halophFGD

Basic Information

Locus ID: Ag4G00216

Species & Taxonomic ID: Apium graveolens & 4045

Genome Assembly: GCA_009905375.1

Description: Oligouridylate-binding protein

Maps and Mapping Data

Chromosome	Start	End	Strand	ID
chr4	5748328	5752221	-	Ag4G00216

Protein Data

Protein Properties:

Theoretical pI	Molecular Weight	Instability Index	Aliphatic Index	GRAVY
6.05	31,272.76 Da	38.35	73.03	-0.27

Protein Domain:

Category	ID	Description	Start	End	Evalue/Score	InterPro ID
CDD	cd12354	RRM3_TIA1_like	136	211	3.73355E-31	-
CDD	cd12619	RRM2_PUB1	16	90	1.79299E-49	-
Pfam	PF00076	RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain)	138	204	2.1E-11	IPR000504
Pfam	PF00076	RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain)	17	87	3.3E-17	IPR000504
SUPERFAMILY	SSF54928	RNA-binding domain, RBD	13	95	1.61E-25	IPR035979
SUPERFAMILY	SSF54928	RNA-binding domain, RBD	128	223	9.81E-21	IPR035979
Gene3D	G3DSA:3.30.70.330	-	12	104	9.3E-25	IPR012677
Gene3D	G3DSA:3.30.70.330	-	105	215	1.6E-21	IPR012677
SMART	SM00360	rrm1_1	16	89	2.1E-22	IPR000504
SMART	SM00360	rrm1_1	137	207	3.6E-16	IPR000504
ProSiteProfiles	PS50102	Eukaryotic RNA Recognition Motif (RRM) profile.	15	93	17.131182	IPR000504
ProSiteProfiles	PS50102	Eukaryotic RNA Recognition Motif (RRM) profile.	136	211	14.931036	IPR000504

Gene Ontology

Molecular Function:

GO:0003676 (nucleic acid binding)

KEGG Pathway

KO Term:

K13201 (nucleolysin TIA-1/TIAR)

Best hit

Source	Best Hit ID	Description
TAIR	AT3G14100.1	RNA-binding (RRM/RBD/RNP motifs) family protein.
RefSeq	XP_021638901.1	oligouridylate-binding protein 1B-like isoform X1 [Hevea brasiliensis]
Swiss-Prot	Q9LJH8	Oligouridylate-binding protein 1C OS=Arabidopsis thaliana OX=3702 GN=UBP1C PE=1 SV=1
TrEMBL	B9ST80	Nucleolysin tia-1, putative OS=Ricinus communis OX=3988 GN=RCOM_0684960 PE=4 SV=1

Expression

BioProject	Accession	TPM	Cultivar	Tissue	Development Stage	Sample Name	Description
PRJNA723697	SRX10692252	42.555576	Shengqin NO.2	seed	S1-1	S1-1	initial formation stage (S1)
PRJNA723697	SRX10692254	42.785366	Shengqin NO.2	seed	S1-3	S1-3	initial formation stage (S1)
PRJNA723697	SRX10692255	36.784851	Shengqin NO.2	seed	S3-1	S3-1	middle development stage (S3)
PRJNA723697	SRX10692256	34.263966	Shengqin NO.2	seed	S3-2	S3-2	middle development stage (S3)
PRJNA723697	SRX10692257	36.512814	Shengqin NO.2	seed	S3-3	S3-3	middle development stage (S3)
PRJNA723697	SRX10692258	46.321354	Shengqin NO.2	seed	S5-1	S5-1	maturation stage (S5)
PRJNA723697	SRX10692259	41.173752	Shengqin NO.2	seed	S5-2	S5-2	maturation stage (S5)
PRJNA723697	SRX10692260	33.934616	Shengqin NO.2	seed	S5-3	S5-3	maturation stage (S5)
PRJNA884666	SRX17729272	65.454575	celery	anther		W99A-r1	male sterile lineÂ
PRJNA884666	SRX17729273	66.40815	celery	anther		W99A-r2	male sterile lineÂ
PRJNA884666	SRX17729274	67.64946	celery	anther		W99A-r3	male sterile lineÂ
PRJNA884666	SRX17729275	73.420677	celery	anther		W99B-r1	maintainer line
PRJNA884666	SRX17729276	61.78558	celery	anther		W99B-r2	maintainer line
PRJNA884666	SRX17729277	72.015411	celery	anther		W99B-r3	maintainer line
PRJNA884180	SRX17743889	12.741493	var. secalinum Yablochny	collenchyma		Col_S1_rep1-1
PRJNA884180	SRX17748056	12.290161	var. secalinum Yablochny	collenchyma		Col_S1_rep3	biological replicate 3
PRJNA884180	SRX17748057	32.651539	var. secalinum Yablochny	collenchyma		Col_S1_rep4	biological replicate 4
PRJNA884180	SRX17748678	19.006598	var. secalinum Yablochny	parenchyma		Par_S1_rep1	Biological replicate 1
PRJNA884180	SRX17748679	20.137398	var. secalinum Yablochny	parenchyma		Par_S1_rep2	Biological replicate 2
PRJNA884180	SRX17748680	19.036783	var. secalinum Yablochny	parenchyma		Par_S1_rep3	Biological replicate 3
PRJNA884180	SRX17748681	23.20718	var. secalinum Yablochny	parenchyma		Par_S1_rep4	Biological replicate 4
PRJNA884180	SRX17748898	51.355133	var. secalinum Yablochny	vascular bundle		Vas_S1_rep1	Biological replicate 1
PRJNA884180	SRX17748899	51.169636	var. secalinum Yablochny	vascular bundle		Vas_S1_rep2	Biological replicate 2
PRJNA884180	SRX17748900	52.634651	var. secalinum Yablochny	vascular bundle		Vas_S1_rep3	Biological replicate 3
PRJNA884180	SRX17748901	42.591686	var. secalinum Yablochny	vascular bundle		Vas_S1_rep4	Biological replicate 4
PRJNA884180	SRX17749129	23.007204	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep1	Biological replicate 1
PRJNA884180	SRX17749130	28.564251	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep2	Biological replicate 2
PRJNA884180	SRX17749131	26.332426	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep3	Biological replicate 3
PRJNA884180	SRX17749132	25.303997	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep4	Biological replicate 4
PRJNA1124269	SRX24936411	16.474562		leaf		CK1	replicate=biological replicate1
PRJNA1124269	SRX24936412	23.209393		leaf		CK2	replicate=biological replicate2
PRJNA1124269	SRX24936413	24.66238		leaf		CK3	replicate=biological replicate3
PRJNA1124269	SRX24936414	26.58724		leaf		D1	replicate=biological replicate1
PRJNA1124269	SRX24936415	59.745239		leaf		D2	replicate=biological replicate2
PRJNA1124269	SRX24936416	28.143528		leaf		D3	replicate=biological replicate3
PRJNA1124269	SRX24936417	18.375338		leaf		MD1	replicate=biological replicate1
PRJNA1124269	SRX24936418	23.162323		leaf		MD2	replicate=biological replicate2
PRJNA1124269	SRX24936419	19.868059		leaf		MD3	replicate=biological replicate3
PRJNA387092	SRX2833309	25.30711	shanghaihuangxin	leaf	leaves between 0.5 and 1 cm in breadth, folded;	stage 2
PRJNA387092	SRX2833321	15.351583	shanghaihuangxin	leaf	leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion	stage 5
PRJNA387092	SRX2833323	13.015243	shanghaihuangxin	leaf	leaves >3 cm, unfolded, with clearstem extension	stage 7
PRJNA543957	SRX5879598	30.294659	Zhangzhou lvqing	stem		Se3	100 ppm Na2SeO4
PRJNA543957	SRX5879599	17.138933	Zhangzhou lvqing	stem		Se2	100 ppm Na2SeO4
PRJNA543957	SRX5879600	27.73934	Zhangzhou lvqing	stem		Mock2	mock
PRJNA543957	SRX5879601	24.649553	Zhangzhou lvqing	stem		Mock1	mock
PRJNA543957	SRX5879602	36.386932	Zhangzhou lvqing	stem		Se1	100 ppm Na2SeO4
PRJNA543957	SRX5879603	27.744299	Zhangzhou lvqing	stem		Mock3	mock
PRJNA609149	SRX7815917	79.871681	Jinnan Shiqin	flower bud	early flower bud	early flower bud
PRJNA609149	SRX7815918	77.379486	Jinnan Shiqin	flower bud	middle flower bud	middle flower bud
PRJNA609149	SRX7815919	75.630882	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	4	jg15332, jg17991, jg25172, jg31770
Aizoaceae	Mesembryanthemum crystallinum	2	gene_10939, gene_5582
Amaranthaceae	Atriplex hortensis	4	Ah012494, Ah015046, Ah015048, Ah028748
Amaranthaceae	Beta vulgaris	2	BVRB_7g169700, BVRB_8g190780
Amaranthaceae	Salicornia bigelovii	4	Sbi_jg2012, Sbi_jg24705, Sbi_jg34491, Sbi_jg8567
Amaranthaceae	Salicornia europaea	2	Seu_jg20033, Seu_jg2755
Amaranthaceae	Suaeda aralocaspica	3	GOSA_00002815, GOSA_00002816, GOSA_00022700
Amaranthaceae	Suaeda glauca	5	Sgl42755, Sgl47500, Sgl47516, Sgl73441, Sgl76965
Amaranthaceae	Chenopodium album	5	gene:ENSEOMG00000008121, gene:ENSEOMG00000011604 ... gene:ENSEOMG00000032587, gene:ENSEOMG00000039266, gene:ENSEOMG00000039716
Amaranthaceae	Chenopodium quinoa	4	CQ.Regalona.r1.7AG0006570, CQ.Regalona.r1.8AG0016480 ... CQ.Regalona.r1.8BG0017560, CQ.Regalona.r1.9BG0006480
Anacardiaceae	Pistacia vera	4	pistato.v30118540, pistato.v30119220, pistato.v30260380 ... pistato.v30287110
Apiaceae	Apium graveolens	4	Ag4G00169, Ag4G00216, Ag5G01496, Ag8G00377
Arecaceae	Cocos nucifera	2	COCNU_13G001900, scaffold004549G000020
Arecaceae	Phoenix dactylifera	3	gene-LOC103698716, gene-LOC103702254, gene-LOC103715545
Asparagaceae	Asparagus officinalis	3	AsparagusV1_05.667.V1.1, AsparagusV1_06.382.V1.1 ... AsparagusV1_08.2658.V1.1
Asteraceae	Flaveria trinervia	5	Ftri15G14815, Ftri3G11362, Ftri4G26549, Ftri8G29013 ... FtriNA08785
Brassicaceae	Arabidopsis thaliana	3	AT1G17370.1, AT1G54080.2, AT3G14100.1
Brassicaceae	Eutrema salsugineum	3	Thhalv10007746m.g.v1.0, Thhalv10011526m.g.v1.0 ... Thhalv10020804m.g.v1.0
Brassicaceae	Schrenkiella parvula	4	Sp1g15520.v2.2, Sp1g40520.v2.2, Sp3g12360.v2.2 ... SpUn0033_0030.v2.2
Brassicaceae	Brassica nigra	5	BniB01g051090.2N, BniB03g027460.2N, BniB04g054880.2N ... BniB07g001800.2N, BniB07g055110.2N
Casuarinaceae	Casuarina equisetifolia	3	Ceq02G0791, Ceq04G2158, Ceq06G0757
Casuarinaceae	Casuarina glauca	3	Cgl02G0802, Cgl06G0779, CglSG0081
Cymodoceaceae	Cymodocea nodosa	3	gene.Cymno02g03750, gene.Cymno03g11120, gene.Cymno05g09400
Dunaliellaceae	Dunaliella salina	1	Dusal.0390s00006.v1.0
Hydrocharitaceae	Thalassia testudinum	3	gene.Thate03g22010, gene.Thate05g04730, gene.Thate05g25870
Malvaceae	Hibiscus hamabo Siebold & Zucc.	3	nbisL1-mrna-3788, nbisL1-mrna-4605, nbisL1-mrna-820
Nitrariaceae	Nitraria sibirica	2	evm.TU.LG01.169, evm.TU.LG07.1347
Plantaginaceae	Plantago ovata	3	Pov_00004000, Pov_00010227, Pov_00040923
Plumbaginaceae	Limonium bicolor	2	Lb3G16803, Lb3G17953
Poaceae	Echinochloa crus-galli	6	AH04.2001, AH08.2089, BH04.2029, BH08.2193, CH04.2367 ... CH08.2362
Poaceae	Eleusine coracana subsp. coracana	6	gene-QOZ80_7AG0577050, gene-QOZ80_7BG0608410 ... gene-QOZ80_8AG0637430, gene-QOZ80_8BG0665950, gene-QOZ80_9AG0689850, gene-QOZ80_9BG0714670
Poaceae	Hordeum vulgare	3	HORVU.MOREX.r3.2HG0125330.1, HORVU.MOREX.r3.4HG0364220.1 ... HORVU.MOREX.r3.7HG0681680.1
Poaceae	Lolium multiflorum	5	gene-QYE76_030074, gene-QYE76_039724, gene-QYE76_039731 ... gene-QYE76_065875, gene-QYE76_066021
Poaceae	Oryza coarctata	6	Oco13G012620, Oco14G013340, Oco15G010720, Oco16G011830 ... Oco21G008590, Oco22G009820
Poaceae	Oryza sativa	3	LOC_Os07g42380.1, LOC_Os08g40880.1, LOC_Os11g40510.1
Poaceae	Paspalum vaginatum	2	gene-BS78_05G213900, gene-BS78_07G191000
Poaceae	Puccinellia tenuiflora	5	Pt_Chr0103294, Pt_Chr0206367, Pt_Chr0306270, Pt_Chr0306376 ... Pt_Chr0403743
Poaceae	Sporobolus alterniflorus	11	Chr07G015330, Chr16G004670, Chr16G017360, Chr16G017610 ... Chr17G004160, Chr17G016720, Chr19G002300, Chr20G001800, Chr27G014980, Chr29G002120, Chr31G007510
Poaceae	Thinopyrum elongatum	3	Tel2E01G332300, Tel4E01G241100, Tel7E01G446000
Poaceae	Triticum dicoccoides	6	gene_TRIDC2AG021440, gene_TRIDC2BG025450 ... gene_TRIDC4AG022910, gene_TRIDC4BG023790, gene_TRIDC7AG032400, gene_TRIDC7BG021950
Poaceae	Triticum aestivum	9	TraesCS2A02G169100.1, TraesCS2B02G195400.1 ... TraesCS2D02G176700.1, TraesCS4A02G150000.1, TraesCS4B02G148600.1, TraesCS4D02G150600.2, TraesCS7A02G252200.1, TraesCS7B02G138700.1, TraesCS7D02G250300.1
Poaceae	Zea mays	6	Zm00001eb035660_P002, Zm00001eb166710_P001 ... Zm00001eb174610_P001, Zm00001eb432840_P001, Zm00001eb432870_P001, Zm00001eb432880_P001
Poaceae	Zoysia japonica	3	nbis-gene-17450, nbis-gene-43159, nbis-gene-46100
Poaceae	Zoysia macrostachya	3	Zma_g18204, Zma_g19061, Zma_g24376
Portulacaceae	Portulaca oleracea	5	evm.TU.LG02.2492, evm.TU.LG12.1609, evm.TU.LG19.104 ... evm.TU.LG23.712, evm.TU.LG24.323
Posidoniaceae	Posidonia oceanica	3	gene.Posoc01g20860, gene.Posoc02g27420, gene.Posoc08g03760
Rhizophoraceae	Bruguiera sexangula	4	evm.TU.Scaffold_10_RagTag.1428 ... evm.TU.Scaffold_10_RagTag.590, evm.TU.Scaffold_18_RagTag.784, evm.TU.Scaffold_4_RagTag.1026
Rhizophoraceae	Carallia pectinifolia	4	nbisL1-mrna-13893, nbisL1-mrna-25808, nbisL1-mrna-27532 ... nbisL1-mrna-6749
Rhizophoraceae	Ceriops tagal	4	nbisL1-mrna-12264, nbisL1-mrna-16111, nbisL1-mrna-2428 ... nbisL1-mrna-8406
Rhizophoraceae	Ceriops zippeliana	3	nbisL1-mrna-1385, nbisL1-mrna-22686, nbisL1-mrna-8138
Rhizophoraceae	Kandelia candel	4	evm.TU.utg000004l.23, evm.TU.utg000008l.668 ... evm.TU.utg000033l.420, evm.TU.utg000079l.6
Rhizophoraceae	Kandelia obovata	4	Maker00000275, Maker00004005, Maker00015029, Maker00018917
Rhizophoraceae	Rhizophora apiculata	4	nbisL1-mrna-16489, nbisL1-mrna-2025, nbisL1-mrna-3966 ... nbisL1-mrna-7471
Rhizophoraceae	Rhizophora mangle	4	nbisL1-mrna-14796, nbisL1-mrna-22838, nbisL1-mrna-8112 ... nbisL1-mrna-9356
Salicaceae	Populus euphratica	7	populus_peu02912, populus_peu04532, populus_peu04551 ... populus_peu11809, populus_peu13115, populus_peu33809, populus_peu37342
Solanaceae	Lycium barbarum	4	gene-LOC132619231, gene-LOC132633514, gene-LOC132636931 ... gene-LOC132645290
Solanaceae	Solanum chilense	4	SOLCI001632700, SOLCI004247100, SOLCI005327100 ... SOLCI006560600
Solanaceae	Solanum pennellii	4	gene-LOC107005345, gene-LOC107014842, gene-LOC107023548 ... gene-LOC107026105
Tamaricaceae	Reaumuria soongarica	2	STRG.12436_chr02_+, gene_534
Tamaricaceae	Tamarix chinensis	2	TC05G0499, TC10G0975
Zosteraceae	Zostera marina	2	Zosma03g25420.v3.1, Zosma06g17400.v3.1