HalophFGD

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Basic Information
Locus ID: Ag8G00225
Species & Taxonomic ID: Apium graveolens & 4045
Genome Assembly: GCA_009905375.1
Description: RING-type E3 ubiquitin transferase
Maps and Mapping Data
Chromosome Start End Strand ID
chr8 4635800 4642755 - Ag8G00225
Protein Data
Protein Properties:
Theoretical pI Molecular Weight Instability Index Aliphatic Index GRAVY
4.88 147,740.95 Da 41.37 95.11 -0.16
Protein Domain:
Category ID Description Start End Evalue/Score InterPro ID
CDD cd16664 RING-Ubox_PUB 388 430 9.15123E-19 -
Pfam PF00400 WD domain, G-beta repeat 1078 1113 8.6E-4 IPR001680
Pfam PF04564 U-box domain 385 455 2.6E-14 IPR003613
SUPERFAMILY SSF57850 RING/U-box 382 455 1.41E-20 -
SUPERFAMILY SSF50978 WD40 repeat-like 1053 1323 1.77E-35 IPR036322
SUPERFAMILY SSF48371 ARM repeat 25 1006 2.08E-8 IPR016024
SUPERFAMILY SSF48371 ARM repeat 536 837 8.78E-11 IPR016024
Gene3D G3DSA:2.130.10.10 - 1150 1324 3.1E-13 IPR015943
Gene3D G3DSA:1.25.10.10 - 652 1035 1.6E-7 IPR011989
Gene3D G3DSA:3.30.40.10 Zinc/RING finger domain, C3HC4 (zinc finger) 374 470 1.1E-23 IPR013083
Gene3D G3DSA:2.130.10.10 - 1036 1148 1.1E-15 IPR015943
SMART SM00320 WD40_4 1243 1279 150.0 IPR001680
SMART SM00504 Ubox_2 387 451 7.8E-24 IPR003613
SMART SM00320 WD40_4 1282 1322 0.87 IPR001680
SMART SM00320 WD40_4 1074 1113 2.5E-6 IPR001680
SMART SM00320 WD40_4 1032 1069 4.6 IPR001680
SMART SM00320 WD40_4 1148 1191 280.0 IPR001680
ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 1081 1117 13.750016 IPR001680
ProSiteProfiles PS50294 Trp-Asp (WD) repeats circular profile. 1290 1324 9.651964 -
ProSiteProfiles PS50294 Trp-Asp (WD) repeats circular profile. 1081 1117 11.391954 -
ProSiteProfiles PS51698 U-box domain profile. 383 458 28.829903 IPR003613
ProSiteProfiles PS50082 Trp-Asp (WD) repeats profile. 1290 1324 9.873505 IPR001680
ProSitePatterns PS00678 Trp-Asp (WD) repeats signature. 1100 1114 - IPR019775
MobiDBLite mobidb-lite consensus disorder prediction 318 351 - -
Coils Coil Coil 188 208 - -
Gene Ontology
Biological Process:
GO:0016567 (protein ubiquitination)
Molecular Function:
GO:0004842 (ubiquitin-protein transferase activity) GO:0005515 (protein binding)
Best hit
Source Best Hit ID Description E-value
TAIR AT3G06880.2 Transducin/WD40 repeat-like superfamily protein. 0
RefSeq XP_017220818.1 PREDICTED: putative E3 ubiquitin-protein ligase LIN-1 isoform X2 [Daucus carota subsp. sativus] 0
Swiss-Prot C6L7U1 Putative E3 ubiquitin-protein ligase LIN-1 OS=Lotus japonicus OX=34305 GN=CERBERUS PE=2 SV=2 0
TrEMBL A0A175YK85 RING-type E3 ubiquitin transferase OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_028695 PE=3 SV=1 0
Expression
First Prev Next Last
BioProject Accession TPM Cultivar Tissue Development Stage Sample Name Description
PRJNA723697SRX106922522.603637Shengqin NO.2seedS1-1S1-1initial formation stage (S1)
PRJNA723697SRX106922542.665584Shengqin NO.2seedS1-3S1-3initial formation stage (S1)
PRJNA723697SRX106922551.49075Shengqin NO.2seedS3-1S3-1middle development stage (S3)
PRJNA723697SRX106922561.329032Shengqin NO.2seedS3-2S3-2middle development stage (S3)
PRJNA723697SRX106922571.532739Shengqin NO.2seedS3-3S3-3middle development stage (S3)
PRJNA723697SRX106922580.92949Shengqin NO.2seedS5-1S5-1maturation stage (S5)
PRJNA723697SRX106922591.246818Shengqin NO.2seedS5-2S5-2maturation stage (S5)
PRJNA723697SRX106922601.514973Shengqin NO.2seedS5-3S5-3maturation stage (S5)
PRJNA884666SRX177292723.394959celeryantherW99A-r1male sterile line 
PRJNA884666SRX177292732.427282celeryantherW99A-r2male sterile line 
PRJNA884666SRX177292742.962407celeryantherW99A-r3male sterile line 
PRJNA884666SRX177292753.344366celeryantherW99B-r1maintainer line
PRJNA884666SRX177292762.557243celeryantherW99B-r2maintainer line
PRJNA884666SRX177292771.923696celeryantherW99B-r3maintainer line
PRJNA884180SRX177438892.420303var. secalinum YablochnycollenchymaCol_S1_rep1-1
PRJNA884180SRX177480564.390953var. secalinum YablochnycollenchymaCol_S1_rep3biological replicate 3
PRJNA884180SRX177480573.871212var. secalinum YablochnycollenchymaCol_S1_rep4biological replicate 4
PRJNA884180SRX177486789.57618var. secalinum YablochnyparenchymaPar_S1_rep1Biological replicate 1
PRJNA884180SRX177486794.523196var. secalinum YablochnyparenchymaPar_S1_rep2Biological replicate 2
PRJNA884180SRX177486805.68755var. secalinum YablochnyparenchymaPar_S1_rep3Biological replicate 3
PRJNA884180SRX177486816.800952var. secalinum YablochnyparenchymaPar_S1_rep4Biological replicate 4
PRJNA884180SRX177488981.723401var. secalinum Yablochnyvascular bundleVas_S1_rep1Biological replicate 1
PRJNA884180SRX177488992.11824var. secalinum Yablochnyvascular bundleVas_S1_rep2Biological replicate 2
PRJNA884180SRX177489001.24244var. secalinum Yablochnyvascular bundleVas_S1_rep3Biological replicate 3
PRJNA884180SRX177489011.649516var. secalinum Yablochnyvascular bundleVas_S1_rep4Biological replicate 4
PRJNA884180SRX177491294.901874var. secalinum Yablochnypart of the celery petiole without collenchyma strandsCollenchyma-free_S1_rep1Biological replicate 1
PRJNA884180SRX177491305.956153var. secalinum Yablochnypart of the celery petiole without collenchyma strandsCollenchyma-free_S1_rep2Biological replicate 2
PRJNA884180SRX177491314.712092var. secalinum Yablochnypart of the celery petiole without collenchyma strandsCollenchyma-free_S1_rep3Biological replicate 3
PRJNA884180SRX177491322.897027var. secalinum Yablochnypart of the celery petiole without collenchyma strandsCollenchyma-free_S1_rep4Biological replicate 4
PRJNA1124269SRX249364111.610424leafCK1replicate=biological replicate1
PRJNA1124269SRX249364123.756051leafCK2replicate=biological replicate2
PRJNA1124269SRX249364132.74338leafCK3replicate=biological replicate3
PRJNA1124269SRX249364140.702516leafD1replicate=biological replicate1
PRJNA1124269SRX249364151.081514leafD2replicate=biological replicate2
PRJNA1124269SRX249364161.004978leafD3replicate=biological replicate3
PRJNA1124269SRX249364170.317988leafMD1replicate=biological replicate1
PRJNA1124269SRX249364180.738651leafMD2replicate=biological replicate2
PRJNA1124269SRX249364190.485291leafMD3replicate=biological replicate3
PRJNA387092SRX28333094.862253shanghaihuangxinleafleaves between 0.5 and 1 cm in breadth, folded;stage 2
PRJNA387092SRX28333213.742436shanghaihuangxinleafleaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sionstage 5
PRJNA387092SRX28333235.182072shanghaihuangxinleafleaves >3 cm, unfolded, with clearstem extensionstage 7
PRJNA543957SRX58795983.076158Zhangzhou lvqingstemSe3100 ppm Na2SeO4
PRJNA543957SRX58795991.707371Zhangzhou lvqingstemSe2100 ppm Na2SeO4
PRJNA543957SRX58796001.053434Zhangzhou lvqingstemMock2mock
PRJNA543957SRX58796010.221666Zhangzhou lvqingstemMock1mock
PRJNA543957SRX58796021.466964Zhangzhou lvqingstemSe1100 ppm Na2SeO4
PRJNA543957SRX58796031.348796Zhangzhou lvqingstemMock3mock
PRJNA609149SRX78159174.087078Jinnan Shiqinflower budearly flower budearly flower bud
PRJNA609149SRX78159183.534628Jinnan Shiqinflower budmiddle flower budmiddle flower bud
PRJNA609149SRX78159193.426726Jinnan Shiqinflower budearly flowering periodearly flowering period
Network
🔍 Co-expression Network
🔍 Protein-Protein Interaction Network
Orthology
Family Species Count Orthologous Genes
Acanthaceae Avicennia marina 6 jg11768, jg11769, jg11770, jg11771, jg31633, jg31634
Anacardiaceae Pistacia vera 2 pistato.v30049320, pistato.v30256780
Apiaceae Apium graveolens 3 Ag2G02459, Ag3G02527, Ag8G00225
Arecaceae Cocos nucifera 2 COCNU_03G011900, COCNU_07G002000
Arecaceae Phoenix dactylifera 2 gene-LOC103702597, gene-LOC103706139
Asparagaceae Asparagus officinalis 3 AsparagusV1_01.1751.V1.1, AsparagusV1_03.2268.V1.1 ...
AsparagusV1_04.824.V1.1
Asteraceae Flaveria trinervia 3 Ftri4G07535, Ftri7G18227, Ftri8G01620
Casuarinaceae Casuarina equisetifolia 2 Ceq03G0877, Ceq06G1516
Casuarinaceae Casuarina glauca 2 Cgl03G0956, Cgl06G1574
Malvaceae Hibiscus hamabo Siebold & Zucc. 2 nbisL1-mrna-141, nbisL1-mrna-8648
Nitrariaceae Nitraria sibirica 2 evm.TU.LG06.710, evm.TU.LG07.1111
Plantaginaceae Plantago ovata 2 Pov_00003863, Pov_00020671
Poaceae Echinochloa crus-galli 4 AH02.91, BH01.509, BH02.80, CH02.102
Poaceae Eleusine coracana subsp. coracana 2 gene-QOZ80_1AG0000840, gene-QOZ80_1BG0049330
Poaceae Hordeum vulgare 1 HORVU.MOREX.r3.3HG0248980.1
Poaceae Lolium multiflorum 3 gene-QYE76_051444, gene-QYE76_051560, gene-QYE76_051566
Poaceae Oryza coarctata 2 Oco01G005770, Oco02G005870
Poaceae Oryza sativa 1 LOC_Os01g12930.1
Poaceae Paspalum vaginatum 1 gene-BS78_03G006500
Poaceae Puccinellia tenuiflora 1 Pt_Chr0204871
Poaceae Sporobolus alterniflorus 1 Chr21G016220
Poaceae Thinopyrum elongatum 1 Tel3E01G274000
Poaceae Triticum dicoccoides 2 gene_TRIDC3AG020830, gene_TRIDC3BG031130
Poaceae Triticum aestivum 3 TraesCS3A02G154900.1, TraesCS3B02G181200.1 ...
TraesCS3D02G162400.1
Poaceae Zea mays 1 Zm00001eb119290_P001
Poaceae Zoysia japonica 5 nbis-gene-24273, nbis-gene-24274, nbis-gene-32721 ...
nbis-gene-32722, nbis-gene-32723
Poaceae Zoysia macrostachya 2 Zma_g7183, Zma_g9505
Rhizophoraceae Bruguiera sexangula 3 evm.TU.Scaffold_10_RagTag.437, evm.TU.Scaffold_4_RagTag.1931 ...
evm.TU.Scaffold_7_RagTag.428
Rhizophoraceae Carallia pectinifolia 3 nbisL1-mrna-13099, nbisL1-mrna-16388, nbisL1-mrna-25645
Rhizophoraceae Ceriops tagal 2 nbisL1-mrna-12295, nbisL1-mrna-6585
Rhizophoraceae Ceriops zippeliana 4 nbisL1-mrna-13044, nbisL1-mrna-13045, nbisL1-mrna-16830 ...
nbisL1-mrna-16831
Rhizophoraceae Kandelia candel 4 add.evm.TU.utg000018l.158, add.evm.TU.utg000033l.95 ...
evm.TU.utg000002l.484, evm.TU.utg000008l.1103
Rhizophoraceae Kandelia obovata 3 Maker00000143, Maker00011993, Maker00014879
Rhizophoraceae Rhizophora apiculata 2 nbisL1-mrna-20232, nbisL1-mrna-23194
Salicaceae Populus euphratica 5 populus_peu15357, populus_peu21947, populus_peu33000 ...
populus_peu33001, populus_peu33002
Solanaceae Lycium barbarum 2 gene-LOC132603413, gene-LOC132622109
Solanaceae Solanum pennellii 3 gene-LOC107017250, gene-LOC107025502, gene-LOC114077896
Maintained by Hengyu Yan - College of Agronomy - Qingdao Agricultural University © 2024 All Rights Reserved.