halophFGD

Basic Information

Locus ID: Ag7G01979

Species & Taxonomic ID: Apium graveolens & 4045

Genome Assembly: GCA_009905375.1

Short Name: MSI1

Description: WD-40 repeat-containing protein

Maps and Mapping Data

Chromosome	Start	End	Strand	ID
chr7	240160027	240162944	+	Ag7G01979

Protein Data

Protein Properties:

Theoretical pI	Molecular Weight	Instability Index	Aliphatic Index	GRAVY
4.49	23,320.22 Da	55.97	84.78	-0.66

Protein Domain:

Category	ID	Description	Start	End	Evalue/Score	InterPro ID
Pfam	PF12265	Histone-binding protein RBBP4 or subunit C of CAF1 complex	25	94	3.5E-27	IPR022052
SUPERFAMILY	SSF50978	WD40 repeat-like	125	183	4.58E-6	IPR036322
Gene3D	G3DSA:2.130.10.10	-	7	186	1.1E-46	IPR015943

Gene Ontology

Molecular Function:

GO:0005515 (protein binding)

KEGG Pathway

KO Term:

K10752 (histone-binding protein RBBP4)

Pathway:

ko04218 (Cellular senescence) map04218 (Cellular senescence)

Best hit

Source	Best Hit ID	Description
TAIR	AT5G58230.1	Transducin/WD40 repeat-like superfamily protein. Encodes a WD-40 repeat containing protein that functions in chromatin assembly as part of the CAF1 and FIE complex. Mutants exhibit parthenogenetic development that includes proliferation of unfertilized endosperm and embryos. In heterozygous plants 50% of embryos abort. Of the aborted embryos the early aborted class are homozygous and the later aborting lass are heterozygotes in which the defective allele is maternally transmitted. Other phenotypes include defects in ovule morphogenesis and organ initiation,as well as increased levels of heterochromatic DNA. MSI1 is needed for the transition to flowering. In Arabidopsis, the three CAF-1 subunits are encoded by FAS1, FAS2 and, most likely, MSI1, respectively. Mutations in FAS1 or FAS2 lead to increased frequency of homologous recombination and T-DNA integration in Arabidopsis. In the ovule, the MSI1 transcripts are accumulated at their highest level before fertilization and gradually decrease after fertilization. MSI is biallelically expressed, the paternall allele is expressed in the endosperm and embryo and is not imprinted. MSI1 forms a complex with RBR1 that is required for activation of the imprinted genes FIS2 and FWA. This activation is mediated by MSI1/RBR1 mediated repression of MET1.
RefSeq	XP_010923693.1	histone-binding protein MSI1 homolog isoform X2 [Elaeis guineensis]
Swiss-Prot	O22466	Histone-binding protein MSI1 OS=Solanum lycopersicum OX=4081 GN=MSI1 PE=2 SV=1
TrEMBL	A0A6I9RIA8	histone-binding protein MSI1 homolog isoform X2 OS=Elaeis guineensis var. tenera OX=51953 GN=LOC105046716 PE=3 SV=1

Expression

BioProject	Accession	TPM	Cultivar	Tissue	Development Stage	Sample Name	Description
PRJNA723697	SRX10692252	165.424957	Shengqin NO.2	seed	S1-1	S1-1	initial formation stage (S1)
PRJNA723697	SRX10692254	114.055161	Shengqin NO.2	seed	S1-3	S1-3	initial formation stage (S1)
PRJNA723697	SRX10692255	96.091339	Shengqin NO.2	seed	S3-1	S3-1	middle development stage (S3)
PRJNA723697	SRX10692256	95.457085	Shengqin NO.2	seed	S3-2	S3-2	middle development stage (S3)
PRJNA723697	SRX10692257	99.832077	Shengqin NO.2	seed	S3-3	S3-3	middle development stage (S3)
PRJNA723697	SRX10692258	78.972382	Shengqin NO.2	seed	S5-1	S5-1	maturation stage (S5)
PRJNA723697	SRX10692259	77.95578	Shengqin NO.2	seed	S5-2	S5-2	maturation stage (S5)
PRJNA723697	SRX10692260	63.165886	Shengqin NO.2	seed	S5-3	S5-3	maturation stage (S5)
PRJNA884666	SRX17729272	132.483521	celery	anther		W99A-r1	male sterile lineÂ
PRJNA884666	SRX17729273	132.394913	celery	anther		W99A-r2	male sterile lineÂ
PRJNA884666	SRX17729274	140.466522	celery	anther		W99A-r3	male sterile lineÂ
PRJNA884666	SRX17729275	144.738632	celery	anther		W99B-r1	maintainer line
PRJNA884666	SRX17729276	133.581268	celery	anther		W99B-r2	maintainer line
PRJNA884666	SRX17729277	131.46788	celery	anther		W99B-r3	maintainer line
PRJNA884180	SRX17743889	38.747135	var. secalinum Yablochny	collenchyma		Col_S1_rep1-1
PRJNA884180	SRX17748056	48.326778	var. secalinum Yablochny	collenchyma		Col_S1_rep3	biological replicate 3
PRJNA884180	SRX17748057	43.223732	var. secalinum Yablochny	collenchyma		Col_S1_rep4	biological replicate 4
PRJNA884180	SRX17748678	49.384777	var. secalinum Yablochny	parenchyma		Par_S1_rep1	Biological replicate 1
PRJNA884180	SRX17748679	44.713081	var. secalinum Yablochny	parenchyma		Par_S1_rep2	Biological replicate 2
PRJNA884180	SRX17748680	49.049923	var. secalinum Yablochny	parenchyma		Par_S1_rep3	Biological replicate 3
PRJNA884180	SRX17748681	46.027512	var. secalinum Yablochny	parenchyma		Par_S1_rep4	Biological replicate 4
PRJNA884180	SRX17748898	53.485363	var. secalinum Yablochny	vascular bundle		Vas_S1_rep1	Biological replicate 1
PRJNA884180	SRX17748899	58.70509	var. secalinum Yablochny	vascular bundle		Vas_S1_rep2	Biological replicate 2
PRJNA884180	SRX17748900	55.119781	var. secalinum Yablochny	vascular bundle		Vas_S1_rep3	Biological replicate 3
PRJNA884180	SRX17748901	60.315144	var. secalinum Yablochny	vascular bundle		Vas_S1_rep4	Biological replicate 4
PRJNA884180	SRX17749129	55.56958	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep1	Biological replicate 1
PRJNA884180	SRX17749130	51.649963	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep2	Biological replicate 2
PRJNA884180	SRX17749131	52.591061	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep3	Biological replicate 3
PRJNA884180	SRX17749132	59.97715	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep4	Biological replicate 4
PRJNA1124269	SRX24936411	21.075762		leaf		CK1	replicate=biological replicate1
PRJNA1124269	SRX24936412	30.080046		leaf		CK2	replicate=biological replicate2
PRJNA1124269	SRX24936413	26.202984		leaf		CK3	replicate=biological replicate3
PRJNA1124269	SRX24936414	82.048882		leaf		D1	replicate=biological replicate1
PRJNA1124269	SRX24936415	64.122444		leaf		D2	replicate=biological replicate2
PRJNA1124269	SRX24936416	84.05616		leaf		D3	replicate=biological replicate3
PRJNA1124269	SRX24936417	46.49577		leaf		MD1	replicate=biological replicate1
PRJNA1124269	SRX24936418	33.678665		leaf		MD2	replicate=biological replicate2
PRJNA1124269	SRX24936419	35.96796		leaf		MD3	replicate=biological replicate3
PRJNA387092	SRX2833309	48.541252	shanghaihuangxin	leaf	leaves between 0.5 and 1 cm in breadth, folded;	stage 2
PRJNA387092	SRX2833321	27.801767	shanghaihuangxin	leaf	leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion	stage 5
PRJNA387092	SRX2833323	17.552748	shanghaihuangxin	leaf	leaves >3 cm, unfolded, with clearstem extension	stage 7
PRJNA543957	SRX5879598	34.895409	Zhangzhou lvqing	stem		Se3	100 ppm Na2SeO4
PRJNA543957	SRX5879599	34.348801	Zhangzhou lvqing	stem		Se2	100 ppm Na2SeO4
PRJNA543957	SRX5879600	127.363434	Zhangzhou lvqing	stem		Mock2	mock
PRJNA543957	SRX5879601	87.125237	Zhangzhou lvqing	stem		Mock1	mock
PRJNA543957	SRX5879602	39.50333	Zhangzhou lvqing	stem		Se1	100 ppm Na2SeO4
PRJNA543957	SRX5879603	70.027969	Zhangzhou lvqing	stem		Mock3	mock
PRJNA609149	SRX7815917	101.228088	Jinnan Shiqin	flower bud	early flower bud	early flower bud
PRJNA609149	SRX7815918	81.978287	Jinnan Shiqin	flower bud	middle flower bud	middle flower bud
PRJNA609149	SRX7815919	83.966362	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	jg26393, jg28419, jg28873, jg30101
Aizoaceae	Mesembryanthemum crystallinum	2	gene_13100, gene_21909
Amaranthaceae	Atriplex hortensis	1	Ah009662
Amaranthaceae	Beta vulgaris	2	BVRB_2g034770, BVRB_9g214050
Amaranthaceae	Salicornia bigelovii	4	Sbi_jg12230, Sbi_jg20493, Sbi_jg23279, Sbi_jg47198
Amaranthaceae	Salicornia europaea	2	Seu_jg17076, Seu_jg21471
Amaranthaceae	Suaeda aralocaspica	2	GOSA_00009128, GOSA_00020443
Amaranthaceae	Suaeda glauca	6	Sgl55460, Sgl56111, Sgl61444, Sgl63540, Sgl68020, Sgl68024
Amaranthaceae	Chenopodium album	5	gene:ENSEOMG00000018069, gene:ENSEOMG00000019355 ... gene:ENSEOMG00000021669, gene:ENSEOMG00000048823, gene:ENSEOMG00000052523
Amaranthaceae	Chenopodium quinoa	4	CQ.Regalona.r1.2AG0013320, CQ.Regalona.r1.2BG0015290 ... CQ.Regalona.r1.7BG0002860, CQ.Regalona.r1.9AG0021760
Anacardiaceae	Pistacia vera	4	pistato.v30110120, pistato.v30212620, pistato.v30243100 ... pistato.v30279940
Apiaceae	Apium graveolens	3	Ag3G00792, Ag6G02374, Ag7G01979
Arecaceae	Cocos nucifera	3	COCNU_09G004560, COCNU_12G000390, COCNU_14G008890
Arecaceae	Phoenix dactylifera	4	gene-LOC103710495, gene-LOC103719231, gene-LOC103723090 ... gene-LOC120112753
Asparagaceae	Asparagus officinalis	4	AsparagusV1_03.2205.V1.1, AsparagusV1_06.1928.V1.1 ... AsparagusV1_06.1929.V1.1, AsparagusV1_07.2656.V1.1
Asteraceae	Flaveria trinervia	4	Ftri13G24913, Ftri15G11587, Ftri15G12518, Ftri15G27512
Brassicaceae	Arabidopsis thaliana	3	AT2G16780.1, AT4G35050.1, AT5G58230.1
Brassicaceae	Eutrema salsugineum	3	Thhalv10013638m.g.v1.0, Thhalv10022705m.g.v1.0 ... Thhalv10025286m.g.v1.0
Brassicaceae	Schrenkiella parvula	3	Sp3g29950.v2.2, Sp6g19890.v2.2, Sp7g32820.v2.2
Brassicaceae	Brassica nigra	6	BniB02g012940.2N, BniB02g037620.2N, BniB03g064170.2N ... BniB04g026550.2N, BniB05g037850.2N, BniB08g013340.2N
Casuarinaceae	Casuarina equisetifolia	1	Ceq07G1710
Casuarinaceae	Casuarina glauca	2	Cgl05G0979, Cgl07G1855
Cymodoceaceae	Cymodocea nodosa	2	gene.Cymno11g10790, gene.Cymno13g02630
Dunaliellaceae	Dunaliella salina	1	Dusal.0084s00027.v1.0
Hydrocharitaceae	Thalassia testudinum	3	gene.Thate02g00090, gene.Thate04g17070, gene.Thate07g18680
Malvaceae	Hibiscus hamabo Siebold & Zucc.	1	nbisL1-mrna-9461
Nitrariaceae	Nitraria sibirica	2	evm.TU.LG01.2304, evm.TU.LG08.317
Plantaginaceae	Plantago ovata	3	Pov_00002034, Pov_00007352, Pov_00037619
Plumbaginaceae	Limonium bicolor	5	Lb2G08459, Lb2G12725, Lb2G12726, Lb3G17633, Lb5G27625
Poaceae	Echinochloa crus-galli	6	AH01.1247, AH03.2770, BH01.1476, BH03.2915, CH03.3116 ... CH06.2650
Poaceae	Eleusine coracana subsp. coracana	3	gene-QOZ80_3AG0224440, gene-QOZ80_3BG0269480 ... gene-QOZ80_6AG0527890
Poaceae	Hordeum vulgare	2	HORVU.MOREX.r3.5HG0500740.1, HORVU.MOREX.r3.5HG0508600.1
Poaceae	Lolium multiflorum	2	gene-QYE76_007251, gene-QYE76_063518
Poaceae	Oryza coarctata	4	Oco05G018780, Oco06G019570, Oco17G010710, Oco18G010650
Poaceae	Oryza sativa	2	LOC_Os03g43890.1, LOC_Os09g36900.1
Poaceae	Paspalum vaginatum	2	gene-BS78_01G145400, gene-BS78_02G258500
Poaceae	Puccinellia tenuiflora	4	Pt_Chr0104479, Pt_Chr0104740, Pt_Chr0701064, Pt_Chr0701089
Poaceae	Sporobolus alterniflorus	7	Chr01G009470, Chr04G024760, Chr10G014410, Chr11G007880 ... Chr12G027520, Chr14G009940, Chr21G010090
Poaceae	Thinopyrum elongatum	4	Tel3E01G109700, Tel5E01G527000, Tel5E01G597900 ... Tel5E01G680900
Poaceae	Triticum dicoccoides	4	gene_TRIDC5AG048970, gene_TRIDC5AG055010 ... gene_TRIDC5BG052880, gene_TRIDC5BG058930
Poaceae	Triticum aestivum	7	TraesCS5A02G331900.1, TraesCS5B02G332200.1 ... TraesCS5B02G378700.1, TraesCS5D02G337800.1, TraesCS5D02G385600.1, TraesCS5D02G385800.1, TraesCSU02G072700.1
Poaceae	Zea mays	4	Zm00001eb050670_P002, Zm00001eb050680_P002 ... Zm00001eb218750_P001, Zm00001eb331890_P002
Poaceae	Zoysia japonica	5	nbis-gene-20452, nbis-gene-20453, nbis-gene-35216 ... nbis-gene-39616, nbis-gene-39617
Poaceae	Zoysia macrostachya	3	Zma_g3200, Zma_g32167, Zma_g880
Portulacaceae	Portulaca oleracea	4	evm.TU.LG07.860, evm.TU.LG08.1124, evm.TU.LG15.72 ... evm.TU.LG22.870
Posidoniaceae	Posidonia oceanica	2	gene.Posoc08g05540, gene.Posoc10g05400
Rhizophoraceae	Bruguiera sexangula	2	evm.TU.Scaffold_18_RagTag.147, evm.TU.Scaffold_2_RagTag.90
Rhizophoraceae	Carallia pectinifolia	2	nbisL1-mrna-28415, nbisL1-mrna-5119
Rhizophoraceae	Ceriops tagal	2	nbisL1-mrna-10998, nbisL1-mrna-19423
Rhizophoraceae	Ceriops zippeliana	2	nbisL1-mrna-19025, nbisL1-mrna-9346
Rhizophoraceae	Kandelia candel	2	evm.TU.utg000009l.1185, evm.TU.utg000034l.13
Rhizophoraceae	Kandelia obovata	2	Maker00005808, Maker00018781
Rhizophoraceae	Rhizophora apiculata	2	nbisL1-mrna-14125, nbisL1-mrna-15735
Rhizophoraceae	Rhizophora mangle	2	nbisL1-mrna-21156, nbisL1-mrna-22924
Salicaceae	Populus euphratica	8	populus_peu08700, populus_peu26699, populus_peu26743 ... populus_peu31132, populus_peu36650, populus_peu37870, populus_peu38113, populus_peu38130
Solanaceae	Lycium barbarum	2	gene-LOC132598732, gene-LOC132599329
Solanaceae	Solanum chilense	2	SOLCI002790400, SOLCI006583800
Solanaceae	Solanum pennellii	2	gene-LOC107003156, gene-LOC107008415
Tamaricaceae	Reaumuria soongarica	3	STRG.7683_chr05_+, gene_18049, gene_8872
Tamaricaceae	Tamarix chinensis	3	TC02G1002, TC10G0136, TC11G1524
Zosteraceae	Zostera marina	2	Zosma03g21330.v3.1, Zosma03g23820.v3.1