UHGV-0138995

Genome information

Genome length 42,956 bps

CDS count 68

Completeness 75.48% (medium-quality)

geNomad score 0.9741

Prediction confidence Confident

Genome information
Genome ID	UHGV-0138995
vOTU ID	vOTU-015416
vOTU representative	Yes
Source dataset	GPD
Original genome ID	uvig_381090
BioSample	NA
Country	United States
Virus prediction confidence	Confident

Quality assessment
CheckV method	AAI-based
CheckV completeness	75.48% (medium-quality)
CheckV contamination	0.00%
Trimmed provirus	No
CheckV viral markers	18
CheckV host markers	2
Recoded stop codon	No

Viral signal
geNomad score	0.9741
Virus hallmark genes (geNomad)	6
Plasmid hallmark genes (geNomad)	0
viralVerify prediction	Virus
viralVerify score	31.02
Jumbo phage	No

Genome content
Genome length	42,956 bps
GC content	51.04%
Genetic code	The standard bacterial, archaeal and plant plastid code (11)
CDS count	68
CDS density	89.80%
Average CDS length	571.19 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-0138995_1	KOfam	K14059	int; integrase	NA
UHGV-0138995_1	PHROG	phrog_1	integrase	integration and excision
UHGV-0138995_1	UniRef90	UniRef90_UPI001D0E6130	site-specific integrase	NA
UHGV-0138995_1	eggNOG-mapper	1203606.HMPREF1526_03129	Belongs to the 'phage' integrase family	NA
UHGV-0138995_1	Pfam	PF00589	Phage integrase family	Phage_integrase
UHGV-0138995_1	COG	COG0582	Integrase/recombinase, includes phage integrase	NA
UHGV-0138995_2	UniRef90	UniRef90_UPI001D0E5183	Arm DNA-binding domain-containing protein	NA
UHGV-0138995_2	eggNOG-mapper	742738.HMPREF9460_03449	Phage integrase, N-terminal SAM-like domain	NA
UHGV-0138995_2	Pfam	PF14657	Arm DNA-binding domain	Arm-DNA-bind_4
UHGV-0138995_2	COG	COG0582	Integrase/recombinase, includes phage integrase	NA
UHGV-0138995_3	KOfam	K14059	int; integrase	NA
UHGV-0138995_3	PHROG	phrog_1	integrase	integration and excision
UHGV-0138995_3	UniRef90	UniRef90_UPI001D0EA2AE	site-specific integrase	NA
UHGV-0138995_3	eggNOG-mapper	1514668.JOOA01000001_gene242	Phage integrase family	NA
UHGV-0138995_3	Pfam	PF00589	Phage integrase family	Phage_integrase
UHGV-0138995_3	COG	COG0582	Integrase/recombinase, includes phage integrase	NA
UHGV-0138995_3	Structural annotation	PF00589, PF12167, MF_02055, NF040815, COG4974	NA	NA
UHGV-0138995_4	KOfam	K22299	rghR; HTH-type transcriptional regulator, competence development regulator	NA
UHGV-0138995_4	UniRef90	UniRef90_A0A1Y4BWD3	HTH cro/C1-type domain-containing protein	NA
UHGV-0138995_4	eggNOG-mapper	428125.CLOLEP_00924	NA	NA
UHGV-0138995_4	Pfam	PF13443	Cro/C1-type HTH DNA-binding domain	HTH_26
UHGV-0138995_4	COG	COG1476	DNA-binding transcriptional regulator, XRE-family HTH domain	NA
UHGV-0138995_4	Structural annotation	PF13560, MF_00535, NF041951, COG3655	NA	NA
UHGV-0138995_5	UniRef90	UniRef90_A0A0B1YBZ3	DNA-binding protein	NA
UHGV-0138995_5	eggNOG-mapper	1430331.EP10_02425	NA	NA
UHGV-0138995_6	UniRef90	UniRef90_UPI001D0ED46D	helix-turn-helix domain-containing protein	NA
UHGV-0138995_8	UniRef90	UniRef90_UPI00164A6493	helix-turn-helix domain-containing protein	NA
UHGV-0138995_8	Pfam	PF13443	Cro/C1-type HTH DNA-binding domain	HTH_26
UHGV-0138995_12	PHROG	phrog_4433	NA	unknown function
UHGV-0138995_12	UniRef90	UniRef90_UPI0015C58C2D	NA	NA
UHGV-0138995_12	eggNOG-mapper	394503.Ccel_3068	regulation of DNA-templated transcription, elongation	NA
UHGV-0138995_12	COG	COG5164	Transcription elongation factor SPT5	NA
UHGV-0138995_12	Structural annotation	NF007410	NA	NA
UHGV-0138995_13	Structural annotation	PF08962	NA	NA
UHGV-0138995_14	PHROG	phrog_10625	NA	unknown function
UHGV-0138995_15	PHROG	phrog_1227	exonuclease	DNA, RNA and nucleotide metabolism
UHGV-0138995_15	UniRef90	UniRef90_UPI001D05E08F	PD-(D/E)XK nuclease-like domain-containing protein	NA
UHGV-0138995_15	eggNOG-mapper	1120998.AUFC01000030_gene2216	NA	NA
UHGV-0138995_15	Pfam	PF12684	NA	DUF3799
UHGV-0138995_15	COG	COG1074	3'-5' helicase subunit RecB of the DNA repair enzyme RecBCD (exonuclease V)	NA
UHGV-0138995_15	Structural annotation	PF12684, TIGR01896, COG4343	NA	NA
UHGV-0138995_16	PHROG	phrog_124	Sak4-like ssDNA annealing protein	DNA, RNA and nucleotide metabolism
UHGV-0138995_16	UniRef90	UniRef90_UPI001D097C08	ATP-binding protein	NA
UHGV-0138995_16	eggNOG-mapper	1231377.C426_0599	AAA domain	NA
UHGV-0138995_16	Pfam	PF13479	AAA domain	AAA_24
UHGV-0138995_16	Structural annotation	PF13479, MF_00268, TIGR01618, COG2874	NA	NA
UHGV-0138995_17	PHROG	phrog_28876	metal-dependent phosphohydrolase	other
UHGV-0138995_17	UniRef90	UniRef90_UPI001D067942	HD domain-containing protein	NA
UHGV-0138995_17	eggNOG-mapper	1203606.HMPREF1526_02251	PFAM HD domain	NA
UHGV-0138995_17	COG	COG3481	3'-5' exoribonuclease YhaM, can participate in 23S rRNA maturation, HD superfamily	NA
UHGV-0138995_17	Structural annotation	PF07514, MF_01427, NF010007, COG3481	NA	NA
UHGV-0138995_18	PHROG	phrog_378	single strand DNA binding protein	DNA, RNA and nucleotide metabolism
UHGV-0138995_18	UniRef90	UniRef90_UPI001D0929DA	NA	NA
UHGV-0138995_18	Pfam	PF05037	NA	DUF669
UHGV-0138995_18	Structural annotation	PF05037	NA	NA
UHGV-0138995_19	KOfam	K17677	IRC3; ATP-dependent helicase IRC3 [EC:5.6.2.-]	NA
UHGV-0138995_19	PHROG	phrog_16	DNA helicase	DNA, RNA and nucleotide metabolism
UHGV-0138995_19	UniRef90	UniRef90_A0A2U1BEG6	Superfamily II DNA or RNA helicase	NA
UHGV-0138995_19	eggNOG-mapper	742738.HMPREF9460_02499	helicase superfamily c-terminal domain	NA
UHGV-0138995_19	PADLOC	mREase_IV_00005	Type IV methyl-directed restriction enzyme	RM
UHGV-0138995_19	Pfam	PF04851	Type III restriction enzyme, res subunit	ResIII
UHGV-0138995_19	Pfam	PF00271	Helicase conserved C-terminal domain	Helicase_C
UHGV-0138995_19	COG	COG1061	Superfamily II DNA or RNA helicase	NA
UHGV-0138995_19	Structural annotation	PF04851, PF16203, MF_01489, TIGR04095, COG1061	NA	NA
UHGV-0138995_21	PHROG	phrog_323	endonuclease	DNA, RNA and nucleotide metabolism
UHGV-0138995_21	UniRef90	UniRef90_UPI00137853DA	helix-turn-helix domain-containing protein	NA
UHGV-0138995_21	Pfam	PF13936	Helix-turn-helix domain	HTH_38
UHGV-0138995_21	dbAPIS	APIS006	Trigger programmed cell death (PCD) by P4 prophage.	NA
UHGV-0138995_21	Structural annotation	PF19575, PF06056, NF040595	NA	NA
UHGV-0138995_22	KOfam	K00390	cysH; phosphoadenosine phosphosulfate reductase [EC:1.8.4.8 1.8.4.10]	NA
UHGV-0138995_22	PHROG	phrog_424	phosphoadenosine phosphosulfate reductase	moron, auxiliary metabolic gene and host takeover
UHGV-0138995_22	UniRef90	UniRef90_A0A2V2FKC4	Phosphoadenosine phosphosulfate reductase	NA
UHGV-0138995_22	eggNOG-mapper	397291.C804_00950	Phosphoadenosine phosphosulfate reductase family	NA
UHGV-0138995_22	Pfam	PF01507	Phosphoadenosine phosphosulfate reductase family	PAPS_reduct
UHGV-0138995_22	COG	COG0175	3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase or related enzyme	NA
UHGV-0138995_22	Structural annotation	PF01507, MF_00063, TIGR02055, COG0175	NA	NA
UHGV-0138995_25	UniRef90	UniRef90_A0A8D9PDT5	Hydrogenase/urease nickel incorporation protein	NA
UHGV-0138995_26	PHROG	phrog_1384	Mom-like DNA modification protein	other
UHGV-0138995_26	eggNOG-mapper	1235797.C816_01664	COG NOG12663 non supervised orthologous group	NA
UHGV-0138995_26	Structural annotation	PF11124, MF_02210, NF040502, COG3818	NA	NA
UHGV-0138995_27	PHROG	phrog_474	phosphofructokinase	other
UHGV-0138995_27	UniRef90	UniRef90_UPI0019D13FB2	NA	NA
UHGV-0138995_27	eggNOG-mapper	428125.CLOLEP_01367	NA	NA
UHGV-0138995_27	Pfam	PF14354	Restriction alleviation protein Lar	Lar_restr_allev
UHGV-0138995_27	Pfam	PF19905	NA	DUF6378
UHGV-0138995_27	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-0138995_28	PHROG	phrog_419	NA	unknown function
UHGV-0138995_28	UniRef90	UniRef90_UPI001CC11C4F	PGDYG domain-containing protein	NA
UHGV-0138995_28	eggNOG-mapper	1134413.ANNK01000120_gene2032	NA	NA
UHGV-0138995_28	Structural annotation	PF14083	NA	NA
UHGV-0138995_30	PHROG	phrog_2316	NA	unknown function
UHGV-0138995_30	eggNOG-mapper	1157490.EL26_01915	NA	NA
UHGV-0138995_30	Structural annotation	PF16475, MF_00436, NF033216, COG1923	NA	NA
UHGV-0138995_31	PHROG	phrog_23773	NA	unknown function
UHGV-0138995_31	eggNOG-mapper	484770.UFO1_3918	UMP catabolic process	NA
UHGV-0138995_31	COG	COG0647	Ribonucleotide monophosphatase NagD, HAD superfamily	NA
UHGV-0138995_31	Structural annotation	PF08645, TIGR01689, COG0241	NA	NA
UHGV-0138995_32	PHROG	phrog_774	NA	unknown function
UHGV-0138995_32	eggNOG-mapper	397290.C810_05225	NA	NA
UHGV-0138995_33	PHROG	phrog_7839	NA	unknown function
UHGV-0138995_33	eggNOG-mapper	665956.HMPREF1032_03091	NA	NA
UHGV-0138995_33	Structural annotation	PF08860	NA	NA
UHGV-0138995_36	PHROG	phrog_6721	NA	unknown function
UHGV-0138995_36	eggNOG-mapper	665956.HMPREF1032_00655	NA	NA
UHGV-0138995_36	Structural annotation	PF02511, MF_01408, TIGR02170, COG1351	NA	NA
UHGV-0138995_37	PHROG	phrog_229	MazG-like pyrophosphatase	other
UHGV-0138995_37	UniRef90	UniRef90_A0A396QBH7	Nucleotide pyrophosphohydrolase	NA
UHGV-0138995_37	eggNOG-mapper	1449336.JQLO01000001_gene1124	Nucleotide pyrophosphohydrolase	NA
UHGV-0138995_37	Pfam	PF03819	MazG nucleotide pyrophosphohydrolase domain	MazG
UHGV-0138995_37	COG	COG1694	NTP pyrophosphatase, house-cleaning of non-canonical NTPs	NA
UHGV-0138995_37	Structural annotation	PF03819, MF_01019, NF008986, COG1694	NA	NA
UHGV-0138995_39	UniRef90	UniRef90_R6H309	Holliday junction resolvase RecU	NA
UHGV-0138995_39	Pfam	PF03838	Recombination protein U	RecU
UHGV-0138995_39	Structural annotation	PF03838, MF_00130, NF002581, COG3331	NA	NA
UHGV-0138995_40	KOfam	K02316	dnaG; DNA primase [EC:2.7.7.101]	NA
UHGV-0138995_40	PHROG	phrog_864	DNA primase	DNA, RNA and nucleotide metabolism
UHGV-0138995_40	UniRef90	UniRef90_UPI001D08D333	phage/plasmid primase, P4 family	NA
UHGV-0138995_40	eggNOG-mapper	469596.HMPREF9488_01547	D5 N terminal like	NA
UHGV-0138995_40	PADLOC	drt-cluster192	DRT	DRT
UHGV-0138995_40	Pfam	PF13155	Toprim-like	Toprim_2
UHGV-0138995_40	Pfam	PF08706	D5 N terminal like	D5_N
UHGV-0138995_40	Pfam	PF19263	NA	DUF5906
UHGV-0138995_40	NCBIFam	TIGR01613.1	phage/plasmid primase, P4 family	NA
UHGV-0138995_40	COG	COG3378	DNA primase, phage- or plasmid-associated	NA
UHGV-0138995_40	Structural annotation	PF04735, MF_00974, MF_04000, NF005477, COG3378, COG0358	NA	NA
UHGV-0138995_41	UniRef90	UniRef90_UPI001D07B715	DNA-packaging protein	NA
UHGV-0138995_41	eggNOG-mapper	1235793.C809_00539	NA	NA
UHGV-0138995_41	Pfam	PF16677	DNA-packaging protein gp3	GP3_package
UHGV-0138995_41	Structural annotation	PF16677	NA	NA
UHGV-0138995_44	UniRef90	UniRef90_R6DVZ0	zinc_ribbon_2 domain-containing protein	NA
UHGV-0138995_45	COG	COG1396	Transcriptional regulator, contains XRE-family HTH domain	NA
UHGV-0138995_46	PHROG	phrog_38	terminase large subunit	head and packaging
UHGV-0138995_46	UniRef90	UniRef90_A0A318EQM2	Putative phage terminase large subunit-like protein	NA
UHGV-0138995_46	eggNOG-mapper	1123263.AUKY01000015_gene1608	chromosome segregation	NA
UHGV-0138995_46	COG	COG5410	NA	NA
UHGV-0138995_46	Structural annotation	PF17289, PF02562, MF_04147, NF033889, COG5362, COG5410	NA	NA
UHGV-0138995_47	PHROG	phrog_64	portal protein	head and packaging
UHGV-0138995_47	UniRef90	UniRef90_A0A3D3Y472	Phage portal protein	NA
UHGV-0138995_47	eggNOG-mapper	1123263.AUKY01000015_gene1609	Phage portal protein, SPP1 Gp6-like	NA
UHGV-0138995_47	Pfam	PF05133	Phage portal protein, SPP1 Gp6-like	Phage_prot_Gp6
UHGV-0138995_47	Structural annotation	PF05133, MF_04120, TIGR01538, COG5511	NA	NA
UHGV-0138995_50	PHROG	phrog_422	major head protein	head and packaging
UHGV-0138995_50	UniRef90	UniRef90_A0A345MKD0	Main capsid protein	NA
UHGV-0138995_50	eggNOG-mapper	645991.Sgly_0340	NA	NA
UHGV-0138995_50	Structural annotation	PF21703, MF_04119, TIGR04387, COG4834	NA	NA
UHGV-0138995_52	UniRef90	UniRef90_D7GNV9	Phage QLRG family, putative DNA packaging	NA
UHGV-0138995_52	Pfam	PF05135	Phage gp6-like head-tail connector protein	Phage_connect_1
UHGV-0138995_52	Structural annotation	TIGR01560	NA	NA
UHGV-0138995_53	eggNOG-mapper	1121866.AUGK01000003_gene1432	NA	NA
UHGV-0138995_54	eggNOG-mapper	476272.RUMHYD_01963	NA	NA
UHGV-0138995_55	Structural annotation	PF06141, TIGR02367, COG3167	NA	NA
UHGV-0138995_56	PHROG	phrog_158	major tail protein	tail
UHGV-0138995_56	eggNOG-mapper	469596.HMPREF9488_01310	NA	NA
UHGV-0138995_56	Structural annotation	PF16463, TIGR02241, COG5437	NA	NA
UHGV-0138995_57	UniRef90	UniRef90_A0A845R9E6	NA	NA
UHGV-0138995_57	Pfam	PF16478	NA	DUF5055
UHGV-0138995_57	Structural annotation	PF16478	NA	NA
UHGV-0138995_58	eggNOG-mapper	1121333.JMLH01000047_gene1011	NA	NA
UHGV-0138995_59	PHROG	phrog_1535	tail length tape measure protein	tail
UHGV-0138995_59	UniRef90	UniRef90_A0A1C6L0H4	Phage-related protein	NA
UHGV-0138995_59	eggNOG-mapper	1121866.AUGK01000003_gene1437	phage tail tape measure protein	NA
UHGV-0138995_59	COG	COG1280	Threonine/homoserine/homoserine lactone efflux protein	NA
UHGV-0138995_60	PHROG	phrog_1194	NA	unknown function
UHGV-0138995_60	UniRef90	UniRef90_S9U814	Lj965 prophage protein	NA
UHGV-0138995_60	eggNOG-mapper	1395587.P364_0122015	NA	NA
UHGV-0138995_60	Pfam	PF20458	NA	DUF6711
UHGV-0138995_60	Structural annotation	PF20458, TIGR02126, COG5437	NA	NA
UHGV-0138995_61	PHROG	phrog_32744	NA	unknown function
UHGV-0138995_61	eggNOG-mapper	1120998.AUFC01000030_gene2247	NA	NA
UHGV-0138995_61	Structural annotation	PF14594, NF033848, COG4379	NA	NA
UHGV-0138995_62	eggNOG-mapper	2754.EH55_00535	NA	NA
UHGV-0138995_62	Structural annotation	PF20086, TIGR04362	NA	NA
UHGV-0138995_63	PHROG	phrog_24451	NA	unknown function
UHGV-0138995_63	eggNOG-mapper	1408437.JNJN01000040_gene189	NA	NA
UHGV-0138995_64	PHROG	phrog_1382	NA	unknown function
UHGV-0138995_64	eggNOG-mapper	743719.PaelaDRAFT_2420	NA	NA
UHGV-0138995_65	PHROG	phrog_199	holin	lysis
UHGV-0138995_65	UniRef90	UniRef90_A0A396Q4T1	Holin	NA
UHGV-0138995_65	eggNOG-mapper	411467.BACCAP_00280	Bacteriophage holin family	NA
UHGV-0138995_65	Pfam	PF05105	Bacteriophage holin family	Phage_holin_4_1
UHGV-0138995_65	NCBIFam	TIGR01593.1	toxin secretion/phage lysis holin	NA
UHGV-0138995_65	COG	COG4824	Phage-related holin (Lysis protein)	NA
UHGV-0138995_65	Structural annotation	PF05105, TIGR01593, COG4824	NA	NA
UHGV-0138995_66	KOfam	K01446	PGRP; peptidoglycan recognition protein	NA
UHGV-0138995_66	PHROG	phrog_35436	amidase	lysis
UHGV-0138995_66	UniRef90	UniRef90_UPI00189BCEE8	N-acetylmuramoyl-L-alanine amidase	NA
UHGV-0138995_66	eggNOG-mapper	553973.CLOHYLEM_07195	Ami_2	NA
UHGV-0138995_66	Pfam	PF01510	N-acetylmuramoyl-L-alanine amidase	Amidase_2
UHGV-0138995_66	COG	COG3409	Peptidoglycan-binding (PGRP) domain of peptidoglycan hydrolases	NA
UHGV-0138995_66	Structural annotation	PF01510, MF_04111, NF008758, COG5632	NA	NA
UHGV-0138995_67	KOfam	K03664	smpB; SsrA-binding protein	NA
UHGV-0138995_67	PHROG	phrog_6791	NA	unknown function
UHGV-0138995_67	UniRef90	UniRef90_A0A416NGD4	SsrA-binding protein	NA
UHGV-0138995_67	eggNOG-mapper	1408437.JNJN01000060_gene453	the 2 termini fold to resemble tRNA(Ala) and it encodes a tag peptide , a short internal open reading frame. During trans-translation Ala- aminoacylated tmRNA acts like a tRNA, entering the A-site of stalled ribosomes, displacing the stalled mRNA. The ribosome then switches to translate the ORF on the tmRNA	NA
UHGV-0138995_67	Pfam	PF01668	SmpB protein	SmpB
UHGV-0138995_67	NCBIFam	NF003843.0	SsrA-binding protein SmpB	NA
UHGV-0138995_67	COG	COG0691	tmRNA-binding protein	NA
UHGV-0138995_67	HAMAP	MF_00023	SsrA-binding protein [smpB]	NA
UHGV-0138995_67	Structural annotation	PF01668, MF_00023, NF003843, COG0691	NA	NA
UHGV-0138995_68	KOfam	K06284	abrB; AbrB family transcriptional regulator, transcriptional pleiotropic regulator of transition state genes	NA
UHGV-0138995_68	PHROG	phrog_4681	antitoxin from a toxin-antitoxin system	moron, auxiliary metabolic gene and host takeover
UHGV-0138995_68	UniRef90	UniRef90_A0A3E2XYG6	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	NA
UHGV-0138995_68	eggNOG-mapper	697329.Rumal_2585	Transcriptional regulator, AbrB family	NA
UHGV-0138995_68	Pfam	PF04014	Antidote-toxin recognition MazE, bacterial antitoxin	MazE_antitoxin
UHGV-0138995_68	NCBIFam	TIGR01439.1	transcriptional regulator, AbrB family	NA
UHGV-0138995_68	COG	COG2002	Bifunctional DNA-binding transcriptional regulator of stationary/sporulation/toxin gene expression and antitoxin component of the YhaV-PrlF toxin-antitoxin module	NA
UHGV-0138995_68	Structural annotation	PF04014, TIGR01439, COG2002	NA	NA