halophFGD

Basic Information

Locus ID: Ag3G01362

Species & Taxonomic ID: Apium graveolens & 4045

Genome Assembly: GCA_009905375.1

Description: CCR4-associated factor 1 homolog

Maps and Mapping Data

Chromosome	Start	End	Strand	ID
chr3	79172117	79173446	+	Ag3G01362

Protein Data

Protein Properties:

Theoretical pI	Molecular Weight	Instability Index	Aliphatic Index	GRAVY
4.99	33,204.93 Da	31.90	96.81	0.07

Protein Domain:

Category	ID	Description	Start	End	Evalue/Score	InterPro ID
Pfam	PF04857	CAF1 family ribonuclease	33	154	1.4E-10	IPR006941
SUPERFAMILY	SSF53098	Ribonuclease H-like	30	283	1.1E-89	IPR012337
Gene3D	G3DSA:3.30.420.10	-	17	287	2.9E-100	IPR036397

Gene Ontology

Molecular Function:

GO:0003676 (nucleic acid binding)

KEGG Pathway

KO Term:

K12581 (CCR4-NOT transcription complex subunit 7/8)

Pathway:

ko03018 (RNA degradation) map03018 (RNA degradation)

Best hit

Source	Best Hit ID	Description
TAIR	AT2G32070.1	Polynucleotidyl transferase, ribonuclease H-like superfamily protein.
RefSeq	XP_017244254.1	PREDICTED: probable CCR4-associated factor 1 homolog 7 [Daucus carota subsp. sativus]
Swiss-Prot	Q9SKZ2	Probable CCR4-associated factor 1 homolog 7 OS=Arabidopsis thaliana OX=3702 GN=CAF1-7 PE=2 SV=2
TrEMBL	A0A5B6Z583	poly(A)-specific ribonuclease OS=Davidia involucrata OX=16924 GN=Din_008858 PE=3 SV=1

Expression

BioProject	Accession	TPM	Cultivar	Tissue	Development Stage	Sample Name	Description
PRJNA723697	SRX10692252	84.410835	Shengqin NO.2	seed	S1-1	S1-1	initial formation stage (S1)
PRJNA723697	SRX10692254	32.075245	Shengqin NO.2	seed	S1-3	S1-3	initial formation stage (S1)
PRJNA723697	SRX10692255	40.09819	Shengqin NO.2	seed	S3-1	S3-1	middle development stage (S3)
PRJNA723697	SRX10692256	37.567776	Shengqin NO.2	seed	S3-2	S3-2	middle development stage (S3)
PRJNA723697	SRX10692257	34.659721	Shengqin NO.2	seed	S3-3	S3-3	middle development stage (S3)
PRJNA723697	SRX10692258	26.267513	Shengqin NO.2	seed	S5-1	S5-1	maturation stage (S5)
PRJNA723697	SRX10692259	29.37851	Shengqin NO.2	seed	S5-2	S5-2	maturation stage (S5)
PRJNA723697	SRX10692260	25.535505	Shengqin NO.2	seed	S5-3	S5-3	maturation stage (S5)
PRJNA884666	SRX17729272	48.254059	celery	anther		W99A-r1	male sterile lineÂ
PRJNA884666	SRX17729273	55.932579	celery	anther		W99A-r2	male sterile lineÂ
PRJNA884666	SRX17729274	54.78537	celery	anther		W99A-r3	male sterile lineÂ
PRJNA884666	SRX17729275	48.928219	celery	anther		W99B-r1	maintainer line
PRJNA884666	SRX17729276	48.421375	celery	anther		W99B-r2	maintainer line
PRJNA884666	SRX17729277	45.674747	celery	anther		W99B-r3	maintainer line
PRJNA884180	SRX17743889	14.839705	var. secalinum Yablochny	collenchyma		Col_S1_rep1-1
PRJNA884180	SRX17748056	9.259995	var. secalinum Yablochny	collenchyma		Col_S1_rep3	biological replicate 3
PRJNA884180	SRX17748057	10.505884	var. secalinum Yablochny	collenchyma		Col_S1_rep4	biological replicate 4
PRJNA884180	SRX17748678	9.783115	var. secalinum Yablochny	parenchyma		Par_S1_rep1	Biological replicate 1
PRJNA884180	SRX17748679	13.084291	var. secalinum Yablochny	parenchyma		Par_S1_rep2	Biological replicate 2
PRJNA884180	SRX17748680	12.302571	var. secalinum Yablochny	parenchyma		Par_S1_rep3	Biological replicate 3
PRJNA884180	SRX17748681	12.897731	var. secalinum Yablochny	parenchyma		Par_S1_rep4	Biological replicate 4
PRJNA884180	SRX17748898	23.578403	var. secalinum Yablochny	vascular bundle		Vas_S1_rep1	Biological replicate 1
PRJNA884180	SRX17748899	19.815685	var. secalinum Yablochny	vascular bundle		Vas_S1_rep2	Biological replicate 2
PRJNA884180	SRX17748900	17.648136	var. secalinum Yablochny	vascular bundle		Vas_S1_rep3	Biological replicate 3
PRJNA884180	SRX17748901	18.03706	var. secalinum Yablochny	vascular bundle		Vas_S1_rep4	Biological replicate 4
PRJNA884180	SRX17749129	12.548496	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep1	Biological replicate 1
PRJNA884180	SRX17749130	11.634315	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep2	Biological replicate 2
PRJNA884180	SRX17749131	12.822532	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep3	Biological replicate 3
PRJNA884180	SRX17749132	8.269617	var. secalinum Yablochny	part of the celery petiole without collenchyma strands		Collenchyma-free_S1_rep4	Biological replicate 4
PRJNA1124269	SRX24936411	11.401275		leaf		CK1	replicate=biological replicate1
PRJNA1124269	SRX24936412	12.319656		leaf		CK2	replicate=biological replicate2
PRJNA1124269	SRX24936413	13.691822		leaf		CK3	replicate=biological replicate3
PRJNA1124269	SRX24936414	13.370018		leaf		D1	replicate=biological replicate1
PRJNA1124269	SRX24936415	37.610519		leaf		D2	replicate=biological replicate2
PRJNA1124269	SRX24936416	14.332425		leaf		D3	replicate=biological replicate3
PRJNA1124269	SRX24936417	15.917608		leaf		MD1	replicate=biological replicate1
PRJNA1124269	SRX24936418	6.183536		leaf		MD2	replicate=biological replicate2
PRJNA1124269	SRX24936419	11.172076		leaf		MD3	replicate=biological replicate3
PRJNA387092	SRX2833309	14.102407	shanghaihuangxin	leaf	leaves between 0.5 and 1 cm in breadth, folded;	stage 2
PRJNA387092	SRX2833321	7.287185	shanghaihuangxin	leaf	leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion	stage 5
PRJNA387092	SRX2833323	4.464494	shanghaihuangxin	leaf	leaves >3 cm, unfolded, with clearstem extension	stage 7
PRJNA543957	SRX5879598	13.825517	Zhangzhou lvqing	stem		Se3	100 ppm Na2SeO4
PRJNA543957	SRX5879599	10.94308	Zhangzhou lvqing	stem		Se2	100 ppm Na2SeO4
PRJNA543957	SRX5879600	13.987297	Zhangzhou lvqing	stem		Mock2	mock
PRJNA543957	SRX5879601	8.78617	Zhangzhou lvqing	stem		Mock1	mock
PRJNA543957	SRX5879602	21.600651	Zhangzhou lvqing	stem		Se1	100 ppm Na2SeO4
PRJNA543957	SRX5879603	11.561055	Zhangzhou lvqing	stem		Mock3	mock
PRJNA609149	SRX7815917	59.41991	Jinnan Shiqin	flower bud	early flower bud	early flower bud
PRJNA609149	SRX7815918	48.871975	Jinnan Shiqin	flower bud	middle flower bud	middle flower bud
PRJNA609149	SRX7815919	49.867764	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	jg13473, jg18303, jg4632, jg7965
Aizoaceae	Mesembryanthemum crystallinum	2	gene_13269, gene_21445
Amaranthaceae	Atriplex hortensis	2	Ah009210, Ah034825
Amaranthaceae	Beta vulgaris	2	BVRB_2g031260, BVRB_9g223140
Amaranthaceae	Salicornia bigelovii	3	Sbi_jg11688, Sbi_jg21071, Sbi_jg22730
Amaranthaceae	Salicornia europaea	2	Seu_jg16605, Seu_jg20936
Amaranthaceae	Suaeda aralocaspica	2	GOSA_00005086, GOSA_00018282
Amaranthaceae	Suaeda glauca	6	Sgl60622, Sgl62400, Sgl66949, Sgl70922, Sgl72218, Sgl74496
Amaranthaceae	Chenopodium album	6	gene:ENSEOMG00000016566, gene:ENSEOMG00000017326 ... gene:ENSEOMG00000019234, gene:ENSEOMG00000037244, gene:ENSEOMG00000050925, gene:ENSEOMG00000052684
Amaranthaceae	Chenopodium quinoa	4	CQ.Regalona.r1.1BG0021910, CQ.Regalona.r1.2AG0023710 ... CQ.Regalona.r1.7BG0000080, CQ.Regalona.r1.9AG0024340
Anacardiaceae	Pistacia vera	1	pistato.v30250800
Apiaceae	Apium graveolens	3	Ag3G01362, Ag7G01895, Ag9G01193
Arecaceae	Cocos nucifera	4	COCNU_01G005280, COCNU_08G003950, contig69218186G000010 ... scaffold015856G000020
Arecaceae	Phoenix dactylifera	3	gene-LOC103710413, gene-LOC103712200, gene-LOC103714228
Asparagaceae	Asparagus officinalis	2	AsparagusV1_05.3364.V1.1, AsparagusV1_05.3469.V1.1
Asteraceae	Flaveria trinervia	3	Ftri16G00648, Ftri18G24347, Ftri2G23221
Brassicaceae	Arabidopsis thaliana	4	AT1G15920.2, AT1G80780.3, AT2G32070.1, AT5G10960.1
Brassicaceae	Eutrema salsugineum	3	Thhalv10014350m.g.v1.0, Thhalv10017059m.g.v1.0 ... Thhalv10018990m.g.v1.0
Brassicaceae	Schrenkiella parvula	3	Sp4g14480.v2.2, Sp5g34960.v2.2, Sp6g32530.v2.2
Brassicaceae	Brassica nigra	4	BniB02g051040.2N, BniB05g075340.2N, BniB06g068170.2N ... BniB08g004440.2N
Casuarinaceae	Casuarina equisetifolia	1	Ceq02G0400
Casuarinaceae	Casuarina glauca	2	Cgl02G0426, Cgl03G2676
Cymodoceaceae	Cymodocea nodosa	2	gene.Cymno01g06320, gene.Cymno02g05250
Dunaliellaceae	Dunaliella salina	1	Dusal.0690s00005.v1.0
Hydrocharitaceae	Thalassia testudinum	3	gene.Thate04g29420, gene.Thate05g06260, gene.Thate07g07720
Malvaceae	Hibiscus hamabo Siebold & Zucc.	3	nbisL1-mrna-315, nbisL1-mrna-3304, nbisL1-mrna-8152
Nitrariaceae	Nitraria sibirica	3	evm.TU.LG01.806, evm.TU.LG07.1513, evm.TU.LG07.247
Plantaginaceae	Plantago ovata	2	Pov_00004795, Pov_00034471
Plumbaginaceae	Limonium bicolor	1	Lb2G12463
Poaceae	Echinochloa crus-galli	6	AH03.1926, AH07.3782, AH08.1683, BH08.1739, CH03.2263 ... CH08.1883
Poaceae	Eleusine coracana subsp. coracana	6	gene-QOZ80_2AG0148960, gene-QOZ80_2BG0205250 ... gene-QOZ80_6AG0535240, gene-QOZ80_6BG0488480, gene-QOZ80_8AG0632220, gene-QOZ80_8BG0661210
Poaceae	Hordeum vulgare	3	HORVU.MOREX.r3.5HG0484150.1.CDS1 ... HORVU.MOREX.r3.6HG0624290.1.CDS1, HORVU.MOREX.r3.7HG0696100.1
Poaceae	Lolium multiflorum	5	gene-QYE76_005114, gene-QYE76_005196, gene-QYE76_026003 ... gene-QYE76_026004, gene-QYE76_031366
Poaceae	Oryza coarctata	5	Oco03G024250, Oco15G009350, Oco16G008770, Oco17G004900 ... Oco18G004940
Poaceae	Oryza sativa	3	LOC_Os02g55300.1, LOC_Os08g34170.1, LOC_Os09g24990.2
Poaceae	Paspalum vaginatum	3	gene-BS78_02G183400, gene-BS78_04G306100 ... gene-BS78_07G149100
Poaceae	Puccinellia tenuiflora	2	Pt_Chr0206282, Pt_Chr0702185
Poaceae	Sporobolus alterniflorus	8	Chr09G017700, Chr10G009960, Chr13G001880, Chr14G014010 ... Chr16G015070, Chr17G014530, Chr18G007640, Chr21G013070
Poaceae	Thinopyrum elongatum	3	Tel5E01G369500, Tel6E01G637400, Tel7E01G510200
Poaceae	Triticum dicoccoides	6	gene_TRIDC5AG036120, gene_TRIDC5BG038010 ... gene_TRIDC6AG053740, gene_TRIDC6BG062640, gene_TRIDC7AG041200, gene_TRIDC7BG032350
Poaceae	Triticum aestivum	3	TraesCS6A02G358700.1.cds1, TraesCS6B02G391400.1.cds1 ... TraesCS6D02G341500.1.cds1
Poaceae	Zea mays	5	Zm00001eb041180_P001, Zm00001eb179830_P001 ... Zm00001eb192370_P001, Zm00001eb257850_P001, Zm00001eb312820_P001
Poaceae	Zoysia japonica	4	nbis-gene-17057, nbis-gene-20044, nbis-gene-30820 ... nbis-gene-8428
Poaceae	Zoysia macrostachya	5	Zma_g14623, Zma_g17329, Zma_g24128, Zma_g30322, Zma_g32412
Portulacaceae	Portulaca oleracea	3	evm.TU.LG05.1545, evm.TU.LG07.1215, evm.TU.LG08.998
Posidoniaceae	Posidonia oceanica	2	gene.Posoc02g24120, gene.Posoc03g12630
Rhizophoraceae	Bruguiera sexangula	3	evm.TU.Scaffold_11_RagTag.620, evm.TU.Scaffold_11_RagTag.622 ... evm.TU.Scaffold_18_RagTag.247
Rhizophoraceae	Carallia pectinifolia	2	nbisL1-mrna-28335, nbisL1-mrna-6702
Rhizophoraceae	Ceriops tagal	3	nbisL1-mrna-1686, nbisL1-mrna-20937, nbisL1-mrna-2575
Rhizophoraceae	Ceriops zippeliana	4	nbisL1-mrna-12254, nbisL1-mrna-12255, nbisL1-mrna-7748 ... nbisL1-mrna-7749
Rhizophoraceae	Kandelia candel	5	add.evm.TU.utg000005l.24, add.evm.TU.utg000005l.25 ... add.evm.TU.utg000022l.105, add.evm.TU.utg000023l.123, add.evm.TU.utg000023l.124
Rhizophoraceae	Kandelia obovata	3	Maker00008639, Maker00018718, Maker00018765
Rhizophoraceae	Rhizophora apiculata	4	nbisL1-mrna-17130, nbisL1-mrna-17131, nbisL1-mrna-22427 ... nbisL1-mrna-22428
Rhizophoraceae	Rhizophora mangle	3	nbisL1-mrna-20688, nbisL1-mrna-21515, nbisL1-mrna-21517
Salicaceae	Populus euphratica	4	populus_peu04092, populus_peu12249, populus_peu12987 ... populus_peu34924
Solanaceae	Lycium barbarum	4	gene-LOC132598921, gene-LOC132606205, gene-LOC132633028 ... gene-LOC132633030
Solanaceae	Solanum chilense	3	SOLCI002190200, SOLCI003338800, SOLCI003774000
Solanaceae	Solanum pennellii	3	gene-LOC107004739, gene-LOC107012132, gene-LOC107023281
Tamaricaceae	Reaumuria soongarica	2	STRG.12375_chr02_-, STRG.1238_chr01_+
Tamaricaceae	Tamarix chinensis	3	TC01G0995, TC10G1047, TC10G2405
Zosteraceae	Zostera marina	2	Zosma03g06320.v3.1, Zosma06g16020.v3.1