ZV08	Phi13 family phage major tail protein	NA
UHGV-0038977_18	eggNOG-mapper	97139.C824_05965	NA	NA
UHGV-0038977_18	NCBIFam	TIGR01603.1	major tail protein	NA
UHGV-0038977_18	Structural annotation	PF04630, TIGR01603, COG3498	NA	NA
UHGV-0038977_19	PHROG	phrog_78	tail terminator	connector
UHGV-0038977_19	eggNOG-mapper	293826.Amet_4023	NA	NA
UHGV-0038977_19	Structural annotation	PF05657	NA	NA
UHGV-0038977_20	PHROG	phrog_5	tail completion or Neck1 protein	connector
UHGV-0038977_20	UniRef90	UniRef90_UPI0013905FA6	HK97 gp10 family phage protein	NA
UHGV-0038977_20	eggNOG-mapper	411459.RUMOBE_00932	Phage protein, HK97 gp10 family	NA
UHGV-0038977_20	NCBIFam	TIGR01725.1	HK97-gp10 family putative phage morphogenesis protein	NA
UHGV-0038977_20	Structural annotation	TIGR01725	NA	NA
UHGV-0038977_21	PHROG	phrog_1951	head-tail adaptor	connector
UHGV-0038977_21	COG	COG5614	Phage head-tail adaptor	NA
UHGV-0038977_21	Structural annotation	PF05521, TIGR01563, COG5614	NA	NA
UHGV-0038977_22	PHROG	phrog_5223	neck protein	connector
UHGV-0038977_22	UniRef90	UniRef90_UPI0019613678	head-tail connector protein	NA
UHGV-0038977_22	eggNOG-mapper	573061.Clocel_2435	NA	NA
UHGV-0038977_23	PHROG	phrog_10	major head protein	head and packaging
UHGV-0038977_23	UniRef90	UniRef90_A0A1C6KA65	Predicted phage phi-C31 gp36 major capsid-like protein	NA
UHGV-0038977_23	eggNOG-mapper	1235793.C809_01920	Phage capsid family	NA
UHGV-0038977_23	Pfam	PF05065	Phage capsid family	Phage_capsid
UHGV-0038977_23	NCBIFam	TIGR01554.2	phage major capsid protein	NA
UHGV-0038977_23	COG	COG4653	Predicted phage phi-C31 gp36 major capsid-like protein	NA
UHGV-0038977_23	Structural annotation	PF05065, MF_04119, TIGR01554, COG4653	NA	NA
UHGV-0038977_24	KOfam	K01358	clpP, CLPP; ATP-dependent Clp protease, protease subunit [EC:3.4.21.92]	NA
UHGV-0038977_24	PHROG	phrog_94	head maturation protease	head and packaging
UHGV-0038977_24	UniRef90	UniRef90_A0A4Q7PKT6	ATP-dependent Clp protease proteolytic subunit	NA
UHGV-0038977_24	eggNOG-mapper	1235793.C809_01919	Clp protease	NA
UHGV-0038977_24	Pfam	PF00574	Clp protease	CLP_protease
UHGV-0038977_24	COG	COG0740	ATP-dependent protease ClpP, protease subunit	NA
UHGV-0038977_24	Structural annotation	PF00574, MF_00444, NF011091, COG0740	NA	NA
UHGV-0038977_25	PHROG	phrog_12	portal protein	head and packaging
UHGV-0038977_25	UniRef90	UniRef90_A0A1C6K9V7	Phage portal protein, HK97 family	NA
UHGV-0038977_25	eggNOG-mapper	1235793.C809_01918	Phage portal protein	NA
UHGV-0038977_25	Pfam	PF04860	Phage portal protein	Phage_portal
UHGV-0038977_25	COG	COG4695	Phage portal protein BeeE	NA
UHGV-0038977_25	Structural annotation	PF04860, MF_04135, TIGR01537, COG4695	NA	NA
UHGV-0038977_26	PHROG	phrog_9	terminase large subunit	head and packaging
UHGV-0038977_26	UniRef90	UniRef90_UPI00148AEB9A	terminase large subunit	NA
UHGV-0038977_26	eggNOG-mapper	1235793.C809_01917	Phage Terminase	NA
UHGV-0038977_26	Pfam	PF03354	Terminase large subunit, ATPase domain	TerL_ATPase
UHGV-0038977_26	Pfam	PF20441	Terminase large subunit, endonuclease domain	TerL_nuclease
UHGV-0038977_26	COG	COG4626	Phage terminase-like protein, large subunit, contains N-terminal HTH domain	NA
UHGV-0038977_26	Structural annotation	PF20441, PF03354, MF_04145, TIGR01547, COG4626	NA	NA
UHGV-0038977_27	PHROG	phrog_1066	NA	unknown function
UHGV-0038977_27	eggNOG-mapper	1235793.C809_01916	NA	NA
UHGV-0038977_27	Structural annotation	PF05119, TIGR01558, COG3747	NA	NA
UHGV-0038977_28	PHROG	phrog_119	HNH endonuclease	DNA, RNA and nucleotide metabolism
UHGV-0038977_28	UniRef90	UniRef90_A0A174XSZ8	Prophage LambdaBa04, GP54	NA
UHGV-0038977_28	eggNOG-mapper	318464.IO99_13775	HNH nucleases	NA
UHGV-0038977_28	COG	COG1403	5-methylcytosine-specific restriction endonuclease McrA	NA
UHGV-0038977_29	PHROG	phrog_36	transcriptional regulator	transcription regulation
UHGV-0038977_29	Pfam	PF04545	Sigma-70, region 4	Sigma70_r4
UHGV-0038977_29	COG	COG1191	DNA-directed RNA polymerase specialized sigma subunit	NA
UHGV-0038977_29	Structural annotation	PF04545, MF_00674, NF009180, COG1342	NA	NA
UHGV-0038977_31	PHROG	phrog_7566	NA	unknown function
UHGV-0038977_31	eggNOG-mapper	97139.C824_00037	NA	NA
UHGV-0038977_32	PHROG	phrog_19490	NA	unknown function
UHGV-0038977_32	UniRef90	UniRef90_A0A395V5F5	Glutathione peroxidase	NA
UHGV-0038977_33	PHROG	phrog_32198	NA	unknown function
UHGV-0038977_35	PHROG	phrog_2245	nucleoside triphosphate pyrophosphohydrolase	other
UHGV-0038977_35	UniRef90	UniRef90_A0A373NRP8	MazG domain-containing protein	NA
UHGV-0038977_35	eggNOG-mapper	1680.BADO_1259	NA	NA
UHGV-0038977_35	Pfam	PF03819	MazG nucleotide pyrophosphohydrolase domain	MazG
UHGV-0038977_37	PHROG	phrog_8684	NA	unknown function
UHGV-0038977_37	UniRef90	UniRef90_C6JB45	YopX domain-containing protein	NA
UHGV-0038977_37	eggNOG-mapper	457412.RSAG_01162	YopX protein	NA
UHGV-0038977_37	Pfam	PF09643	YopX protein	YopX
UHGV-0038977_37	Structural annotation	PF09643, TIGR01671	NA	NA
UHGV-0038977_38	PHROG	phrog_20593	NA	unknown function
UHGV-0038977_38	eggNOG-mapper	483218.BACPEC_01161	NA	NA
UHGV-0038977_41	Pfam	PF04448	NA	DUF551
UHGV-0038977_42	PHROG	phrog_15198	NA	unknown function
UHGV-0038977_42	UniRef90	UniRef90_A0A395WBY6	NA	NA
UHGV-0038977_42	Structural annotation	PF04448, NF041588	NA	NA
UHGV-0038977_43	KOfam	K00390	cysH; phosphoadenosine phosphosulfate reductase [EC:1.8.4.8 1.8.4.10]	NA
UHGV-0038977_43	PHROG	phrog_424	phosphoadenosine phosphosulfate reductase	moron, auxiliary metabolic gene and host takeover
UHGV-0038977_43	UniRef90	UniRef90_UPI001C01D594	phosphoadenosine phosphosulfate reductase family protein	NA
UHGV-0038977_43	eggNOG-mapper	742765.HMPREF9457_03403	Phosphoadenosine phosphosulfate reductase family	NA
UHGV-0038977_43	Pfam	PF01507	Phosphoadenosine phosphosulfate reductase family	PAPS_reduct
UHGV-0038977_43	COG	COG0175	3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase or related enzyme	NA
UHGV-0038977_43	Structural annotation	PF01507, MF_00063, NF006327, COG0175	NA	NA
UHGV-0038977_47	UniRef90	UniRef90_A0A1C6J6F7	NA	NA
UHGV-0038977_47	Pfam	PF19789	NA	DUF6273
UHGV-0038977_47	Structural annotation	PF19789	NA	NA
UHGV-0038977_50	KOfam	K03111	ssb; single-strand DNA-binding protein	NA
UHGV-0038977_50	PHROG	phrog_44	single strand DNA binding protein	DNA, RNA and nucleotide metabolism
UHGV-0038977_50	UniRef90	UniRef90_UPI0004101F09	single-stranded DNA-binding protein	NA
UHGV-0038977_50	eggNOG-mapper	457412.RSAG_03244	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-0038977_50	Pfam	PF00436	Single-strand binding protein family	SSB
UHGV-0038977_50	NCBIFam	TIGR00621.2	single-stranded DNA-binding protein	NA
UHGV-0038977_50	COG	COG0629	Single-stranded DNA-binding protein	NA
UHGV-0038977_50	HAMAP	MF_00984	Single-stranded DNA-binding protein	NA
UHGV-0038977_50	Structural annotation	PF00436, MF_00984, NF005580, COG0629	NA	NA
UHGV-0038977_51	UniRef90	UniRef90_UPI000CDAB14C	winged helix-turn-helix transcriptional regulator	NA
UHGV-0038977_51	eggNOG-mapper	138119.DSY1577	Represses a number of genes involved in the response to DNA damage (SOS response), including recA and lexA. In the presence of single-stranded DNA, RecA interacts with LexA causing an autocatalytic cleavage which disrupts the DNA-binding part of LexA, leading to derepression of the SOS regulon and eventually DNA repair	NA
UHGV-0038977_51	Pfam	PF01726	LexA DNA binding domain	LexA_DNA_bind
UHGV-0038977_51	COG	COG1974	SOS-response transcriptional repressor LexA (RecA-mediated autopeptidase)	NA
UHGV-0038977_51	Structural annotation	PF01726, MF_00732, TIGR00738, COG3388	NA	NA
UHGV-0038977_52	eggNOG-mapper	1235798.C817_05493	NA	NA
UHGV-0038977_54	PHROG	phrog_17690	NA	unknown function
UHGV-0038977_54	UniRef90	UniRef90_A0A6L5XWF4	3-dehydroquinate synthase	NA
UHGV-0038977_54	eggNOG-mapper	33035.JPJF01000123_gene2433	NA	NA