halophFGD

Basic Information

Locus ID: Ag2G00923

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
chr2	41027939	41033261	-	Ag2G00923

Protein Data

Protein Properties:

Theoretical pI	Molecular Weight	Instability Index	Aliphatic Index	GRAVY
6.50	106,416.39 Da	53.15	64.17	-0.69

Protein Domain:

Category	ID	Description	Start	End	Evalue/Score	InterPro ID
CDD	cd12438	RRM_CNOT4	62	161	9.94656E-49	IPR034261
Pfam	PF00076	RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain)	69	147	3.5E-6	IPR000504
SUPERFAMILY	SSF54928	RNA-binding domain, RBD	61	147	1.21E-13	IPR035979
Gene3D	G3DSA:3.30.70.330	-	68	149	1.2E-24	IPR012677
SMART	SM00360	rrm1_1	68	149	6.2E-5	IPR000504
SMART	SM00361	rrm2_1	68	149	6.2E-10	IPR003954
ProSiteProfiles	PS50102	Eukaryotic RNA Recognition Motif (RRM) profile.	67	153	11.31529	IPR000504
MobiDBLite	mobidb-lite	consensus disorder prediction	280	308	-	-
MobiDBLite	mobidb-lite	consensus disorder prediction	439	474	-	-
MobiDBLite	mobidb-lite	consensus disorder prediction	657	691	-	-
MobiDBLite	mobidb-lite	consensus disorder prediction	282	308	-	-
MobiDBLite	mobidb-lite	consensus disorder prediction	439	458	-	-

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_017252599.1	PREDICTED: uncharacterized protein LOC108223059 isoform X1 [Daucus carota subsp. sativus]
Swiss-Prot	Q09818	Putative general negative regulator of transcription C16C9.04c OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) OX=284812 GN=SPAC16C9.04c PE=3 SV=1
TrEMBL	A0A161YNY2	CCR4-NOT transcription complex subunit 4 OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_018851 PE=4 SV=1

Expression

BioProject	Accession	TPM	Cultivar	Tissue	Development Stage	Sample Name	Description
PRJNA723697	SRX10692252	27.05278	Shengqin NO.2	seed	S1-1	S1-1	initial formation stage (S1)
PRJNA723697	SRX10692254	20.487484	Shengqin NO.2	seed	S1-3	S1-3	initial formation stage (S1)
PRJNA723697	SRX10692255	26.3272	Shengqin NO.2	seed	S3-1	S3-1	middle development stage (S3)
PRJNA723697	SRX10692256	26.490881	Shengqin NO.2	seed	S3-2	S3-2	middle development stage (S3)
PRJNA723697	SRX10692257	29.43552	Shengqin NO.2	seed	S3-3	S3-3	middle development stage (S3)
PRJNA723697	SRX10692258	26.891525	Shengqin NO.2	seed	S5-1	S5-1	maturation stage (S5)
PRJNA723697	SRX10692259	27.928415	Shengqin NO.2	seed	S5-2	S5-2	maturation stage (S5)
PRJNA723697	SRX10692260	25.056908	Shengqin NO.2	seed	S5-3	S5-3	maturation stage (S5)
PRJNA884666	SRX17729272	15.704538	celery	anther		W99A-r1	male sterile lineÂ
PRJNA884666	SRX17729273	18.374058	celery	anther		W99A-r2	male sterile lineÂ
PRJNA884666	SRX17729274	17.849455	celery	anther		W99A-r3	male sterile lineÂ
PRJNA884666	SRX17729275	19.207823	celery	anther		W99B-r1	maintainer line
PRJNA884666	SRX17729276	19.837433	celery	anther		W99B-r2	maintainer line
PRJNA884666	SRX17729277	14.216062	celery	anther		W99B-r3	maintainer line
PRJNA884180	SRX17743889	20.459616	var. secalinum Yablochny	collenchyma		Col_S1_rep1-1
PRJNA884180	SRX17748056	15.827008	var. secalinum Yablochny	collenchyma		Col_S1_rep3	biological replicate 3
PRJNA884180	SRX17748057	14.541414	var. secalinum Yablochny	collenchyma		Col_S1_rep4	biological replicate 4
PRJNA884180	SRX17748678	16.861433	var. secalinum Yablochny	parenchyma		Par_S1_rep1	Biological replicate 1
PRJNA884180	SRX17748679	9.427986	var. secalinum Yablochny	parenchyma		Par_S1_rep2	Biological replicate 2
PRJNA884180	SRX17748680	14.359196	var. secalinum Yablochny	parenchyma		Par_S1_rep3	Biological replicate 3
PRJNA884180	SRX17748681	16.475679	var. secalinum Yablochny	parenchyma		Par_S1_rep4	Biological replicate 4
PRJNA884180	SRX17748898	15.106256	var. secalinum Yablochny	vascular bundle		Vas_S1_rep1	Biological replicate 1
PRJNA884180	SRX17748899	14.653155	var. secalinum Yablochny	vascular bundle		Vas_S1_rep2	Biological replicate 2
PRJNA884180	SRX17748900	12.835428	var. secalinum Yablochny	vascular bundle		Vas_S1_rep3	Biological replicate 3
PRJNA884180	SRX17748901	12.471623	var. secalinum Yablochny	vascular bundle		Vas_S1_rep4	Biological replicate 4
PRJNA884180	SRX17749129	17.245153	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep1	Biological replicate 1
PRJNA884180	SRX17749130	14.882758	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep2	Biological replicate 2
PRJNA884180	SRX17749131	14.834862	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep3	Biological replicate 3
PRJNA884180	SRX17749132	18.211245	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep4	Biological replicate 4
PRJNA1124269	SRX24936411	5.399031		leaf		CK1	replicate=biological replicate1
PRJNA1124269	SRX24936412	7.216805		leaf		CK2	replicate=biological replicate2
PRJNA1124269	SRX24936413	5.401633		leaf		CK3	replicate=biological replicate3
PRJNA1124269	SRX24936414	10.166578		leaf		D1	replicate=biological replicate1
PRJNA1124269	SRX24936415	11.603591		leaf		D2	replicate=biological replicate2
PRJNA1124269	SRX24936416	9.649638		leaf		D3	replicate=biological replicate3
PRJNA1124269	SRX24936417	5.852658		leaf		MD1	replicate=biological replicate1
PRJNA1124269	SRX24936418	4.165632		leaf		MD2	replicate=biological replicate2
PRJNA1124269	SRX24936419	4.241334		leaf		MD3	replicate=biological replicate3
PRJNA387092	SRX2833309	8.52089	shanghaihuangxin	leaf	leaves between 0.5 and 1 cm in breadth, folded;	stage 2
PRJNA387092	SRX2833321	6.725133	shanghaihuangxin	leaf	leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion	stage 5
PRJNA387092	SRX2833323	4.248825	shanghaihuangxin	leaf	leaves >3 cm, unfolded, with clearstem extension	stage 7
PRJNA543957	SRX5879598	20.669706	Zhangzhou lvqing	stem		Se3	100 ppm Na2SeO4
PRJNA543957	SRX5879599	23.720566	Zhangzhou lvqing	stem		Se2	100 ppm Na2SeO4
PRJNA543957	SRX5879600	38.983902	Zhangzhou lvqing	stem		Mock2	mock
PRJNA543957	SRX5879601	34.969532	Zhangzhou lvqing	stem		Mock1	mock
PRJNA543957	SRX5879602	13.183125	Zhangzhou lvqing	stem		Se1	100 ppm Na2SeO4
PRJNA543957	SRX5879603	34.820374	Zhangzhou lvqing	stem		Mock3	mock
PRJNA609149	SRX7815917	14.262195	Jinnan Shiqin	flower bud	early flower bud	early flower bud
PRJNA609149	SRX7815918	21.716017	Jinnan Shiqin	flower bud	middle flower bud	middle flower bud
PRJNA609149	SRX7815919	18.132116	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