UHGV-0211702

Genome information

Genome length 57,473 bps

CDS count 96

Completeness 99.75% (high-quality)

geNomad score 0.9789

Prediction confidence Confident

Genome information
Genome ID	UHGV-0211702
vOTU ID	vOTU-067972
vOTU representative	Yes
Source dataset	CHVD
Original genome ID	SAMN09781774_a1_ct131695_vs1@Siphoviridae__sp._ctSWh1
BioSample	SAMN09781774
Country	Madagascar
Virus prediction confidence	Confident

Quality assessment
CheckV method	AAI-based
CheckV completeness	99.75% (high-quality)
CheckV contamination	0.00%
Trimmed provirus	No
CheckV viral markers	14
CheckV host markers	2
Recoded stop codon	No

Viral signal
geNomad score	0.9789
Virus hallmark genes (geNomad)	11
Plasmid hallmark genes (geNomad)	0
viralVerify prediction	Virus
viralVerify score	33.57
Jumbo phage	No

Genome content
Genome length	57,473 bps
GC content	48.47%
Genetic code	The standard bacterial, archaeal and plant plastid code (11)
CDS count	96
CDS density	83.94%
Average CDS length	504.75 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-0211702_1	UniRef90	UniRef90_A0A7U9PG50	tRNA_anti	NA
UHGV-0211702_1	eggNOG-mapper	1304866.K413DRAFT_0836	tRNA_anti-like	NA
UHGV-0211702_1	Pfam	PF12869	tRNA_anti-like	tRNA_anti-like
UHGV-0211702_1	Structural annotation	PF12869, MF_00720, TIGR03943, COG5235	NA	NA
UHGV-0211702_3	KOfam	K07741	antB; anti-repressor protein	NA
UHGV-0211702_3	PHROG	phrog_130	anti-repressor Ant	transcription regulation
UHGV-0211702_3	UniRef90	UniRef90_A0A8D4D1X2	Bro-N domain-containing protein	NA
UHGV-0211702_3	eggNOG-mapper	1289596.M1PKL6_9CAUD	BRO family, N-terminal domain	NA
UHGV-0211702_3	Pfam	PF02498	BRO family, N-terminal domain	Bro-N
UHGV-0211702_3	Pfam	PF03374	Phage antirepressor protein KilAC domain	ANT
UHGV-0211702_3	Structural annotation	PF02498, PF03374, TIGR02681, COG3645, COG3561	NA	NA
UHGV-0211702_4	Pfam	PF01402	Ribbon-helix-helix protein, copG family	RHH_1
UHGV-0211702_4	Structural annotation	PF01402, NF041284, COG4710	NA	NA
UHGV-0211702_7	KOfam	K14060	pinR; putative DNA-invertase from lambdoid prophage Rac	NA
UHGV-0211702_7	PHROG	phrog_125	DNA invertase	DNA, RNA and nucleotide metabolism
UHGV-0211702_7	UniRef90	UniRef90_A0A3D0LYX8	Resolvase	NA
UHGV-0211702_7	eggNOG-mapper	1410633.JHWR01000012_gene95	Resolvase, N terminal domain	NA
UHGV-0211702_7	Pfam	PF00239	Resolvase, N terminal domain	Resolvase
UHGV-0211702_7	COG	COG1961	Site-specific DNA recombinase SpoIVCA/DNA invertase PinE	NA
UHGV-0211702_7	Structural annotation	PF00239, PF02796, MF_00489, NF009949, COG1961	NA	NA
UHGV-0211702_10	PHROG	phrog_38	terminase large subunit	head and packaging
UHGV-0211702_10	UniRef90	UniRef90_UPI000419A6BC	phage terminase large subunit	NA
UHGV-0211702_10	eggNOG-mapper	1121866.AUGK01000003_gene1428	chromosome segregation	NA
UHGV-0211702_10	COG	COG5410	NA	NA
UHGV-0211702_10	Structural annotation	PF17289, PF02562, MF_04147, NF033889, COG5362, COG5410	NA	NA
UHGV-0211702_13	PHROG	phrog_64	portal protein	head and packaging
UHGV-0211702_13	UniRef90	UniRef90_A0A371ILT4	Phage portal protein	NA
UHGV-0211702_13	eggNOG-mapper	1121866.AUGK01000003_gene1429	Phage portal protein, SPP1 Gp6-like	NA
UHGV-0211702_13	Pfam	PF05133	Phage portal protein, SPP1 Gp6-like	Phage_prot_Gp6
UHGV-0211702_13	Structural annotation	PF05133, MF_04120, TIGR01538, COG5511	NA	NA
UHGV-0211702_15	PHROG	phrog_909	major head protein	head and packaging
UHGV-0211702_16	PHROG	phrog_29	major head protein	head and packaging
UHGV-0211702_16	UniRef90	UniRef90_A0A2Z4QBB4	Major capsid protein E	NA
UHGV-0211702_16	eggNOG-mapper	1347368.HG964404_gene4993	Phage major capsid protein E	NA
UHGV-0211702_16	Pfam	PF03864	Phage major capsid protein E	Phage_cap_E
UHGV-0211702_16	Structural annotation	PF03864, MF_04133, NF041162, COG4653	NA	NA
UHGV-0211702_17	UniRef90	UniRef90_R6N215	Phage QLRG family putative DNA packaging	NA
UHGV-0211702_17	Structural annotation	TIGR01560	NA	NA
UHGV-0211702_18	eggNOG-mapper	1298920.KI911353_gene2656	NA	NA
UHGV-0211702_18	Structural annotation	PF19586, TIGR01563, COG5614	NA	NA
UHGV-0211702_19	eggNOG-mapper	476272.RUMHYD_01963	NA	NA
UHGV-0211702_20	Structural annotation	PF06141, TIGR02367, COG3167	NA	NA
UHGV-0211702_21	PHROG	phrog_158	major tail protein	tail
UHGV-0211702_21	UniRef90	UniRef90_UPI001D087591	phage tail protein	NA
UHGV-0211702_21	eggNOG-mapper	1449343.JQLQ01000002_gene1514	Phage tail tube protein, TTP	NA
UHGV-0211702_21	Structural annotation	PF16463, TIGR02241, COG5437	NA	NA
UHGV-0211702_22	UniRef90	UniRef90_A0A847YX95	NA	NA
UHGV-0211702_22	eggNOG-mapper	1123263.AUKY01000015_gene1618	NA	NA
UHGV-0211702_22	Pfam	PF16478	NA	DUF5055
UHGV-0211702_22	Structural annotation	PF16478	NA	NA
UHGV-0211702_23	eggNOG-mapper	1121333.JMLH01000047_gene1011	NA	NA
UHGV-0211702_24	PHROG	phrog_1535	tail length tape measure protein	tail
UHGV-0211702_24	eggNOG-mapper	1121866.AUGK01000003_gene1437	phage tail tape measure protein	NA
UHGV-0211702_24	COG	COG1280	Threonine/homoserine/homoserine lactone efflux protein	NA
UHGV-0211702_25	PHROG	phrog_1194	NA	unknown function
UHGV-0211702_25	eggNOG-mapper	665956.HMPREF1032_03629	NA	NA
UHGV-0211702_25	Pfam	PF20458	NA	DUF6711
UHGV-0211702_25	Structural annotation	PF20458, TIGR02126, COG3499	NA	NA
UHGV-0211702_26	PHROG	phrog_13879	NA	unknown function
UHGV-0211702_26	eggNOG-mapper	1122919.KB905559_gene1344	NA	NA
UHGV-0211702_26	Pfam	PF19789	NA	DUF6273
UHGV-0211702_26	Structural annotation	PF14594, PF19789, PF03256, PF09134, NF033848, COG3500, COG5156	NA	NA
UHGV-0211702_27	PHROG	phrog_18725	NA	unknown function
UHGV-0211702_27	eggNOG-mapper	1226322.HMPREF1545_00062	NA	NA
UHGV-0211702_29	PHROG	phrog_10993	Hoc-like head decoration	head and packaging
UHGV-0211702_29	UniRef90	UniRef90_A0A396LJB4	Fibronectin type III domain-containing protein	NA
UHGV-0211702_29	eggNOG-mapper	718252.FP2_16970	NA	NA
UHGV-0211702_29	Pfam	PF19789	NA	DUF6273
UHGV-0211702_29	Structural annotation	PF19789	NA	NA
UHGV-0211702_30	KOfam	K07273	acm; lysozyme	NA
UHGV-0211702_30	PHROG	phrog_291	endolysin	lysis
UHGV-0211702_30	UniRef90	UniRef90_A0A564U0D3	Autolytic lysozyme	NA
UHGV-0211702_30	eggNOG-mapper	718252.FP2_04890	hydrolase, family 25	NA
UHGV-0211702_30	Pfam	PF01183	Glycosyl hydrolases family 25	Glyco_hydro_25
UHGV-0211702_30	COG	COG3757	Lyzozyme M1 (1,4-beta-N-acetylmuramidase), GH25 family	NA
UHGV-0211702_30	Structural annotation	PF01183, NF007404, COG3757	NA	NA
UHGV-0211702_32	PHROG	phrog_15303	NA	unknown function
UHGV-0211702_34	PHROG	phrog_5765	NA	unknown function
UHGV-0211702_34	UniRef90	UniRef90_UPI001D0EF465	BC1881 family protein	NA
UHGV-0211702_34	eggNOG-mapper	748727.CLJU_c31430	NA	NA
UHGV-0211702_34	NCBIFam	NF033495.1	BC1881 family protein	NA
UHGV-0211702_37	PHROG	phrog_16490	NA	unknown function
UHGV-0211702_37	eggNOG-mapper	1408437.JNJN01000043_gene803	NA	NA
UHGV-0211702_38	eggNOG-mapper	1408437.JNJN01000043_gene802	NA	NA
UHGV-0211702_39	eggNOG-mapper	1378168.N510_03079	NA	NA
UHGV-0211702_40	eggNOG-mapper	1415774.U728_1699	NA	NA
UHGV-0211702_41	PHROG	phrog_7070	NA	unknown function
UHGV-0211702_41	eggNOG-mapper	1195072.M4HPW0_9CAUD	NA	NA
UHGV-0211702_44	Structural annotation	PF07878	NA	NA
UHGV-0211702_46	KOfam	K03496	parA, soj; chromosome partitioning protein	NA
UHGV-0211702_46	PHROG	phrog_164	ParA-like partition protein	DNA, RNA and nucleotide metabolism
UHGV-0211702_46	UniRef90	UniRef90_A0A1C6BS15	Sporulation initiation inhibitor protein soj	NA
UHGV-0211702_46	eggNOG-mapper	1408423.JHYA01000021_gene392	Cellulose biosynthesis protein BcsQ	NA
UHGV-0211702_46	Pfam	PF13614	AAA domain	AAA_31
UHGV-0211702_46	COG	COG1192	ParA-like ATPase involved in chromosome/plasmid partitioning or cellulose biosynthesis protein BcsQ	NA
UHGV-0211702_46	Structural annotation	PF13614, MF_00533, NF010443, COG1192	NA	NA
UHGV-0211702_48	PHROG	phrog_4402	replication initiation protein	DNA, RNA and nucleotide metabolism
UHGV-0211702_48	UniRef90	UniRef90_A0A0H5Q331	Rep_3 domain-containing protein	NA
UHGV-0211702_48	eggNOG-mapper	999413.HMPREF1094_04438	Initiator Replication protein	NA
UHGV-0211702_48	Pfam	PF01051	Initiator Replication protein, WH1	Rep3_N
UHGV-0211702_48	Pfam	PF21205	Initiator Rep protein, WH2	Rep3_C
UHGV-0211702_48	COG	COG5527	Protein involved in initiation of plasmid replication	NA
UHGV-0211702_48	Structural annotation	PF01051, PF21205, NF010305, COG5527	NA	NA
UHGV-0211702_49	PHROG	phrog_1373	transcriptional regulator	transcription regulation
UHGV-0211702_49	UniRef90	UniRef90_A0A2A7B6N3	HTH cro/C1-type domain-containing protein	NA
UHGV-0211702_49	Pfam	PF01381	Helix-turn-helix	HTH_3
UHGV-0211702_49	Structural annotation	PF13560, MF_00535, NF041951, COG1476	NA	NA
UHGV-0211702_53	PHROG	phrog_8	transcriptional regulator	transcription regulation
UHGV-0211702_53	UniRef90	UniRef90_A0A1C6D4U5	Helix-turn-helix domain	NA
UHGV-0211702_53	eggNOG-mapper	693746.OBV_43290	addiction module antidote protein HigA	NA
UHGV-0211702_53	Pfam	PF13443	Cro/C1-type HTH DNA-binding domain	HTH_26
UHGV-0211702_53	COG	COG3093	Plasmid maintenance system antidote protein VapI, contains XRE-type HTH domain	NA
UHGV-0211702_53	Structural annotation	PF01381, MF_00535, NF041951, COG3655	NA	NA
UHGV-0211702_54	PHROG	phrog_1468	transcriptional repressor	transcription regulation
UHGV-0211702_54	UniRef90	UniRef90_A0A8J6LUU7	XRE family transcriptional regulator	NA
UHGV-0211702_54	eggNOG-mapper	428125.CLOLEP_02737	NA	NA
UHGV-0211702_54	Structural annotation	TIGR03070	NA	NA
UHGV-0211702_55	PHROG	phrog_4652	NA	unknown function
UHGV-0211702_55	UniRef90	UniRef90_A0A0P0DZ87	Cubilin	NA
UHGV-0211702_55	eggNOG-mapper	397290.C810_01459	NA	NA
UHGV-0211702_55	Structural annotation	TIGR02582, COG1604	NA	NA
UHGV-0211702_56	PHROG	phrog_15946	NA	unknown function
UHGV-0211702_56	eggNOG-mapper	1041147.AUFB01000014_gene330	NA	NA
UHGV-0211702_57	Structural annotation	PF10922	NA	NA
UHGV-0211702_60	Pfam	PF13443	Cro/C1-type HTH DNA-binding domain	HTH_26
UHGV-0211702_60	Structural annotation	PF13443, TIGR02684, COG1476	NA	NA
UHGV-0211702_61	Structural annotation	PF14143	NA	NA
UHGV-0211702_62	KOfam	K07738	nrdR; transcriptional repressor NrdR	NA
UHGV-0211702_62	eggNOG-mapper	870187.Thini_0915	Negatively regulates transcription of bacterial ribonucleotide reductase nrd genes and operons by binding to NrdR- boxes	NA
UHGV-0211702_62	Pfam	PF01096	Transcription factor S-II (TFIIS)	TFIIS_C
UHGV-0211702_62	COG	COG1327	Transcriptional regulator NrdR, contains Zn-ribbon and ATP-cone domains	NA
UHGV-0211702_62	Structural annotation	PF04606, NF007241	NA	NA
UHGV-0211702_64	Pfam	PF13451	Probable zinc-ribbon domain	zf-trcl
UHGV-0211702_64	COG	COG5529	Phage-encoded DNA-binding protein ECs1768, contains HTH and DnaT DNA-binding domains	NA
UHGV-0211702_64	Structural annotation	PF13451	NA	NA
UHGV-0211702_65	PHROG	phrog_155	Erf-like ssDNA annealing protein	DNA, RNA and nucleotide metabolism
UHGV-0211702_65	UniRef90	UniRef90_E2ZNS9	Erf family protein	NA
UHGV-0211702_65	eggNOG-mapper	748224.HMPREF9436_03360	ERF superfamily	NA
UHGV-0211702_65	Pfam	PF04404	ERF superfamily	ERF
UHGV-0211702_65	Structural annotation	PF04404, COG4712	NA	NA
UHGV-0211702_66	KOfam	K03111	ssb; single-strand DNA-binding protein	NA
UHGV-0211702_66	PHROG	phrog_44	single strand DNA binding protein	DNA, RNA and nucleotide metabolism
UHGV-0211702_66	UniRef90	UniRef90_A0A6N7TNV3	Single-stranded DNA-binding protein	NA
UHGV-0211702_66	eggNOG-mapper	748224.HMPREF9436_03359	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-0211702_66	Pfam	PF00436	Single-strand binding protein family	SSB
UHGV-0211702_66	NCBIFam	TIGR00621.2	single-stranded DNA-binding protein	NA
UHGV-0211702_66	COG	COG0629	Single-stranded DNA-binding protein	NA
UHGV-0211702_66	HAMAP	MF_00984	Single-stranded DNA-binding protein	NA
UHGV-0211702_66	Structural annotation	PF00436, MF_00984, NF005241, COG0629	NA	NA
UHGV-0211702_68	PHROG	phrog_843	Holliday junction resolvase	DNA, RNA and nucleotide metabolism
UHGV-0211702_68	UniRef90	UniRef90_UPI001159D907	Holliday junction resolvase RecU	NA
UHGV-0211702_68	eggNOG-mapper	929506.CbC4_1203	Endonuclease that resolves Holliday junction intermediates in genetic recombination. Cleaves mobile four-strand junctions by introducing symmetrical nicks in paired strands. Promotes annealing of linear ssDNA with homologous dsDNA. Required for DNA repair, homologous recombination and chromosome segregation	NA
UHGV-0211702_68	Structural annotation	PF03838, MF_00130, NF002581, COG3331	NA	NA
UHGV-0211702_70	UniRef90	UniRef90_A0A1I0VIB3	MazG nucleotide pyrophosphohydrolase domain-containing protein	NA
UHGV-0211702_70	Structural annotation	PF11998, COG5420	NA	NA
UHGV-0211702_71	KOfam	K00390	cysH; phosphoadenosine phosphosulfate reductase [EC:1.8.4.8 1.8.4.10]	NA
UHGV-0211702_71	PHROG	phrog_424	phosphoadenosine phosphosulfate reductase	moron, auxiliary metabolic gene and host takeover
UHGV-0211702_71	UniRef90	UniRef90_A0A1Y4LU27	Adenylyl-sulfate reductase	NA
UHGV-0211702_71	eggNOG-mapper	1408437.JNJN01000032_gene2312	Phosphoadenosine phosphosulfate reductase	NA
UHGV-0211702_71	PADLOC	BrxP_00001	BrxP	BREX
UHGV-0211702_71	Pfam	PF01507	Phosphoadenosine phosphosulfate reductase family	PAPS_reduct
UHGV-0211702_71	COG	COG0175	3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase or related enzyme	NA
UHGV-0211702_71	Structural annotation	PF01507, MF_00063, NF010369, COG0175	NA	NA
UHGV-0211702_73	Structural annotation	MF_00085, NF003076, COG0231	NA	NA
UHGV-0211702_75	Structural annotation	PF16677	NA	NA
UHGV-0211702_77	KOfam	K14060	pinR; putative DNA-invertase from lambdoid prophage Rac	NA
UHGV-0211702_77	PHROG	phrog_125	DNA invertase	DNA, RNA and nucleotide metabolism
UHGV-0211702_77	UniRef90	UniRef90_A0A1Y4KU01	Resolvase	NA
UHGV-0211702_77	eggNOG-mapper	742738.HMPREF9460_01133	Resolvase, N terminal domain	NA
UHGV-0211702_77	Pfam	PF00239	Resolvase, N terminal domain	Resolvase
UHGV-0211702_77	Pfam	PF05225	helix-turn-helix, Psq domain	HTH_psq
UHGV-0211702_77	COG	COG1961	Site-specific DNA recombinase SpoIVCA/DNA invertase PinE	NA
UHGV-0211702_78	UniRef90	UniRef90_UPI0012DD33A2	restriction endonuclease subunit M	NA
UHGV-0211702_78	eggNOG-mapper	596329.HMPREF0631_0252	restriction endonuclease	NA
UHGV-0211702_78	PADLOC	MTase_II_00176	Type II methyltransferase	RM
UHGV-0211702_78	COG	COG1002	Type II restriction/modification system, endonuclease and methylase domains	NA
UHGV-0211702_79	PHROG	phrog_24386	NA	unknown function
UHGV-0211702_79	eggNOG-mapper	742740.HMPREF9474_02291	phosphatase activity	NA
UHGV-0211702_79	COG	COG0561	Hydroxymethylpyrimidine pyrophosphatase and other HAD family phosphatases	NA
UHGV-0211702_84	Structural annotation	NF041588	NA	NA
UHGV-0211702_88	PHROG	phrog_599	Lar-like restriction alleviation protein	moron, auxiliary metabolic gene and host takeover
UHGV-0211702_88	eggNOG-mapper	1162295.I1TRA6_9CAUD	Restriction alleviation protein Lar	NA
UHGV-0211702_88	Pfam	PF14354	Restriction alleviation protein Lar	Lar_restr_allev
UHGV-0211702_88	NCBIFam	TIGR03655.1	Lar family restriction alleviation protein	NA
UHGV-0211702_88	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-0211702_88	Structural annotation	PF14354, TIGR03655	NA	NA
UHGV-0211702_89	PHROG	phrog_678	replication initiation O-like	DNA, RNA and nucleotide metabolism
UHGV-0211702_89	Pfam	PF19808	NA	DUF6291
UHGV-0211702_89	Structural annotation	PF19808	NA	NA
UHGV-0211702_90	KOfam	K02314	dnaB; replicative DNA helicase [EC:5.6.2.3]	NA
UHGV-0211702_90	PHROG	phrog_19	DnaB-like replicative helicase	DNA, RNA and nucleotide metabolism
UHGV-0211702_90	UniRef90	UniRef90_A0A564SBR1	Replicative DNA helicase	NA
UHGV-0211702_90	eggNOG-mapper	1203606.HMPREF1526_01325	Participates in initiation and elongation during chromosome replication	NA
UHGV-0211702_90	Pfam	PF03796	DnaB-like helicase C terminal domain	DnaB_C
UHGV-0211702_90	COG	COG0305	Replicative DNA helicase	NA
UHGV-0211702_90	Structural annotation	PF03796, PF00772, MF_04155, TIGR00665, COG0305	NA	NA
UHGV-0211702_92	UniRef90	UniRef90_A0A415LIU5	RepA_N domain-containing protein	NA
UHGV-0211702_92	eggNOG-mapper	1189612.A33Q_3266	NA	NA
UHGV-0211702_92	Pfam	PF06970	Replication initiator protein A (RepA) N-terminus	RepA_N
UHGV-0211702_92	Structural annotation	PF06970, MF_01177, NF040642, COG5625	NA	NA
UHGV-0211702_93	eggNOG-mapper	1304866.K413DRAFT_4686	NA	NA
UHGV-0211702_94	eggNOG-mapper	1235792.C808_01237	NA	NA
UHGV-0211702_95	PHROG	phrog_434	RecE-like recombination exonuclease	DNA, RNA and nucleotide metabolism
UHGV-0211702_95	eggNOG-mapper	1378168.N510_00538	NA	NA