halophFGD

Basic Information

Locus ID: Ag2G01452

Species & Taxonomic ID: Apium graveolens & 4045

Genome Assembly: GCA_009905375.1

Description: zinc finger

Maps and Mapping Data

Chromosome	Start	End	Strand	ID
chr2	112666723	112669044	+	Ag2G01452

Protein Data

Protein Properties:

Theoretical pI	Molecular Weight	Instability Index	Aliphatic Index	GRAVY
5.83	46,871.80 Da	65.28	71.47	-0.77

Protein Domain:

Category	ID	Description	Start	End	Evalue/Score	InterPro ID
CDD	cd16745	RING-HC_AtRMA_like	137	181	1.20017E-30	-
Pfam	PF13923	Zinc finger, C3HC4 type (RING finger)	139	179	1.2E-7	-
SUPERFAMILY	SSF57850	RING/U-box	134	192	8.64E-18	-
Gene3D	G3DSA:3.30.40.10	Zinc/RING finger domain, C3HC4 (zinc finger)	116	224	1.5E-17	IPR013083
SMART	SM00184	ring_2	139	179	3.0E-8	IPR001841
ProSiteProfiles	PS50089	Zinc finger RING-type profile.	139	180	13.477729	IPR001841
ProSitePatterns	PS00518	Zinc finger RING-type signature.	154	163	-	IPR017907
MobiDBLite	mobidb-lite	consensus disorder prediction	387	416	-	-
MobiDBLite	mobidb-lite	consensus disorder prediction	384	416	-	-

KEGG Pathway

KO Term:

K10666 (E3 ubiquitin-protein ligase RNF5/185 [EC:2.3.2.27])

Pathway:

ko04141 (Protein processing in endoplasmic reticulum) map04141 (Protein processing in endoplasmic reticulum)

Best hit

Source	Best Hit ID	Description
TAIR	AT3G58030.1	RING/U-box superfamily protein.
RefSeq	XP_017253396.1	PREDICTED: uncharacterized protein LOC108223586 [Daucus carota subsp. sativus]
Swiss-Prot	Q99942	E3 ubiquitin-protein ligase RNF5 OS=Homo sapiens OX=9606 GN=RNF5 PE=1 SV=1
TrEMBL	A0A161YK92	RING-type E3 ubiquitin transferase OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_017034 PE=4 SV=1

Expression

BioProject	Accession	TPM	Cultivar	Tissue	Development Stage	Sample Name	Description
PRJNA723697	SRX10692252	32.852779	Shengqin NO.2	seed	S1-1	S1-1	initial formation stage (S1)
PRJNA723697	SRX10692254	26.909719	Shengqin NO.2	seed	S1-3	S1-3	initial formation stage (S1)
PRJNA723697	SRX10692255	25.08699	Shengqin NO.2	seed	S3-1	S3-1	middle development stage (S3)
PRJNA723697	SRX10692256	24.242495	Shengqin NO.2	seed	S3-2	S3-2	middle development stage (S3)
PRJNA723697	SRX10692257	25.635353	Shengqin NO.2	seed	S3-3	S3-3	middle development stage (S3)
PRJNA723697	SRX10692258	23.890326	Shengqin NO.2	seed	S5-1	S5-1	maturation stage (S5)
PRJNA723697	SRX10692259	26.878338	Shengqin NO.2	seed	S5-2	S5-2	maturation stage (S5)
PRJNA723697	SRX10692260	18.537466	Shengqin NO.2	seed	S5-3	S5-3	maturation stage (S5)
PRJNA884666	SRX17729272	46.211349	celery	anther		W99A-r1	male sterile lineÂ
PRJNA884666	SRX17729273	42.945423	celery	anther		W99A-r2	male sterile lineÂ
PRJNA884666	SRX17729274	49.940552	celery	anther		W99A-r3	male sterile lineÂ
PRJNA884666	SRX17729275	44.339539	celery	anther		W99B-r1	maintainer line
PRJNA884666	SRX17729276	44.534924	celery	anther		W99B-r2	maintainer line
PRJNA884666	SRX17729277	37.624344	celery	anther		W99B-r3	maintainer line
PRJNA884180	SRX17743889	19.879398	var. secalinum Yablochny	collenchyma		Col_S1_rep1-1
PRJNA884180	SRX17748056	17.641481	var. secalinum Yablochny	collenchyma		Col_S1_rep3	biological replicate 3
PRJNA884180	SRX17748057	17.626846	var. secalinum Yablochny	collenchyma		Col_S1_rep4	biological replicate 4
PRJNA884180	SRX17748678	25.175777	var. secalinum Yablochny	parenchyma		Par_S1_rep1	Biological replicate 1
PRJNA884180	SRX17748679	20.469666	var. secalinum Yablochny	parenchyma		Par_S1_rep2	Biological replicate 2
PRJNA884180	SRX17748680	25.915615	var. secalinum Yablochny	parenchyma		Par_S1_rep3	Biological replicate 3
PRJNA884180	SRX17748681	27.52931	var. secalinum Yablochny	parenchyma		Par_S1_rep4	Biological replicate 4
PRJNA884180	SRX17748898	27.144405	var. secalinum Yablochny	vascular bundle		Vas_S1_rep1	Biological replicate 1
PRJNA884180	SRX17748899	19.751596	var. secalinum Yablochny	vascular bundle		Vas_S1_rep2	Biological replicate 2
PRJNA884180	SRX17748900	19.88888	var. secalinum Yablochny	vascular bundle		Vas_S1_rep3	Biological replicate 3
PRJNA884180	SRX17748901	21.442453	var. secalinum Yablochny	vascular bundle		Vas_S1_rep4	Biological replicate 4
PRJNA884180	SRX17749129	22.124153	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep1	Biological replicate 1
PRJNA884180	SRX17749130	19.21191	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep2	Biological replicate 2
PRJNA884180	SRX17749131	20.840101	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep3	Biological replicate 3
PRJNA884180	SRX17749132	20.346996	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep4	Biological replicate 4
PRJNA1124269	SRX24936411	21.967962		leaf		CK1	replicate=biological replicate1
PRJNA1124269	SRX24936412	23.533598		leaf		CK2	replicate=biological replicate2
PRJNA1124269	SRX24936413	23.339914		leaf		CK3	replicate=biological replicate3
PRJNA1124269	SRX24936414	47.340984		leaf		D1	replicate=biological replicate1
PRJNA1124269	SRX24936415	31.845417		leaf		D2	replicate=biological replicate2
PRJNA1124269	SRX24936416	41.345741		leaf		D3	replicate=biological replicate3
PRJNA1124269	SRX24936417	45.298328		leaf		MD1	replicate=biological replicate1
PRJNA1124269	SRX24936418	26.717194		leaf		MD2	replicate=biological replicate2
PRJNA1124269	SRX24936419	33.019966		leaf		MD3	replicate=biological replicate3
PRJNA387092	SRX2833309	20.522358	shanghaihuangxin	leaf	leaves between 0.5 and 1 cm in breadth, folded;	stage 2
PRJNA387092	SRX2833321	18.932238	shanghaihuangxin	leaf	leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion	stage 5
PRJNA387092	SRX2833323	17.204559	shanghaihuangxin	leaf	leaves >3 cm, unfolded, with clearstem extension	stage 7
PRJNA543957	SRX5879598	41.615036	Zhangzhou lvqing	stem		Se3	100 ppm Na2SeO4
PRJNA543957	SRX5879599	37.664925	Zhangzhou lvqing	stem		Se2	100 ppm Na2SeO4
PRJNA543957	SRX5879600	62.265263	Zhangzhou lvqing	stem		Mock2	mock
PRJNA543957	SRX5879601	53.018726	Zhangzhou lvqing	stem		Mock1	mock
PRJNA543957	SRX5879602	34.766895	Zhangzhou lvqing	stem		Se1	100 ppm Na2SeO4
PRJNA543957	SRX5879603	49.971249	Zhangzhou lvqing	stem		Mock3	mock
PRJNA609149	SRX7815917	28.57564	Jinnan Shiqin	flower bud	early flower bud	early flower bud
PRJNA609149	SRX7815918	26.609667	Jinnan Shiqin	flower bud	middle flower bud	middle flower bud
PRJNA609149	SRX7815919	30.494162	Jinnan Shiqin	flower bud	early flowering period	early flowering period

Network

🔍 Co-expression Network

🔍 Protein-Protein Interaction Network

Orthology

Family	Species	Count	Orthologous Genes
Acanthaceae	Avicennia marina	6	jg1657, jg26710, jg29802, jg31283, jg33299, jg4417
Aizoaceae	Mesembryanthemum crystallinum	1	gene_19109
Amaranthaceae	Atriplex hortensis	1	Ah021464
Amaranthaceae	Beta vulgaris	1	BVRB_3g060020
Amaranthaceae	Salicornia bigelovii	2	Sbi_jg59178, Sbi_jg63460
Amaranthaceae	Salicornia europaea	1	Seu_jg23441
Amaranthaceae	Suaeda aralocaspica	1	GOSA_00012751
Amaranthaceae	Suaeda glauca	2	Sgl02589, Sgl07745
Amaranthaceae	Chenopodium album	3	gene:ENSEOMG00000013640, gene:ENSEOMG00000032614 ... gene:ENSEOMG00000043879
Amaranthaceae	Chenopodium quinoa	2	CQ.Regalona.r1.3AG0019490, CQ.Regalona.r1.3BG0020230
Anacardiaceae	Pistacia vera	1	pistato.v30231120
Apiaceae	Apium graveolens	3	Ag10G00394, Ag1G00337, Ag2G01452
Asteraceae	Flaveria trinervia	5	Ftri11G05808, Ftri12G05104, Ftri12G25492, Ftri15G02173 ... Ftri5G31055
Brassicaceae	Arabidopsis thaliana	3	AT2G42030.1, AT2G44410.1, AT3G58030.1
Brassicaceae	Eutrema salsugineum	2	Thhalv10001730m.g.v1.0, Thhalv10005986m.g.v1.0
Brassicaceae	Schrenkiella parvula	3	Sp4g24260.v2.2, Sp4g26480.v2.2, Sp5g04690.v2.2
Brassicaceae	Brassica nigra	5	BniB01g002050.2N, BniB06g001230.2N, BniB06g055280.2N ... BniB06g063630.2N, BniB08g072750.2N
Casuarinaceae	Casuarina glauca	1	Cgl04G1336
Malvaceae	Hibiscus hamabo Siebold & Zucc.	1	nbisL1-mrna-8718
Nitrariaceae	Nitraria sibirica	2	evm.TU.LG01.1658, evm.TU.LG03.11
Plantaginaceae	Plantago ovata	2	Pov_00006870, Pov_00016869
Plumbaginaceae	Limonium bicolor	1	Lb5G29056
Portulacaceae	Portulaca oleracea	2	evm.TU.LG07.2074, evm.TU.LG15.1063
Rhizophoraceae	Bruguiera sexangula	4	evm.TU.60400.14, evm.TU.Scaffold_1_RagTag.1254 ... evm.TU.Scaffold_2_RagTag.1351, evm.TU.Scaffold_8_RagTag.1371
Rhizophoraceae	Carallia pectinifolia	4	nbisL1-mrna-4061, nbisL1-mrna-6358, nbisL1-mrna-6362 ... nbisL1-mrna-9165
Rhizophoraceae	Ceriops tagal	2	nbisL1-mrna-13282, nbisL1-mrna-8130
Rhizophoraceae	Ceriops zippeliana	2	nbisL1-mrna-22218, nbisL1-mrna-4187
Rhizophoraceae	Kandelia candel	3	add.evm.TU.utg000009l.200, add.evm.TU.utg000016l.141 ... add.evm.TU.utg000018l.84
Rhizophoraceae	Kandelia obovata	2	Maker00003074, Maker00004989
Rhizophoraceae	Rhizophora apiculata	2	nbisL1-mrna-19769, nbisL1-mrna-21781
Rhizophoraceae	Rhizophora mangle	2	nbisL1-mrna-13442, nbisL1-mrna-5625
Salicaceae	Populus euphratica	4	populus_peu02215, populus_peu12316, populus_peu26073 ... populus_peu35600
Solanaceae	Lycium barbarum	3	gene-LOC132607526, gene-LOC132611383, gene-LOC132644427
Solanaceae	Solanum chilense	2	SOLCI003356500, SOLCI007366700
Solanaceae	Solanum pennellii	3	gene-LOC107008319, gene-LOC107021636, gene-LOC107031830
Tamaricaceae	Reaumuria soongarica	2	STRG.1979_chr01_+, STRG.21819_chr08_+
Tamaricaceae	Tamarix chinensis	3	TC01G0002, TC05G2003, TC06G1576