UHGV-2054675

Genome information

Genome length 35,695 bps

CDS count 53

Completeness 89.28% (medium-quality)

geNomad score 0.9788

Prediction confidence Confident

Genome information
Genome ID	UHGV-2054675
vOTU ID	vOTU-015633
vOTU representative	Yes
Source dataset	IMG/VR v4
Original genome ID	3300029334\|Ga0243717_1000001\|provirus_471995_507689
BioSample	NA
Country	United States
Virus prediction confidence	Confident

Quality assessment
CheckV method	AAI-based
CheckV completeness	89.28% (medium-quality)
CheckV contamination	0.00%
Trimmed provirus	No
CheckV viral markers	26
CheckV host markers	1
Recoded stop codon	No

Viral signal
geNomad score	0.9788
Virus hallmark genes (geNomad)	10
Plasmid hallmark genes (geNomad)	0
viralVerify prediction	Virus
viralVerify score	60.39
Jumbo phage	No

Genome content
Genome length	35,695 bps
GC content	38.24%
Genetic code	The standard bacterial, archaeal and plant plastid code (11)
CDS count	53
CDS density	91.96%
Average CDS length	622.87 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-2054675_1	KOfam	K06334	cotJC; spore coat protein JC	NA
UHGV-2054675_1	PHROG	phrog_7573	NA	unknown function
UHGV-2054675_1	UniRef90	UniRef90_A0A1C5UBN2	Probable manganese catalase	NA
UHGV-2054675_1	eggNOG-mapper	742740.HMPREF9474_04195	NA	NA
UHGV-2054675_1	Pfam	PF05067	Manganese containing catalase	Mn_catalase
UHGV-2054675_1	COG	COG3546	Mn-containing catalase (includes spore coat protein CotJC)	NA
UHGV-2054675_2	KOfam	K06400	spoIVCA; site-specific DNA recombinase	NA
UHGV-2054675_2	PHROG	phrog_95	integrase	integration and excision
UHGV-2054675_2	UniRef90	UniRef90_U2RFE5	Resolvase protein	NA
UHGV-2054675_2	eggNOG-mapper	1256908.HMPREF0373_00206	Resolvase, N terminal domain	NA
UHGV-2054675_2	Pfam	PF00239	Resolvase, N terminal domain	Resolvase
UHGV-2054675_2	Pfam	PF07508	Recombinase	Recombinase
UHGV-2054675_2	COG	COG1961	Site-specific DNA recombinase SpoIVCA/DNA invertase PinE	NA
UHGV-2054675_2	Structural annotation	PF07508, PF00239, NF041201, COG1961	NA	NA
UHGV-2054675_3	KOfam	K23779	sutR; XRE family transcriptional regulator, regulator of sulfur utilization	NA
UHGV-2054675_3	PHROG	phrog_2439	transcriptional regulator	transcription regulation
UHGV-2054675_3	UniRef90	UniRef90_R6PRJ3	DNA-binding helix-turn-helix protein	NA
UHGV-2054675_3	eggNOG-mapper	86416.Clopa_3404	helix-turn-helix	NA
UHGV-2054675_3	PADLOC	retron_type_VI_hth_cluster2_1	NA	Retron
UHGV-2054675_3	Pfam	PF01381	Helix-turn-helix	HTH_3
UHGV-2054675_3	COG	COG1396	Transcriptional regulator, contains XRE-family HTH domain	NA
UHGV-2054675_3	Structural annotation	PF01381, NF041951, COG1476	NA	NA
UHGV-2054675_5	UniRef90	UniRef90_R7HDM8	DZANK-type domain-containing protein	NA
UHGV-2054675_5	eggNOG-mapper	1410633.JHWR01000006_gene1096	NA	NA
UHGV-2054675_6	KOfam	K18830	pezA; HTH-type transcriptional regulator / antitoxin PezA	NA
UHGV-2054675_6	PHROG	phrog_4	transcriptional repressor	transcription regulation
UHGV-2054675_6	UniRef90	UniRef90_A0A3R6UL37	XRE family transcriptional regulator	NA
UHGV-2054675_6	eggNOG-mapper	665956.HMPREF1032_00148	NA	NA
UHGV-2054675_6	PADLOC	retron_type_VI_hth_cluster2_1	NA	Retron
UHGV-2054675_6	Pfam	PF01381	Helix-turn-helix	HTH_3
UHGV-2054675_6	COG	COG1396	Transcriptional regulator, contains XRE-family HTH domain	NA
UHGV-2054675_6	Structural annotation	PF01381, MF_00535, NF041951, COG1476	NA	NA
UHGV-2054675_12	KOfam	K08131	COL9A; collagen type IX alpha	NA
UHGV-2054675_12	PHROG	phrog_4433	NA	unknown function
UHGV-2054675_12	eggNOG-mapper	886882.PPSC2_p0048	regulation of DNA-templated transcription, elongation	NA
UHGV-2054675_12	Pfam	PF01391	Collagen triple helix repeat (20 copies)	Collagen
UHGV-2054675_12	COG	COG5164	Transcription elongation factor SPT5	NA
UHGV-2054675_12	Structural annotation	NF007410, NF033144	NA	NA
UHGV-2054675_13	PHROG	phrog_434	RecE-like recombination exonuclease	DNA, RNA and nucleotide metabolism
UHGV-2054675_13	UniRef90	UniRef90_A0A844E6Y4	Recombinase	NA
UHGV-2054675_13	eggNOG-mapper	1095750.HMPREF9970_1677	YqaJ viral recombinase family	NA
UHGV-2054675_13	Pfam	PF09588	YqaJ-like viral recombinase domain	YqaJ
UHGV-2054675_13	NCBIFam	TIGR03033.1	putative phage-type endonuclease	NA
UHGV-2054675_13	COG	COG5377	Phage-related protein, predicted endonuclease	NA
UHGV-2054675_13	Structural annotation	PF09588, MF_03030, TIGR03033, COG5377	NA	NA
UHGV-2054675_14	PHROG	phrog_757	DNA methyltransferase	other
UHGV-2054675_14	UniRef90	UniRef90_A0A844E1E5	NA	NA
UHGV-2054675_14	eggNOG-mapper	1327985.S0A061_9CAUD	NA	NA
UHGV-2054675_14	Pfam	PF07083	NA	DUF1351
UHGV-2054675_15	PHROG	phrog_4400	NA	unknown function
UHGV-2054675_15	eggNOG-mapper	886882.PPSC2_p0514	NA	NA
UHGV-2054675_15	dbAPIS	APIS008	Alphafold2 predicted that Gad2 is an enzyme with a nucleotidyltransferase protein domain, suggesting that it inhibits Gabija via a mechanism of action different than Gad1.	NA
UHGV-2054675_15	Structural annotation	PF01743, MF_00957, TIGR01942, COG0617	NA	NA
UHGV-2054675_17	KOfam	K07455	recT; recombination protein RecT	NA
UHGV-2054675_17	PHROG	phrog_148	RecT-like ssDNA annealing protein	DNA, RNA and nucleotide metabolism
UHGV-2054675_17	UniRef90	UniRef90_A0A844E2H7	Recombinase	NA
UHGV-2054675_17	eggNOG-mapper	1095750.HMPREF9970_1675	RecT family	NA
UHGV-2054675_17	Pfam	PF03837	RecT family	RecT
UHGV-2054675_17	NCBIFam	TIGR00616.1	recombinase, phage RecT family	NA
UHGV-2054675_17	COG	COG3723	Recombinational DNA repair protein RecT	NA
UHGV-2054675_17	Structural annotation	PF03837, TIGR00616, COG3723	NA	NA
UHGV-2054675_18	PHROG	phrog_997	replication terminator	DNA, RNA and nucleotide metabolism
UHGV-2054675_18	eggNOG-mapper	1232453.BAIF02000057_gene1139	NA	NA
UHGV-2054675_19	PHROG	phrog_1029	NA	unknown function
UHGV-2054675_19	UniRef90	UniRef90_A0A3D5WKT6	Peptidase S59 domain-containing protein	NA
UHGV-2054675_19	eggNOG-mapper	1232453.BAIF02000057_gene1140	NA	NA
UHGV-2054675_19	Structural annotation	PF10065, COG5532	NA	NA
UHGV-2054675_21	PHROG	phrog_424	phosphoadenosine phosphosulfate reductase	moron, auxiliary metabolic gene and host takeover
UHGV-2054675_21	UniRef90	UniRef90_UPI001106D0F2	phosphoadenosine phosphosulfate reductase	NA
UHGV-2054675_21	eggNOG-mapper	903814.ELI_3131	sulfate reduction	NA
UHGV-2054675_21	COG	COG0175	3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase or related enzyme	NA
UHGV-2054675_21	Structural annotation	PF01507, MF_00063, NF002537, COG0175	NA	NA
UHGV-2054675_22	PHROG	phrog_244	RusA-like Holliday junction resolvase	DNA, RNA and nucleotide metabolism
UHGV-2054675_22	UniRef90	UniRef90_A0A841R0Q1	Holliday junction resolvase	NA
UHGV-2054675_22	eggNOG-mapper	887929.HMP0721_1279	NA	NA
UHGV-2054675_22	Structural annotation	PF01870, MF_01490, NF040854, COG1591	NA	NA
UHGV-2054675_23	eggNOG-mapper	1203606.HMPREF1526_01684	NA	NA
UHGV-2054675_24	eggNOG-mapper	411461.DORFOR_01157	NA	NA
UHGV-2054675_24	COG	COG2337	mRNA-degrading endonuclease MazF, toxin component of the MazEF toxin-antitoxin module	NA
UHGV-2054675_24	Structural annotation	PF02452, NF010262, COG2337	NA	NA
UHGV-2054675_25	PHROG	phrog_10469	DnaD-like helicase loader	DNA, RNA and nucleotide metabolism
UHGV-2054675_25	UniRef90	UniRef90_A0A2N5NVH3	Phage_rep_org_N domain-containing protein	NA
UHGV-2054675_25	eggNOG-mapper	411470.RUMGNA_02197	phage replisome	NA
UHGV-2054675_25	Pfam	PF09681	N-terminal phage replisome organiser (Phage_rep_org_N)	Phage_rep_org_N
UHGV-2054675_25	NCBIFam	TIGR01714.1	phage replisome organizer, putative, N-terminal region	NA
UHGV-2054675_25	Structural annotation	PF09681, TIGR01714, COG3388	NA	NA
UHGV-2054675_26	PHROG	phrog_36	transcriptional regulator	transcription regulation
UHGV-2054675_26	UniRef90	UniRef90_A0A6N7XL46	Sigma-70 family RNA polymerase sigma factor	NA
UHGV-2054675_26	eggNOG-mapper	97138.C820_00772	sigma factor activity	NA
UHGV-2054675_26	COG	COG1191	DNA-directed RNA polymerase specialized sigma subunit	NA
UHGV-2054675_26	Structural annotation	PF07374, MF_00674, NF008895, COG1342	NA	NA
UHGV-2054675_27	eggNOG-mapper	445972.ANACOL_01837	NA	NA
UHGV-2054675_28	KOfam	K07474	xtmA; phage terminase small subunit	NA
UHGV-2054675_28	PHROG	phrog_51	terminase small subunit	head and packaging
UHGV-2054675_28	UniRef90	UniRef90_UPI00082DFCD6	terminase small subunit	NA
UHGV-2054675_28	eggNOG-mapper	476272.RUMHYD_02844	Terminase Small Subunit	NA
UHGV-2054675_28	Pfam	PF03592	Terminase small subunit	Terminase_2
UHGV-2054675_28	COG	COG3728	Phage terminase, small subunit	NA
UHGV-2054675_28	Structural annotation	PF03592, COG3728	NA	NA
UHGV-2054675_29	PHROG	phrog_59	HNH endonuclease	DNA, RNA and nucleotide metabolism
UHGV-2054675_29	UniRef90	UniRef90_A0A7X6VJJ1	NUMOD4 domain-containing protein	NA
UHGV-2054675_29	eggNOG-mapper	1345695.CLSA_c30140	NUMOD4 motif	NA
UHGV-2054675_29	PADLOC	HEase_00016	homing endonuclease	RM
UHGV-2054675_29	Pfam	PF07463	NUMOD4 motif	NUMOD4
UHGV-2054675_29	Pfam	PF13392	HNH endonuclease	HNH_3
UHGV-2054675_29	Structural annotation	PF07453	NA	NA
UHGV-2054675_30	KOfam	K06909	xtmB; phage terminase large subunit	NA
UHGV-2054675_30	PHROG	phrog_3717	terminase large subunit	head and packaging
UHGV-2054675_30	UniRef90	UniRef90_A0A6N7XL45	PBSX family phage terminase large subunit	NA
UHGV-2054675_30	eggNOG-mapper	1256908.HMPREF0373_00486	Phage terminase, large subunit, PBSX family	NA
UHGV-2054675_30	Pfam	PF04466	Phage terminase large subunit	Terminase_3
UHGV-2054675_30	Pfam	PF17288	Terminase RNAseH like domain	Terminase_3C
UHGV-2054675_30	NCBIFam	TIGR01547.1	PBSX family phage terminase large subunit	NA
UHGV-2054675_30	COG	COG1783	Phage terminase large subunit	NA
UHGV-2054675_30	Structural annotation	PF04466, PF17288, MF_04145, TIGR01547, COG1783	NA	NA
UHGV-2054675_31	PHROG	phrog_64	portal protein	head and packaging
UHGV-2054675_31	UniRef90	UniRef90_U2Q3Z0	Putative phage portal protein, SPP1 Gp6	NA
UHGV-2054675_31	eggNOG-mapper	1256908.HMPREF0373_00485	Phage portal protein, SPP1 Gp6-like	NA
UHGV-2054675_31	Pfam	PF05133	Phage portal protein, SPP1 Gp6-like	Phage_prot_Gp6
UHGV-2054675_31	Structural annotation	PF05133, MF_04120, TIGR01538, COG3567	NA	NA
UHGV-2054675_32	PHROG	phrog_595	head maturation protease	head and packaging
UHGV-2054675_32	UniRef90	UniRef90_A0A3E3EFP0	Phage_Mu_F domain-containing protein	NA
UHGV-2054675_32	eggNOG-mapper	1256908.HMPREF0373_00484	Phage Mu protein F like protein	NA
UHGV-2054675_32	Pfam	PF04233	Phage Mu protein F like protein	Phage_Mu_F
UHGV-2054675_32	COG	COG2369	NA	NA
UHGV-2054675_34	PHROG	phrog_3675	NA	unknown function
UHGV-2054675_34	UniRef90	UniRef90_A0A0E4H649	YjcQ protein	NA
UHGV-2054675_34	eggNOG-mapper	1321784.HMPREF1987_01070	YjcQ protein	NA
UHGV-2054675_34	Pfam	PF09639	YjcQ protein	YjcQ
UHGV-2054675_34	Structural annotation	PF09639, TIGR04176, COG1695	NA	NA
UHGV-2054675_35	PHROG	phrog_194	head scaffolding protein	head and packaging
UHGV-2054675_35	UniRef90	UniRef90_A0A1C5PQA6	Phage minor structural protein GP20	NA
UHGV-2054675_35	eggNOG-mapper	1256908.HMPREF0373_00477	Phage minor structural protein GP20	NA
UHGV-2054675_35	Pfam	PF06810	Phage minor structural protein GP20	Phage_GP20
UHGV-2054675_35	Structural annotation	PF06810	NA	NA
UHGV-2054675_36	PHROG	phrog_212	major head protein	head and packaging
UHGV-2054675_36	UniRef90	UniRef90_UPI00156FB4D6	phage capsid protein	NA
UHGV-2054675_36	eggNOG-mapper	1235800.C819_02234	NA	NA
UHGV-2054675_36	Structural annotation	PF05065, MF_04119, NF041162, COG4653	NA	NA
UHGV-2054675_37	PHROG	phrog_10541	NA	unknown function
UHGV-2054675_37	UniRef90	UniRef90_A0A841L8S8	Rho_N domain-containing protein	NA
UHGV-2054675_37	eggNOG-mapper	1122918.KB907248_gene4497	NA	NA
UHGV-2054675_38	PHROG	phrog_1236	head protein	head and packaging
UHGV-2054675_38	eggNOG-mapper	1256908.HMPREF0373_00475	NA	NA
UHGV-2054675_38	Structural annotation	PF05135	NA	NA
UHGV-2054675_39	PHROG	phrog_1059	head-tail adaptor	connector
UHGV-2054675_39	UniRef90	UniRef90_UPI00189CCC11	phage head closure protein	NA
UHGV-2054675_39	eggNOG-mapper	1256908.HMPREF0373_00474	NA	NA
UHGV-2054675_39	Structural annotation	PF05521, TIGR01563, COG5614	NA	NA
UHGV-2054675_40	PHROG	phrog_5	tail completion or Neck1 protein	connector
UHGV-2054675_40	UniRef90	UniRef90_UPI001C115DB1	HK97 gp10 family phage protein	NA
UHGV-2054675_40	eggNOG-mapper	1256908.HMPREF0373_00473	NA	NA
UHGV-2054675_40	Pfam	PF04883	Bacteriophage HK97-gp10, putative tail-component	HK97-gp10_like
UHGV-2054675_40	Structural annotation	PF20039, TIGR01725, COG5005	NA	NA
UHGV-2054675_41	eggNOG-mapper	1256908.HMPREF0373_00472	NA	NA
UHGV-2054675_41	Structural annotation	PF12691	NA	NA
UHGV-2054675_42	PHROG	phrog_885	major tail protein	tail
UHGV-2054675_42	eggNOG-mapper	1256908.HMPREF0373_00471	NA	NA
UHGV-2054675_42	Structural annotation	PF06488, TIGR01603, COG5437	NA	NA
UHGV-2054675_43	PHROG	phrog_1021	NA	unknown function
UHGV-2054675_43	eggNOG-mapper	1256908.HMPREF0373_00470	NA	NA
UHGV-2054675_45	PHROG	phrog_6900	tail length tape measure protein	tail
UHGV-2054675_45	eggNOG-mapper	1123312.KB904569_gene357	Phage tail tape measure protein TP901	NA
UHGV-2054675_45	COG	COG5412	Phage-related protein	NA
UHGV-2054675_45	Structural annotation	PF20155, COG3941	NA	NA
UHGV-2054675_46	PHROG	phrog_33	distal tail protein Dit	tail
UHGV-2054675_46	eggNOG-mapper	1256908.HMPREF0373_00467	NA	NA
UHGV-2054675_46	Structural annotation	PF16774, TIGR01633, COG4722	NA	NA
UHGV-2054675_47	PHROG	phrog_538	minor tail protein	tail
UHGV-2054675_47	UniRef90	UniRef90_A0A1C5PP83	Phage-related holin (Lysis protein)	NA
UHGV-2054675_47	eggNOG-mapper	1256908.HMPREF0373_00466	NA	NA
UHGV-2054675_47	Pfam	PF14594	Siphovirus ReqiPepy6 Gp37-like protein	Sipho_Gp37
UHGV-2054675_47	Structural annotation	PF14594, TIGR01665, COG4379	NA	NA
UHGV-2054675_48	PHROG	phrog_9994	NA	unknown function
UHGV-2054675_48	UniRef90	UniRef90_UPI000E51CC95	tail fiber domain-containing protein	NA
UHGV-2054675_48	eggNOG-mapper	411468.CLOSCI_00275	NA	NA
UHGV-2054675_48	Pfam	PF13884	Chaperone of endosialidase	Peptidase_S74
UHGV-2054675_51	PHROG	phrog_1863	NA	unknown function
UHGV-2054675_51	eggNOG-mapper	665956.HMPREF1032_03922	NA	NA
UHGV-2054675_52	PHROG	phrog_1129	holin	lysis
UHGV-2054675_52	UniRef90	UniRef90_A0A356C4S4	Enolase	NA
UHGV-2054675_52	eggNOG-mapper	411461.DORFOR_00721	NA	NA
UHGV-2054675_52	Pfam	PF16079	Phage holin family Hol44, in holin superfamily V	Phage_holin_5_2
UHGV-2054675_52	Structural annotation	PF06946	NA	NA
UHGV-2054675_53	KOfam	K01447	xlyAB; N-acetylmuramoyl-L-alanine amidase [EC:3.5.1.28]	NA
UHGV-2054675_53	PHROG	phrog_35436	amidase	lysis
UHGV-2054675_53	UniRef90	UniRef90_UPI001959A1CC	N-acetylmuramoyl-L-alanine amidase	NA
UHGV-2054675_53	eggNOG-mapper	1235798.C817_04599	Ami_2	NA
UHGV-2054675_53	Pfam	PF01510	N-acetylmuramoyl-L-alanine amidase	Amidase_2
UHGV-2054675_53	Pfam	PF01471	Putative peptidoglycan binding domain	PG_binding_1
UHGV-2054675_53	COG	COG3409	Peptidoglycan-binding (PGRP) domain of peptidoglycan hydrolases	NA
UHGV-2054675_53	Structural annotation	PF01510, PF01471, MF_04111, NF008758, COG5632, COG3409	NA	NA