halophFGD

Basic Information

Locus ID: Ag11G04662

Species & Taxonomic ID: Apium graveolens & 4045

Genome Assembly: GCA_009905375.1

Description: RING/Ubox like zinc-binding domain

Maps and Mapping Data

Chromosome	Start	End	Strand	ID
chr11	193202101	193205708	+	Ag11G04662

Protein Data

Protein Properties:

Theoretical pI	Molecular Weight	Instability Index	Aliphatic Index	GRAVY
5.77	43,663.24 Da	45.25	65.12	-0.59

Protein Domain:

Category	ID	Description	Start	End	Evalue/Score	InterPro ID
SUPERFAMILY	SSF54928	RNA-binding domain, RBD	84	140	1.9E-6	IPR035979
Gene3D	G3DSA:3.30.40.10	Zinc/RING finger domain, C3HC4 (zinc finger)	2	37	3.4E-5	IPR013083
Gene3D	G3DSA:3.30.70.330	-	71	142	2.2E-13	IPR012677
MobiDBLite	mobidb-lite	consensus disorder prediction	361	377	-	-
MobiDBLite	mobidb-lite	consensus disorder prediction	361	400	-	-

Gene Ontology

Molecular Function:

GO:0003676 (nucleic acid binding)

KEGG Pathway

KO Term:

K10643 (CCR4-NOT transcription complex subunit 4 [EC:2.3.2.27])

Pathway:

ko03018 (RNA degradation) map03018 (RNA degradation)

Best hit

Source	Best Hit ID	Description
TAIR	AT3G45630.1	RNA binding (RRM/RBD/RNP motifs) family protein.
RefSeq	XP_017236077.1	PREDICTED: uncharacterized protein LOC108209600 [Daucus carota subsp. sativus]
TrEMBL	A0A166DT04	CCR4-NOT transcription complex subunit 4 OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_006476 PE=4 SV=1

Expression

BioProject	Accession	TPM	Cultivar	Tissue	Development Stage	Sample Name	Description
PRJNA723697	SRX10692252	22.660713	Shengqin NO.2	seed	S1-1	S1-1	initial formation stage (S1)
PRJNA723697	SRX10692254	14.532777	Shengqin NO.2	seed	S1-3	S1-3	initial formation stage (S1)
PRJNA723697	SRX10692255	11.275625	Shengqin NO.2	seed	S3-1	S3-1	middle development stage (S3)
PRJNA723697	SRX10692256	11.725235	Shengqin NO.2	seed	S3-2	S3-2	middle development stage (S3)
PRJNA723697	SRX10692257	12.94519	Shengqin NO.2	seed	S3-3	S3-3	middle development stage (S3)
PRJNA723697	SRX10692258	8.156587	Shengqin NO.2	seed	S5-1	S5-1	maturation stage (S5)
PRJNA723697	SRX10692259	8.596832	Shengqin NO.2	seed	S5-2	S5-2	maturation stage (S5)
PRJNA723697	SRX10692260	4.869205	Shengqin NO.2	seed	S5-3	S5-3	maturation stage (S5)
PRJNA884666	SRX17729272	62.600708	celery	anther		W99A-r1	male sterile lineÂ
PRJNA884666	SRX17729273	70.827469	celery	anther		W99A-r2	male sterile lineÂ
PRJNA884666	SRX17729274	79.911011	celery	anther		W99A-r3	male sterile lineÂ
PRJNA884666	SRX17729275	64.283012	celery	anther		W99B-r1	maintainer line
PRJNA884666	SRX17729276	48.801804	celery	anther		W99B-r2	maintainer line
PRJNA884666	SRX17729277	45.439358	celery	anther		W99B-r3	maintainer line
PRJNA884180	SRX17743889	7.825465	var. secalinum Yablochny	collenchyma		Col_S1_rep1-1
PRJNA884180	SRX17748056	16.222645	var. secalinum Yablochny	collenchyma		Col_S1_rep3	biological replicate 3
PRJNA884180	SRX17748057	6.917794	var. secalinum Yablochny	collenchyma		Col_S1_rep4	biological replicate 4
PRJNA884180	SRX17748678	18.973022	var. secalinum Yablochny	parenchyma		Par_S1_rep1	Biological replicate 1
PRJNA884180	SRX17748679	12.059029	var. secalinum Yablochny	parenchyma		Par_S1_rep2	Biological replicate 2
PRJNA884180	SRX17748680	14.435232	var. secalinum Yablochny	parenchyma		Par_S1_rep3	Biological replicate 3
PRJNA884180	SRX17748681	19.424307	var. secalinum Yablochny	parenchyma		Par_S1_rep4	Biological replicate 4
PRJNA884180	SRX17748898	13.480955	var. secalinum Yablochny	vascular bundle		Vas_S1_rep1	Biological replicate 1
PRJNA884180	SRX17748899	14.610402	var. secalinum Yablochny	vascular bundle		Vas_S1_rep2	Biological replicate 2
PRJNA884180	SRX17748900	12.576324	var. secalinum Yablochny	vascular bundle		Vas_S1_rep3	Biological replicate 3
PRJNA884180	SRX17748901	11.17469	var. secalinum Yablochny	vascular bundle		Vas_S1_rep4	Biological replicate 4
PRJNA884180	SRX17749129	24.163317	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep1	Biological replicate 1
PRJNA884180	SRX17749130	16.613937	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep2	Biological replicate 2
PRJNA884180	SRX17749131	13.301164	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep3	Biological replicate 3
PRJNA884180	SRX17749132	21.745136	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep4	Biological replicate 4
PRJNA1124269	SRX24936411	2.180703		leaf		CK1	replicate=biological replicate1
PRJNA1124269	SRX24936412	3.298923		leaf		CK2	replicate=biological replicate2
PRJNA1124269	SRX24936413	3.236212		leaf		CK3	replicate=biological replicate3
PRJNA1124269	SRX24936414	3.680938		leaf		D1	replicate=biological replicate1
PRJNA1124269	SRX24936415	4.329663		leaf		D2	replicate=biological replicate2
PRJNA1124269	SRX24936416	3.092591		leaf		D3	replicate=biological replicate3
PRJNA1124269	SRX24936417	2.048626		leaf		MD1	replicate=biological replicate1
PRJNA1124269	SRX24936418	1.028008		leaf		MD2	replicate=biological replicate2
PRJNA1124269	SRX24936419	1.460247		leaf		MD3	replicate=biological replicate3
PRJNA387092	SRX2833309	46.376656	shanghaihuangxin	leaf	leaves between 0.5 and 1 cm in breadth, folded;	stage 2
PRJNA387092	SRX2833321	19.505672	shanghaihuangxin	leaf	leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion	stage 5
PRJNA387092	SRX2833323	8.875158	shanghaihuangxin	leaf	leaves >3 cm, unfolded, with clearstem extension	stage 7
PRJNA543957	SRX5879598	5.286564	Zhangzhou lvqing	stem		Se3	100 ppm Na2SeO4
PRJNA543957	SRX5879599	10.569064	Zhangzhou lvqing	stem		Se2	100 ppm Na2SeO4
PRJNA543957	SRX5879600	11.173223	Zhangzhou lvqing	stem		Mock2	mock
PRJNA543957	SRX5879601	8.788553	Zhangzhou lvqing	stem		Mock1	mock
PRJNA543957	SRX5879602	5.097402	Zhangzhou lvqing	stem		Se1	100 ppm Na2SeO4
PRJNA543957	SRX5879603	8.521397	Zhangzhou lvqing	stem		Mock3	mock
PRJNA609149	SRX7815917	11.267223	Jinnan Shiqin	flower bud	early flower bud	early flower bud
PRJNA609149	SRX7815918	9.625869	Jinnan Shiqin	flower bud	middle flower bud	middle flower bud
PRJNA609149	SRX7815919	8.095067	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	3	jg16628, jg37936, jg37937
Aizoaceae	Mesembryanthemum crystallinum	1	gene_25753
Amaranthaceae	Atriplex hortensis	2	Ah037635, Ah037637
Amaranthaceae	Beta vulgaris	1	BVRB_9g207330
Amaranthaceae	Salicornia bigelovii	2	Sbi_jg2425, Sbi_jg59867
Amaranthaceae	Salicornia europaea	1	Seu_jg24119
Amaranthaceae	Suaeda aralocaspica	1	GOSA_00025989
Amaranthaceae	Suaeda glauca	2	Sgl78745, Sgl81214
Amaranthaceae	Chenopodium album	7	gene:ENSEOMG00000016030, gene:ENSEOMG00000017359 ... gene:ENSEOMG00000019106, gene:ENSEOMG00000037100, gene:ENSEOMG00000040183, gene:ENSEOMG00000052659, gene:ENSEOMG00000052970
Amaranthaceae	Chenopodium quinoa	3	CQ.Regalona.r1.9AG0005470, CQ.Regalona.r1.9BG0016740 ... CQ.Regalona.r1.9BG0016810
Anacardiaceae	Pistacia vera	2	pistato.v30059360, pistato.v30271870
Apiaceae	Apium graveolens	6	Ag10G00540, Ag11G04662, Ag11G04663, Ag2G00670, Ag2G00923 ... Ag6G02307
Arecaceae	Cocos nucifera	3	COCNU_03G013580, COCNU_04G002800, COCNU_12G007040
Arecaceae	Phoenix dactylifera	4	gene-LOC103702851, gene-LOC103715965, gene-LOC103716197 ... gene-LOC103723062
Asparagaceae	Asparagus officinalis	3	AsparagusV1_05.445.V1.1, AsparagusV1_06.1382.V1.1 ... AsparagusV1_07.374.V1.1
Asteraceae	Flaveria trinervia	4	Ftri10G26587, Ftri12G16297, Ftri17G20184, Ftri9G23169
Brassicaceae	Arabidopsis thaliana	3	AT2G28540.2, AT3G45630.1, AT5G60170.2
Brassicaceae	Eutrema salsugineum	3	Thhalv10012563m.g.v1.0, Thhalv10012567m.g.v1.0 ... Thhalv10016186m.g.v1.0
Brassicaceae	Schrenkiella parvula	4	Sp4g11360.v2.2, Sp4g11370.v2.2, Sp5g15830.v2.2 ... Sp5g15860.v2.2
Brassicaceae	Brassica nigra	7	BniB01g015360.2N, BniB01g015370.2N, BniB02g039900.2N ... BniB05g040470.2N, BniB06g017560.2N, BniB08g011970.2N, BniB08g058510.2N
Casuarinaceae	Casuarina equisetifolia	1	Ceq08G2392
Casuarinaceae	Casuarina glauca	1	Cgl08G2596
Cymodoceaceae	Cymodocea nodosa	3	gene.Cymno18g00440, gene.Cymno18g00470, gene.Cymno18g00480
Hydrocharitaceae	Thalassia testudinum	2	gene.Thate08g12630, gene.Thate08g12670
Malvaceae	Hibiscus hamabo Siebold & Zucc.	1	nbisL1-mrna-580
Nitrariaceae	Nitraria sibirica	2	evm.TU.LG01.1374, evm.TU.LG09.982
Plantaginaceae	Plantago ovata	2	Pov_00012739, Pov_00016047
Plumbaginaceae	Limonium bicolor	3	Lb0G36780, Lb1G02544, Lb6G30938
Poaceae	Echinochloa crus-galli	3	AH08.2136, BH08.2250, CH08.2425
Poaceae	Eleusine coracana subsp. coracana	2	gene-QOZ80_5AG0406040, gene-QOZ80_5BG0454130
Poaceae	Hordeum vulgare	1	HORVU.MOREX.r3.5HG0466830.1
Poaceae	Oryza coarctata	6	Ocoptg000041lG000150, Ocoptg000061lG000100 ... Ocoptg000074lG000010, Ocoptg000092lG000070, Ocoptg000275lG000020, Ocoptg000441lG000010
Poaceae	Oryza sativa	1	LOC_Os12g01190.2
Poaceae	Paspalum vaginatum	1	gene-BS78_05G001600
Poaceae	Puccinellia tenuiflora	1	Pt_Chr0705182
Poaceae	Sporobolus alterniflorus	5	Chr07G022540, Chr17G014360, Chr19G011160, Chr27G004940 ... Chr31G000070
Poaceae	Thinopyrum elongatum	1	Tel5E01G270200
Poaceae	Triticum dicoccoides	2	gene_TRIDC5AG025990, gene_TRIDC5BG027140
Poaceae	Triticum aestivum	3	TraesCS5A02G156500.2, TraesCS5B02G154700.3 ... TraesCS5D02G161900.2
Poaceae	Zea mays	4	Zm00001eb094340_P001, Zm00001eb163140_P001 ... Zm00001eb194940_P001, Zm00001eb417060_P002
Poaceae	Zoysia japonica	2	nbis-gene-38390, nbis-gene-40104
Poaceae	Zoysia macrostachya	1	Zma_g17517
Portulacaceae	Portulaca oleracea	4	evm.TU.LG02.2094, evm.TU.LG06.1000, evm.TU.LG11.260 ... evm.TU.LG23.329
Posidoniaceae	Posidonia oceanica	1	gene.Posoc07g14430
Rhizophoraceae	Bruguiera sexangula	3	evm.TU.Scaffold_12_RagTag.319, evm.TU.Scaffold_12_RagTag.320 ... evm.TU.Scaffold_13_RagTag.765
Rhizophoraceae	Carallia pectinifolia	3	nbisL1-mrna-24477, nbisL1-mrna-30274, nbisL1-mrna-30286
Rhizophoraceae	Ceriops tagal	2	nbisL1-mrna-12662, nbisL1-mrna-19718
Rhizophoraceae	Ceriops zippeliana	3	nbisL1-mrna-16138, nbisL1-mrna-16139, nbisL1-mrna-19596
Rhizophoraceae	Kandelia candel	2	evm.TU.utg000015l.448, evm.TU.utg000027l.379
Rhizophoraceae	Kandelia obovata	2	Maker00015216, Maker00017869
Rhizophoraceae	Rhizophora apiculata	2	nbisL1-mrna-4367, nbisL1-mrna-5604
Rhizophoraceae	Rhizophora mangle	2	nbisL1-mrna-11820, nbisL1-mrna-15040
Salicaceae	Populus euphratica	6	populus_peu02677, populus_peu09199, populus_peu11743 ... populus_peu11751, populus_peu25800, populus_peu35624
Solanaceae	Lycium barbarum	4	gene-LOC132600816, gene-LOC132605924, gene-LOC132613799 ... gene-LOC132616048
Solanaceae	Solanum chilense	4	SOLCI001120100, SOLCI003343700, SOLCI003402900 ... SOLCI005076700
Solanaceae	Solanum pennellii	4	gene-LOC107004502, gene-LOC107017872, gene-LOC107018096 ... gene-LOC107023251
Tamaricaceae	Reaumuria soongarica	2	gene_13756, gene_2168
Tamaricaceae	Tamarix chinensis	2	TC01G2712, TC03G0051
Zosteraceae	Zostera marina	2	Zosma06g27440.v3.1, Zosma06g27460.v3.1