UHGV-0199038

Genome information

Genome length 35,670 bps

CDS count 52

Completeness 59.25% (medium-quality)

geNomad score 0.9781

Prediction confidence Confident

Genome information
Genome ID	UHGV-0199038
vOTU ID	vOTU-022462
vOTU representative	Yes
Source dataset	CHVD
Original genome ID	SAMN09781741_a1_ct30712_vs1@Siphoviridae__sp._ctoss1
BioSample	SAMN09781741
Country	Madagascar
Virus prediction confidence	Confident

Quality assessment
CheckV method	HMM-based
CheckV completeness	59.25% (medium-quality)
CheckV contamination	0.00%
Trimmed provirus	No
CheckV viral markers	14
CheckV host markers	1
Recoded stop codon	No

Viral signal
geNomad score	0.9781
Virus hallmark genes (geNomad)	10
Plasmid hallmark genes (geNomad)	0
viralVerify prediction	Virus
viralVerify score	20.33
Jumbo phage	No

Genome content
Genome length	35,670 bps
GC content	35.83%
Genetic code	The standard bacterial, archaeal and plant plastid code (11)
CDS count	52
CDS density	94.25%
Average CDS length	650.65 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-0199038_1	UniRef90	UniRef90_A0A1E5L8V0	HTH cro/C1-type domain-containing protein	NA
UHGV-0199038_1	eggNOG-mapper	118168.MC7420_7928	Helix-turn-helix domain	NA
UHGV-0199038_1	PADLOC	Control_protein_00002	control protein	RM
UHGV-0199038_1	Pfam	PF01381	Helix-turn-helix	HTH_3
UHGV-0199038_1	COG	COG1396	Transcriptional regulator, contains XRE-family HTH domain	NA
UHGV-0199038_3	KOfam	K18830	pezA; HTH-type transcriptional regulator / antitoxin PezA	NA
UHGV-0199038_3	PHROG	phrog_2967	transcriptional regulator	transcription regulation
UHGV-0199038_3	UniRef90	UniRef90_A0A316NZB6	HTH cro/C1-type domain-containing protein	NA
UHGV-0199038_3	eggNOG-mapper	1226325.HMPREF1548_06748	Helix-turn-helix XRE-family like proteins	NA
UHGV-0199038_3	Pfam	PF01381	Helix-turn-helix	HTH_3
UHGV-0199038_3	Pfam	PF13443	Cro/C1-type HTH DNA-binding domain	HTH_26
UHGV-0199038_3	NCBIFam	NF041951.1	RstR family transcriptional repressor	NA
UHGV-0199038_3	COG	COG1396	Transcriptional regulator, contains XRE-family HTH domain	NA
UHGV-0199038_3	Structural annotation	PF12844, PF13744, MF_00535, NF041951, NF007257, COG1476, COG5499	NA	NA
UHGV-0199038_6	PHROG	phrog_16826	DnaD-like helicase loader	DNA, RNA and nucleotide metabolism
UHGV-0199038_6	UniRef90	UniRef90_A0A1Q6TYQ9	Phage_rep_O domain-containing protein	NA
UHGV-0199038_6	eggNOG-mapper	1121422.AUMW01000021_gene1660	Bacteriophage replication protein O	NA
UHGV-0199038_6	Pfam	PF04492	Bacteriophage replication protein O	Phage_rep_O
UHGV-0199038_6	Structural annotation	PF04492, TIGR01610, COG3388	NA	NA
UHGV-0199038_7	KOfam	K02315	dnaC; DNA replication protein DnaC	NA
UHGV-0199038_7	PHROG	phrog_50	DnaC-like helicase loader	DNA, RNA and nucleotide metabolism
UHGV-0199038_7	UniRef90	UniRef90_A0A843HM17	ATP-binding protein	NA
UHGV-0199038_7	eggNOG-mapper	469617.FUAG_03224	IstB-like ATP binding protein	NA
UHGV-0199038_7	Pfam	PF01695	IstB-like ATP binding protein	IstB_IS21
UHGV-0199038_7	COG	COG1484	DNA replication protein DnaC	NA
UHGV-0199038_7	Structural annotation	PF01695, MF_00377, NF005992, COG1484	NA	NA
UHGV-0199038_8	KOfam	K03111	ssb; single-strand DNA-binding protein	NA
UHGV-0199038_8	PHROG	phrog_44	single strand DNA binding protein	DNA, RNA and nucleotide metabolism
UHGV-0199038_8	UniRef90	UniRef90_A0A0V7ZRQ7	Single-stranded DNA-binding protein	NA
UHGV-0199038_8	eggNOG-mapper	221288.JH992901_gene5539	Single-strand binding protein family	NA
UHGV-0199038_8	Pfam	PF00436	Single-strand binding protein family	SSB
UHGV-0199038_8	NCBIFam	TIGR00621.2	single-stranded DNA-binding protein	NA
UHGV-0199038_8	COG	COG0629	Single-stranded DNA-binding protein	NA
UHGV-0199038_8	Structural annotation	PF00436, MF_00984, NF005241, COG0629	NA	NA
UHGV-0199038_9	KOfam	K07685	narP; two-component system, NarL family, nitrate/nitrite response regulator NarP	NA
UHGV-0199038_9	UniRef90	UniRef90_UPI0011CB9812	response regulator transcription factor	NA
UHGV-0199038_9	eggNOG-mapper	1414720.CBYM010000011_gene2628	helix_turn_helix, Lux Regulon	NA
UHGV-0199038_9	Pfam	PF00196	Bacterial regulatory proteins, luxR family	GerE
UHGV-0199038_9	COG	COG2197	DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains	NA
UHGV-0199038_11	KOfam	K00571	E2.1.1.72; site-specific DNA-methyltransferase (adenine-specific) [EC:2.1.1.72]	NA
UHGV-0199038_11	PHROG	phrog_23224	DNA methyltransferase	other
UHGV-0199038_11	UniRef90	UniRef90_A0A6B9LAD6	DNA methyltransferase	NA
UHGV-0199038_11	eggNOG-mapper	1335760.ASTG01000033_gene36	N-4 methylation of cytosine	NA
UHGV-0199038_11	PADLOC	MTase_II_00172	Type II methyltransferase	RM
UHGV-0199038_11	Pfam	PF01555	DNA methylase	N6_N4_Mtase
UHGV-0199038_11	COG	COG0863	DNA modification methylase	NA
UHGV-0199038_11	Structural annotation	PF01555, MF_01872, NF010253, COG0863	NA	NA
UHGV-0199038_12	PHROG	phrog_415	polynucleotide kinase	other
UHGV-0199038_12	eggNOG-mapper	553178.CAPGI0001_2485	NA	NA
UHGV-0199038_12	Pfam	PF03767	HAD superfamily, subfamily IIIB (Acid phosphatase)	Acid_phosphat_B
UHGV-0199038_12	COG	COG4639	Predicted kinase	NA
UHGV-0199038_12	Structural annotation	PF08235, MF_01250, TIGR01680, COG2503	NA	NA
UHGV-0199038_17	eggNOG-mapper	428127.EUBDOL_01514	NA	NA
UHGV-0199038_23	PHROG	phrog_2776	NA	unknown function
UHGV-0199038_23	Pfam	PF06319	DNA repair protein MmcB-like	MmcB-like
UHGV-0199038_29	Structural annotation	PF16784, NF007281	NA	NA
UHGV-0199038_30	KOfam	K22014	Nu1, Noh; terminase small subunit / prophage DNA-packing protein	NA
UHGV-0199038_30	PHROG	phrog_57	terminase small subunit	head and packaging
UHGV-0199038_30	UniRef90	UniRef90_A0A2E7K475	Terminase small subunit, Nu1	NA
UHGV-0199038_30	eggNOG-mapper	1125863.JAFN01000001_gene3545	transposase activity	NA
UHGV-0199038_30	COG	COG4220	Phage DNA packaging protein, Nu1 subunit of terminase	NA
UHGV-0199038_30	Structural annotation	PF07471, NF040990, COG4220	NA	NA
UHGV-0199038_31	KOfam	K21512	gpA; terminase, large subunit [EC:3.1.21.4]	NA
UHGV-0199038_31	PHROG	phrog_15	terminase large subunit	head and packaging
UHGV-0199038_31	UniRef90	UniRef90_UPI00046CBD1A	phage terminase large subunit family protein	NA
UHGV-0199038_31	eggNOG-mapper	198467.NP92_02805	Phage terminase large subunit (GpA)	NA
UHGV-0199038_31	Pfam	PF05876	Phage terminase large subunit gpA, ATPase domain	GpA_ATPase
UHGV-0199038_31	Pfam	PF20454	Terminase large subunit gpA, endonuclease domain	GpA_nuclease
UHGV-0199038_31	COG	COG5525	Phage terminase, large subunit GpA	NA
UHGV-0199038_31	HAMAP	MF_04144	Terminase, large subunit	NA
UHGV-0199038_31	Structural annotation	PF05876, PF20454, MF_04144, TIGR01547, COG5525	NA	NA
UHGV-0199038_32	PHROG	phrog_5774	head-tail joining	connector
UHGV-0199038_32	eggNOG-mapper	225937.HP15_672	NA	NA
UHGV-0199038_33	PHROG	phrog_21	portal protein	head and packaging
UHGV-0199038_33	UniRef90	UniRef90_D5LH02	Putative phage capsid protein	NA
UHGV-0199038_33	eggNOG-mapper	1541883.A0A088FVG5_9CAUD	virion assembly	NA
UHGV-0199038_33	Pfam	PF05136	Phage portal protein, lambda family	Phage_portal_2
UHGV-0199038_33	NCBIFam	TIGR01539.1	phage portal protein	NA
UHGV-0199038_33	Structural annotation	PF05136, MF_04135, TIGR01539, COG5511	NA	NA
UHGV-0199038_34	KOfam	K01358	clpP, CLPP; ATP-dependent Clp protease, protease subunit [EC:3.4.21.92]	NA
UHGV-0199038_34	PHROG	phrog_617	major head protein	head and packaging
UHGV-0199038_34	UniRef90	UniRef90_D5LH01	Putative phage major capsid protein	NA
UHGV-0199038_34	eggNOG-mapper	1541883.A0A088FRT0_9CAUD	N-acetylmuramoyl-L-alanine amidase activity	NA
UHGV-0199038_34	Pfam	PF00574	Clp protease	CLP_protease
UHGV-0199038_34	Pfam	PF05065	Phage capsid family	Phage_capsid
UHGV-0199038_34	NCBIFam	TIGR01554.2	phage major capsid protein	NA
UHGV-0199038_36	PHROG	phrog_82	head closure Hc1	connector
UHGV-0199038_36	eggNOG-mapper	391619.PGA1_c18380	NA	NA
UHGV-0199038_38	PHROG	phrog_1072	NA	unknown function
UHGV-0199038_38	eggNOG-mapper	391619.PGA1_c18360	NA	NA
UHGV-0199038_39	PHROG	phrog_88	major tail protein	tail
UHGV-0199038_39	UniRef90	UniRef90_A0A0T6LRL5	Phage tail protein	NA
UHGV-0199038_39	eggNOG-mapper	562743.JH976434_gene1009	phage major tail protein, phi13 family	NA
UHGV-0199038_39	NCBIFam	TIGR01603.1	major tail protein	NA
UHGV-0199038_39	Structural annotation	PF04630, TIGR01603, COG5437	NA	NA
UHGV-0199038_42	PHROG	phrog_9959	tail length tape measure protein	tail
UHGV-0199038_42	UniRef90	UniRef90_A0A8D9PAQ0	TMP_3 domain-containing protein	NA
UHGV-0199038_42	eggNOG-mapper	945713.IALB_0073	tape measure	NA
UHGV-0199038_42	Pfam	PF20155	Tape measure protein	TMP_3
UHGV-0199038_42	NCBIFam	TIGR02675.1	tape measure protein	NA
UHGV-0199038_42	COG	COG3941	Phage tail tape-measure protein, controls tail length	NA
UHGV-0199038_42	Structural annotation	PF20155, TIGR01760, NF033930, COG3941	NA	NA
UHGV-0199038_44	Pfam	PF09343	NA	DUF2460
UHGV-0199038_44	COG	COG4672	Phage tail protein	NA
UHGV-0199038_44	Structural annotation	PF09931, PF05939, PF06995, TIGR01600, COG4672, COG4718, COG3499	NA	NA
UHGV-0199038_45	Structural annotation	PF00877, TIGR02219, COG3271	NA	NA
UHGV-0199038_46	PHROG	phrog_31	baseplate hub protein Tal	tail
UHGV-0199038_46	UniRef90	UniRef90_R6PHE2	Phage-tail_3 domain-containing protein	NA
UHGV-0199038_46	eggNOG-mapper	1122947.FR7_2540	cellulase activity	NA
UHGV-0199038_46	Pfam	PF13550	Putative phage tail protein	Phage-tail_3
UHGV-0199038_46	COG	COG4733	Phage-related protein, tail protein J	NA
UHGV-0199038_46	Structural annotation	PF13550, PF16323, PF20086, NF040662, NF010681, COG4733	NA	NA
UHGV-0199038_47	PHROG	phrog_5302	tail protein	tail
UHGV-0199038_47	UniRef90	UniRef90_A0A345BPB9	Lectin	NA
UHGV-0199038_47	eggNOG-mapper	665956.HMPREF1032_00690	NA	NA
UHGV-0199038_47	Structural annotation	PF16323, COG3979	NA	NA
UHGV-0199038_48	KOfam	K00986	ltrA; RNA-directed DNA polymerase [EC:2.7.7.49]	NA
UHGV-0199038_48	PHROG	phrog_1423	Reverse transcriptase	DNA, RNA and nucleotide metabolism
UHGV-0199038_48	UniRef90	UniRef90_R7I1Z4	Reverse transcriptase domain-containing protein	NA
UHGV-0199038_48	eggNOG-mapper	742741.HMPREF9475_00439	Reverse transcriptase (RNA-dependent DNA polymerase)	NA
UHGV-0199038_48	PADLOC	icity0040	RT (reverse transcriptase)	CRISPR-CAS
UHGV-0199038_48	Pfam	PF00078	Reverse transcriptase (RNA-dependent DNA polymerase)	RVT_1
UHGV-0199038_48	COG	COG3344	Retron-type reverse transcriptase	NA
UHGV-0199038_48	Structural annotation	PF00078, MF_01390, TIGR04416, COG3344	NA	NA
UHGV-0199038_49	Structural annotation	PF14301	NA	NA
UHGV-0199038_52	Structural annotation	NF007458	NA	NA