UHGV-0112604

Genome information

Genome length 36,364 bps

CDS count 59

Completeness 83.79% (medium-quality)

geNomad score 0.9723

Prediction confidence Confident

Genome information
Genome ID	UHGV-0112604
vOTU ID	vOTU-038685
vOTU representative	Yes
Source dataset	GPD
Original genome ID	uvig_242685
BioSample	SAMEA3708826
Country	China
Virus prediction confidence	Confident

Quality assessment
CheckV method	AAI-based
CheckV completeness	83.79% (medium-quality)
CheckV contamination	0.00%
Trimmed provirus	No
CheckV viral markers	19
CheckV host markers	0
Recoded stop codon	No

Viral signal
geNomad score	0.9723
Virus hallmark genes (geNomad)	8
Plasmid hallmark genes (geNomad)	0
viralVerify prediction	Virus
viralVerify score	34.32
Jumbo phage	No

Genome content
Genome length	36,364 bps
GC content	36.33%
Genetic code	The standard bacterial, archaeal and plant plastid code (11)
CDS count	59
CDS density	91.37%
Average CDS length	566.64 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-0112604_1	PHROG	phrog_2044	RNA polymerase beta subunit	DNA, RNA and nucleotide metabolism
UHGV-0112604_1	eggNOG-mapper	796940.HMPREF9628_00162	NA	NA
UHGV-0112604_5	KOfam	K00558	DNMT1, dcm; DNA (cytosine-5)-methyltransferase 1 [EC:2.1.1.37]	NA
UHGV-0112604_5	PHROG	phrog_116	DNA methyltransferase	other
UHGV-0112604_5	UniRef90	UniRef90_A0A3D0XYY2	Cytosine-specific methyltransferase	NA
UHGV-0112604_5	eggNOG-mapper	1121871.AUAT01000002_gene1371	C-5 cytosine-specific DNA methylase	NA
UHGV-0112604_5	PADLOC	MTase_II_00058	Type II methyltransferase	RM
UHGV-0112604_5	Pfam	PF00145	C-5 cytosine-specific DNA methylase	DNA_methylase
UHGV-0112604_5	NCBIFam	TIGR00675.1	DNA (cytosine-5-)-methyltransferase	NA
UHGV-0112604_5	COG	COG0270	DNA-cytosine methylase	NA
UHGV-0112604_5	Structural annotation	PF00145, MF_00786, TIGR00675, COG0270	NA	NA
UHGV-0112604_8	PHROG	phrog_8841	DNA primase/helicase	DNA, RNA and nucleotide metabolism
UHGV-0112604_8	UniRef90	UniRef90_UPI00143B22DC	NA	NA
UHGV-0112604_8	eggNOG-mapper	357809.Cphy_2984	NA	NA
UHGV-0112604_8	Pfam	PF06048	NA	DUF927
UHGV-0112604_8	Pfam	PF18662	Cch helix turn helix domain	HTH_56
UHGV-0112604_8	COG	COG5519	NA	NA
UHGV-0112604_8	Structural annotation	PF06048, PF18662, MF_00016, NF011296, COG5519	NA	NA
UHGV-0112604_9	KOfam	K02316	dnaG; DNA primase [EC:2.7.7.101]	NA
UHGV-0112604_9	PHROG	phrog_11992	NA	unknown function
UHGV-0112604_9	UniRef90	UniRef90_UPI001D0EB8AA	CHC2 zinc finger domain-containing protein	NA
UHGV-0112604_9	eggNOG-mapper	476272.RUMHYD_01741	CHC2 zinc finger	NA
UHGV-0112604_9	PADLOC	drt-UG29	DRT	DRT
UHGV-0112604_9	Pfam	PF01807	CHC2 zinc finger	zf-CHC2
UHGV-0112604_9	COG	COG0358	DNA primase (bacterial type)	NA
UHGV-0112604_9	Structural annotation	PF01807	NA	NA
UHGV-0112604_10	PHROG	phrog_3490	ERCC4-type nuclease	DNA, RNA and nucleotide metabolism
UHGV-0112604_10	UniRef90	UniRef90_A0A2K3JBB6	ERCC4 domain-containing protein	NA
UHGV-0112604_10	eggNOG-mapper	411460.RUMTOR_02068	NA	NA
UHGV-0112604_10	Pfam	PF02732	ERCC4 domain	ERCC4
UHGV-0112604_10	Structural annotation	PF03834, NF040956, COG1948	NA	NA
UHGV-0112604_11	KOfam	K03111	ssb; single-strand DNA-binding protein	NA
UHGV-0112604_11	PHROG	phrog_44	single strand DNA binding protein	DNA, RNA and nucleotide metabolism
UHGV-0112604_11	UniRef90	UniRef90_A0A255IMH7	Single-stranded DNA-binding protein	NA
UHGV-0112604_11	eggNOG-mapper	397290.C810_01495	Single-strand binding protein family	NA
UHGV-0112604_11	Pfam	PF00436	Single-strand binding protein family	SSB
UHGV-0112604_11	NCBIFam	TIGR00621.2	single-stranded DNA-binding protein	NA
UHGV-0112604_11	COG	COG0629	Single-stranded DNA-binding protein	NA
UHGV-0112604_11	HAMAP	MF_00984	Single-stranded DNA-binding protein	NA
UHGV-0112604_11	Structural annotation	PF00436, MF_00984, NF005580, COG0629	NA	NA
UHGV-0112604_12	PHROG	phrog_3657	NA	unknown function
UHGV-0112604_12	eggNOG-mapper	1463856.JOHY01000007_gene733	NA	NA
UHGV-0112604_13	PHROG	phrog_1499	NA	unknown function
UHGV-0112604_13	UniRef90	UniRef90_A0A8J7H8V2	AAA family ATPase	NA
UHGV-0112604_13	eggNOG-mapper	742733.HMPREF9469_01850	DNA recombination	NA
UHGV-0112604_13	Pfam	PF13476	AAA domain	AAA_23
UHGV-0112604_13	COG	COG0497	DNA repair ATPase RecN	NA
UHGV-0112604_13	Structural annotation	PF11398, MF_00365, NF008121, COG0497	NA	NA
UHGV-0112604_14	KOfam	K10906	recE; exodeoxyribonuclease VIII [EC:3.1.11.-]	NA
UHGV-0112604_14	PHROG	phrog_412	exonuclease VIII	DNA, RNA and nucleotide metabolism
UHGV-0112604_14	UniRef90	UniRef90_A0A1C6GFL6	Exodeoxyribonuclease 8	NA
UHGV-0112604_14	eggNOG-mapper	395494.Galf_0946	NA	NA
UHGV-0112604_14	Pfam	PF12684	NA	DUF3799
UHGV-0112604_14	Structural annotation	PF12684, MF_03030, TIGR01896, COG2887	NA	NA
UHGV-0112604_16	PHROG	phrog_5070	NA	unknown function
UHGV-0112604_16	UniRef90	UniRef90_C6L9Y5	Bacterial transferase hexapeptide repeat protein	NA
UHGV-0112604_16	eggNOG-mapper	411470.RUMGNA_02189	Catalyzes the N-acylation of UDP-3-O-acylglucosamine using 3-hydroxyacyl-ACP as the acyl donor. Is involved in the biosynthesis of lipid A, a phosphorylated glycolipid that anchors the lipopolysaccharide to the outer membrane of the cell	NA
UHGV-0112604_16	Pfam	PF18836	YdcK Beta solenoid repeat	B_solenoid_ydck
UHGV-0112604_16	COG	COG1044	UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase	NA
UHGV-0112604_20	Structural annotation	PF11614, TIGR02588, COG2847	NA	NA
UHGV-0112604_21	PHROG	phrog_8	transcriptional regulator	transcription regulation
UHGV-0112604_21	UniRef90	UniRef90_A0A174D4N4	Helix-turn-helix domain	NA
UHGV-0112604_21	eggNOG-mapper	1536772.R70723_06540	Cro/C1-type HTH DNA-binding domain	NA
UHGV-0112604_21	Pfam	PF12844	Helix-turn-helix domain	HTH_19
UHGV-0112604_21	Structural annotation	PF01381, NF041951, COG3655	NA	NA
UHGV-0112604_22	KOfam	K22300	dicA; HTH-type transcriptional regulator, cell division transcriptional repressor	NA
UHGV-0112604_22	PHROG	phrog_8	transcriptional regulator	transcription regulation
UHGV-0112604_22	UniRef90	UniRef90_A0A7U9T541	HTH-type transcriptional regulator Xre	NA
UHGV-0112604_22	eggNOG-mapper	1449050.JNLE01000005_gene4847	Transcriptional	NA
UHGV-0112604_22	Pfam	PF01381	Helix-turn-helix	HTH_3
UHGV-0112604_22	COG	COG1476	DNA-binding transcriptional regulator, XRE-family HTH domain	NA
UHGV-0112604_22	Structural annotation	PF12844, NF041951, COG1476	NA	NA
UHGV-0112604_24	KOfam	K22299	rghR; HTH-type transcriptional regulator, competence development regulator	NA
UHGV-0112604_24	PHROG	phrog_8	transcriptional regulator	transcription regulation
UHGV-0112604_24	UniRef90	UniRef90_A0A3R6TWB5	XRE family transcriptional regulator	NA
UHGV-0112604_24	eggNOG-mapper	411470.RUMGNA_00189	Cro/C1-type HTH DNA-binding domain	NA
UHGV-0112604_24	Pfam	PF01381	Helix-turn-helix	HTH_3
UHGV-0112604_24	Structural annotation	PF01381, NF041951, COG1396	NA	NA
UHGV-0112604_25	KOfam	K03763	polC; DNA polymerase III subunit alpha, Gram-positive type [EC:2.7.7.7]	NA
UHGV-0112604_25	PHROG	phrog_192	DNA polymerase exonuclease subunit	DNA, RNA and nucleotide metabolism
UHGV-0112604_25	UniRef90	UniRef90_A0A2P1G219	Exonuclease	NA
UHGV-0112604_25	eggNOG-mapper	938288.HG326225_gene1118	EXOIII	NA
UHGV-0112604_25	PADLOC	cd06127	CAS-I,CAS-II,CAS-III,CAS-IV,CAS-V,CAS-VI; associated	CRISPR-CAS
UHGV-0112604_25	Pfam	PF00929	Exonuclease	RNase_T
UHGV-0112604_25	Pfam	PF00533	BRCA1 C Terminus (BRCT) domain	BRCT
UHGV-0112604_25	NCBIFam	TIGR00573.1	exonuclease, DNA polymerase III, epsilon subunit family	NA
UHGV-0112604_25	COG	COG0272	NAD-dependent DNA ligase	NA
UHGV-0112604_25	Structural annotation	PF00929, PF00533, MF_00157, NF005289, COG0847	NA	NA
UHGV-0112604_26	KOfam	K14059	int; integrase	NA
UHGV-0112604_26	PHROG	phrog_1	integrase	integration and excision
UHGV-0112604_26	UniRef90	UniRef90_A0A3D0HM31	Site-specific integrase	NA
UHGV-0112604_26	eggNOG-mapper	1095750.HMPREF9970_1688	Phage integrase, N-terminal SAM-like domain	NA
UHGV-0112604_26	Pfam	PF00589	Phage integrase family	Phage_integrase
UHGV-0112604_26	COG	COG0582	Integrase/recombinase, includes phage integrase	NA
UHGV-0112604_26	Structural annotation	PF00589, PF12167, MF_02055, NF040815, COG4974	NA	NA
UHGV-0112604_27	UniRef90	UniRef90_A0A373VU48	XRE family transcriptional regulator	NA
UHGV-0112604_27	eggNOG-mapper	140626.JHWB01000009_gene1336	sequence-specific DNA binding	NA
UHGV-0112604_27	Pfam	PF01381	Helix-turn-helix	HTH_3
UHGV-0112604_27	COG	COG2944	DNA-binding transcriptional regulator YiaG, XRE-type HTH domain	NA
UHGV-0112604_30	KOfam	K01447	xlyAB; N-acetylmuramoyl-L-alanine amidase [EC:3.5.1.28]	NA
UHGV-0112604_30	PHROG	phrog_1794	amidase	lysis
UHGV-0112604_30	UniRef90	UniRef90_UPI000F0450D1	N-acetylmuramoyl-L-alanine amidase	NA
UHGV-0112604_30	eggNOG-mapper	1203606.HMPREF1526_00589	Ami_2	NA
UHGV-0112604_30	Pfam	PF01510	N-acetylmuramoyl-L-alanine amidase	Amidase_2
UHGV-0112604_30	COG	COG5632	N-acetylmuramoyl-L-alanine amidase CwlA	NA
UHGV-0112604_30	Structural annotation	PF01510, MF_04111, NF008758, COG5632	NA	NA
UHGV-0112604_31	PHROG	phrog_443	holin	lysis
UHGV-0112604_31	UniRef90	UniRef90_UPI001D060615	holin	NA
UHGV-0112604_31	eggNOG-mapper	411463.EUBVEN_02210	Putative lactococcus lactis phage r1t holin	NA
UHGV-0112604_31	Pfam	PF16945	Putative lactococcus lactis phage r1t holin	Phage_r1t_holin
UHGV-0112604_31	Structural annotation	PF16945	NA	NA
UHGV-0112604_32	PHROG	phrog_4105	NA	unknown function
UHGV-0112604_32	eggNOG-mapper	657322.FPR_27220	NA	NA
UHGV-0112604_34	UniRef90	UniRef90_UPI00164C2D72	leucine-rich repeat domain-containing protein	NA
UHGV-0112604_34	Pfam	PF13306	BspA type Leucine rich repeat region (6 copies)	LRR_5
UHGV-0112604_35	PHROG	phrog_24103	NA	unknown function
UHGV-0112604_37	PHROG	phrog_3558	tail protein	tail
UHGV-0112604_37	UniRef90	UniRef90_A0A386PHP6	Lysin	NA
UHGV-0112604_37	eggNOG-mapper	641112.ACOK01000073_gene2906	Prophage endopeptidase tail	NA
UHGV-0112604_37	Pfam	PF06605	Prophage endopeptidase tail	Prophage_tail
UHGV-0112604_37	COG	COG4926	Phage-related protein	NA
UHGV-0112604_37	Structural annotation	PF14594, TIGR01665, COG4379	NA	NA
UHGV-0112604_38	PHROG	phrog_33	distal tail protein Dit	tail
UHGV-0112604_38	eggNOG-mapper	1414720.CBYM010000001_gene708	PFAM Phage tail protein	NA
UHGV-0112604_38	COG	COG4722	Phage-related protein YomH	NA
UHGV-0112604_38	Structural annotation	PF20195, PF21621, TIGR01633, COG4722	NA	NA
UHGV-0112604_39	PHROG	phrog_991	tail length tape measure protein	tail
UHGV-0112604_39	UniRef90	UniRef90_UPI00189AF390	phage tail tape measure protein	NA
UHGV-0112604_39	eggNOG-mapper	931626.Awo_c30950	Phage tail tape measure protein, TP901 family	NA
UHGV-0112604_39	Pfam	PF10145	Phage-related minor tail protein	PhageMin_Tail
UHGV-0112604_39	NCBIFam	TIGR01760.1	phage tail tape measure protein	NA
UHGV-0112604_39	COG	COG0739	Murein DD-endopeptidase MepM and murein hydrolase activator NlpD, contains LysM domain	NA
UHGV-0112604_39	Structural annotation	PF10145, TIGR01760, COG5280	NA	NA
UHGV-0112604_40	PHROG	phrog_5802	NA	unknown function
UHGV-0112604_42	UniRef90	UniRef90_A0A316S919	Phage tail protein	NA
UHGV-0112604_42	eggNOG-mapper	1384484.AEQU_1175	NA	NA
UHGV-0112604_42	Structural annotation	PF04630, TIGR01603, COG5437	NA	NA
UHGV-0112604_43	PHROG	phrog_5509	neck protein	connector
UHGV-0112604_43	UniRef90	UniRef90_W0FMR6	Gp9 protein	NA
UHGV-0112604_43	eggNOG-mapper	1347392.CCEZ01000045_gene11	NA	NA
UHGV-0112604_43	Structural annotation	TIGR01725, COG5005	NA	NA
UHGV-0112604_44	eggNOG-mapper	1121866.AUGK01000006_gene883	NA	NA
UHGV-0112604_44	Structural annotation	PF05657, COG3167	NA	NA
UHGV-0112604_45	PHROG	phrog_5635	head-tail adaptor	connector
UHGV-0112604_45	eggNOG-mapper	1121866.AUGK01000006_gene882	NA	NA
UHGV-0112604_45	Structural annotation	PF05521, TIGR01563, COG5614	NA	NA
UHGV-0112604_46	PHROG	phrog_749	NA	unknown function
UHGV-0112604_46	UniRef90	UniRef90_A0A1I3QJG6	Phage gp6-like head-tail connector protein	NA
UHGV-0112604_46	eggNOG-mapper	349161.Dred_2603	NA	NA
UHGV-0112604_47	PHROG	phrog_10	major head protein	head and packaging
UHGV-0112604_47	UniRef90	UniRef90_A0A316SAG0	Phage major capsid protein	NA
UHGV-0112604_47	eggNOG-mapper	1384484.AEQU_1180	Phage capsid family	NA
UHGV-0112604_47	Pfam	PF05065	Phage capsid family	Phage_capsid
UHGV-0112604_47	NCBIFam	TIGR01554.2	phage major capsid protein	NA
UHGV-0112604_47	COG	COG4653	Predicted phage phi-C31 gp36 major capsid-like protein	NA
UHGV-0112604_47	Structural annotation	PF05065, MF_04119, TIGR01554, COG4653	NA	NA
UHGV-0112604_48	KOfam	K01358	clpP, CLPP; ATP-dependent Clp protease, protease subunit [EC:3.4.21.92]	NA
UHGV-0112604_48	PHROG	phrog_94	head maturation protease	head and packaging
UHGV-0112604_48	UniRef90	UniRef90_A0A7C6S6U4	ATP-dependent Clp protease proteolytic subunit	NA
UHGV-0112604_48	eggNOG-mapper	1232452.BAIB02000007_gene1626	Belongs to the peptidase S14 family	NA
UHGV-0112604_48	Pfam	PF00574	Clp protease	CLP_protease
UHGV-0112604_48	COG	COG0740	ATP-dependent protease ClpP, protease subunit	NA
UHGV-0112604_48	Structural annotation	PF00574, MF_00444, TIGR00493, COG0740	NA	NA
UHGV-0112604_49	PHROG	phrog_12	portal protein	head and packaging
UHGV-0112604_49	UniRef90	UniRef90_UPI00148519DF	phage portal protein	NA
UHGV-0112604_49	eggNOG-mapper	1307436.PBF_22063	Phage portal protein	NA
UHGV-0112604_49	Pfam	PF04860	Phage portal protein	Phage_portal
UHGV-0112604_49	NCBIFam	TIGR01537.1	phage portal protein	NA
UHGV-0112604_49	COG	COG4695	Phage portal protein BeeE	NA
UHGV-0112604_49	Structural annotation	PF04860, MF_04135, TIGR01537, COG4695	NA	NA
UHGV-0112604_50	PHROG	phrog_9	terminase large subunit	head and packaging
UHGV-0112604_50	UniRef90	UniRef90_UPI00164CCF79	terminase large subunit	NA
UHGV-0112604_50	eggNOG-mapper	1235798.C817_02581	Phage terminase-like protein large subunit	NA
UHGV-0112604_50	Pfam	PF03354	Terminase large subunit, ATPase domain	TerL_ATPase
UHGV-0112604_50	Pfam	PF20441	Terminase large subunit, endonuclease domain	TerL_nuclease
UHGV-0112604_50	COG	COG4626	Phage terminase-like protein, large subunit, contains N-terminal HTH domain	NA
UHGV-0112604_50	Structural annotation	PF20441, PF03354, MF_04146, TIGR01547, COG4626	NA	NA
UHGV-0112604_52	KOfam	K07451	mcrA; 5-methylcytosine-specific restriction enzyme A [EC:3.1.21.-]	NA
UHGV-0112604_52	PHROG	phrog_119	HNH endonuclease	DNA, RNA and nucleotide metabolism
UHGV-0112604_52	UniRef90	UniRef90_A0A415MTD9	HNH endonuclease	NA
UHGV-0112604_52	eggNOG-mapper	610130.Closa_0739	HNH nucleases	NA
UHGV-0112604_52	Pfam	PF01844	HNH endonuclease	HNH
UHGV-0112604_52	COG	COG1403	5-methylcytosine-specific restriction endonuclease McrA	NA
UHGV-0112604_53	eggNOG-mapper	537013.CLOSTMETH_01096	NA	NA
UHGV-0112604_54	KOfam	K18843	hicB; antitoxin HicB	NA
UHGV-0112604_54	PHROG	phrog_497	toxin-antitoxin system HicB-like	moron, auxiliary metabolic gene and host takeover
UHGV-0112604_54	UniRef90	UniRef90_A0A7X7APK8	HicB family protein	NA
UHGV-0112604_54	eggNOG-mapper	1122925.KB895394_gene1703	HicB_like antitoxin of bacterial toxin-antitoxin system	NA
UHGV-0112604_54	Pfam	PF15919	HicB_like antitoxin of bacterial toxin-antitoxin system	HicB_lk_antitox
UHGV-0112604_54	COG	COG1598	Antitoxin component HicB of the HicAB toxin-antitoxin system	NA
UHGV-0112604_54	Structural annotation	PF15919, COG1598	NA	NA
UHGV-0112604_55	KOfam	K07339	hicA; mRNA interferase HicA [EC:3.1.-.-]	NA
UHGV-0112604_55	PHROG	phrog_353	toxin	moron, auxiliary metabolic gene and host takeover
UHGV-0112604_55	UniRef90	UniRef90_C7H0H9	YcfA-like protein	NA
UHGV-0112604_55	eggNOG-mapper	397290.C810_01568	HicA toxin of bacterial toxin-antitoxin,	NA
UHGV-0112604_55	Pfam	PF07927	HicA toxin of bacterial toxin-antitoxin,	HicA_toxin
UHGV-0112604_55	Structural annotation	PF07927	NA	NA
UHGV-0112604_57	PHROG	phrog_918	NA	unknown function
UHGV-0112604_57	UniRef90	UniRef90_UPI001C015439	NA	NA
UHGV-0112604_57	eggNOG-mapper	1158614.I592_01104	NA	NA
UHGV-0112604_57	Pfam	PF19791	NA	DUF6275
UHGV-0112604_57	Structural annotation	PF19791	NA	NA