Basic Information
Locus ID:
nbisL1-mrna-20527
Species & Taxonomic ID:
Carallia pectinifolia & 98586
Genome Assembly:
GCA_037832335.1
Description:
E3 ubiquitin-protein ligase
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr09 | 1483425 | 1489022 | - | nbisL1-mrna-20527 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 6.44 | 76,858.82 Da | 54.31 | 78.68 | -0.36 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd16504 | RING-HC_COP1 | 61 | 106 | 4.55915E-24 | - |
| Pfam | PF13923 | Zinc finger, C3HC4 type (RING finger) | 65 | 102 | 2.5E-10 | - |
| Pfam | PF00400 | WD domain, G-beta repeat | 467 | 504 | 0.0055 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 553 | 589 | 2.4E-5 | IPR001680 |
| SUPERFAMILY | SSF50978 | WD40 repeat-like | 384 | 683 | 2.68E-55 | IPR036322 |
| SUPERFAMILY | SSF57850 | RING/U-box | 57 | 123 | 3.33E-19 | - |
| Gene3D | G3DSA:2.130.10.10 | - | 355 | 688 | 1.1E-154 | IPR015943 |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 43 | 155 | 3.6E-20 | IPR013083 |
| SMART | SM00320 | WD40_4 | 423 | 462 | 1.0 | IPR001680 |
| SMART | SM00184 | ring_2 | 65 | 102 | 1.2E-5 | IPR001841 |
| SMART | SM00320 | WD40_4 | 592 | 631 | 2.1 | IPR001680 |
| SMART | SM00320 | WD40_4 | 551 | 589 | 4.7E-9 | IPR001680 |
| SMART | SM00320 | WD40_4 | 646 | 685 | 460.0 | IPR001680 |
| SMART | SM00320 | WD40_4 | 368 | 412 | 0.14 | IPR001680 |
| SMART | SM00320 | WD40_4 | 508 | 547 | 0.061 | IPR001680 |
| SMART | SM00320 | WD40_4 | 465 | 505 | 2.3E-7 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 472 | 514 | 10.34136 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 558 | 591 | 10.601049 | - |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 558 | 598 | 13.649761 | IPR001680 |
| ProSiteProfiles | PS50089 | Zinc finger RING-type profile. | 65 | 102 | 11.781134 | IPR001841 |
| ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 576 | 590 | - | IPR019775 |
| ProSitePatterns | PS00518 | Zinc finger RING-type signature. | 80 | 89 | - | IPR017907 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 576 | 590 | 8.2E-5 | IPR020472 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 449 | 463 | 8.2E-5 | IPR020472 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 492 | 506 | 8.2E-5 | IPR020472 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 21 | - | - |
| Coils | Coil | Coil | 151 | 174 | - | - |
| Coils | Coil | Coil | 195 | 215 | - | - |
Gene Ontology
Molecular Function:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT2G32950.1 | Transducin/WD40 repeat-like superfamily protein. Represses photomorphogenesis and induces skotomorphogenesis in the dark. Contains a ring finger zinc-binding motif, a coiled-coil domain, and several WD-40 repeats, similar to G-beta proteins. The C-terminus has homology to TAFII80, a subunit of the TFIID component of the RNA polymerase II of Drosophila. Nuclear localization in the dark and cytoplasmic in the light. | 0 |
| RefSeq | XP_002534127.2 | E3 ubiquitin-protein ligase COP1 [Ricinus communis] | 0 |
| P43254 | E3 ubiquitin-protein ligase COP1 OS=Arabidopsis thaliana OX=3702 GN=COP1 PE=1 SV=2 | 0 | |
| TrEMBL | A0A2P2KZ01 | Ubiquitin ligase protein cop1 OS=Rhizophora mucronata OX=61149 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| No sample metadata found. | |||||||
Network
No network data available for this species.
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 3 | jg24134, jg24775, jg38579 |
| Aizoaceae | Mesembryanthemum crystallinum | 2 | gene_20601, gene_21986 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah038322 |
| Amaranthaceae | Beta vulgaris | 2 | BVRB_8g185250, BVRB_9g204280 |
| Amaranthaceae | Salicornia bigelovii | 4 | Sbi_jg14464, Sbi_jg40234, Sbi_jg50220, Sbi_jg53841 |
| Amaranthaceae | Salicornia europaea | 2 | Seu_jg10340, Seu_jg1818 |
| Amaranthaceae | Suaeda aralocaspica | 2 | GOSA_00011396, GOSA_00012661 |
| Amaranthaceae | Suaeda glauca | 6 | Sgl41576, Sgl41616, Sgl46385, Sgl46412, Sgl78203, Sgl80695 |
| Amaranthaceae | Chenopodium album | 8 | gene:ENSEOMG00000008754, gene:ENSEOMG00000011065 ... |
| Amaranthaceae | Chenopodium quinoa | 4 | CQ.Regalona.r1.8AG0001130, CQ.Regalona.r1.8BG0001040 ... |
| Anacardiaceae | Pistacia vera | 2 | pistato.v30017840, pistato.v30067900 |
| Apiaceae | Apium graveolens | 2 | Ag3G00015, Ag8G00720 |
| Arecaceae | Cocos nucifera | 1 | COCNU_01G010060 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103718513 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_08.1838.V1.1 |
| Asteraceae | Flaveria trinervia | 2 | Ftri4G03918, Ftri5G03367 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT2G32950.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10016348m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp4g15310.v2.2 |
| Brassicaceae | Brassica nigra | 2 | BniB01g011290.2N, BniB06g022040.2N |
| Casuarinaceae | Casuarina equisetifolia | 2 | Ceq02G2341, Ceq04G1673 |
| Casuarinaceae | Casuarina glauca | 2 | Cgl02G2426, Cgl04G1850 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno02g16220 |
| Dunaliellaceae | Dunaliella salina | 2 | Dusal.0161s00011.v1.0, Dusal.4798s00001.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate03g26290 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 1 | nbisL1-mrna-7213 |
| Nitrariaceae | Nitraria sibirica | 2 | evm.TU.LG04.2135, evm.TU.LG12.1193 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00039081 |
| Plumbaginaceae | Limonium bicolor | 2 | Lb4G22990, Lb6G31738 |
| Poaceae | Echinochloa crus-galli | 3 | AH07.3634, BH07.3444, CH07.3514 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_2AG0147420, gene-QOZ80_2BG0202840 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.6HG0618700.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_025729 |
| Poaceae | Oryza coarctata | 2 | Oco03G022920, Oco04G023530 |
| Poaceae | Oryza sativa | 1 | LOC_Os02g53140.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_04G290400 |
| Poaceae | Puccinellia tenuiflora | 1 | Pt_Chr0203106 |
| Poaceae | Sporobolus alterniflorus | 5 | Chr06G001150, Chr09G007590, Chr09G018630, Chr13G003030 ... |
| Poaceae | Thinopyrum elongatum | 1 | Tel6E01G576200 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC6AG048850, gene_TRIDC6BG057160 |
| Poaceae | Triticum aestivum | 3 | TraesCS6A02G326100.1, TraesCS6B02G356400.1 ... |
| Poaceae | Zea mays | 2 | Zm00001eb193380_P001, Zm00001eb256270_P001 |
| Poaceae | Zoysia japonica | 2 | nbis-gene-40063, nbis-gene-8573 |
| Poaceae | Zoysia macrostachya | 2 | Zma_g14521, Zma_g17239 |
| Portulacaceae | Portulaca oleracea | 4 | evm.TU.LG01.1941, evm.TU.LG02.2235, evm.TU.LG14.1123 ... |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc03g17040 |
| Rhizophoraceae | Bruguiera sexangula | 2 | evm.TU.Scaffold_13_RagTag.16, evm.TU.Scaffold_9_RagTag.1386 |
| Rhizophoraceae | Carallia pectinifolia | 3 | nbisL1-mrna-20374, nbisL1-mrna-20527, nbisL1-mrna-29812 |
| Rhizophoraceae | Ceriops tagal | 2 | nbisL1-mrna-5463, nbisL1-mrna-6552 |
| Rhizophoraceae | Ceriops zippeliana | 2 | nbisL1-mrna-20744, nbisL1-mrna-21383 |
| Rhizophoraceae | Kandelia candel | 2 | evm.TU.utg000003l.867, evm.TU.utg000015l.11 |
| Rhizophoraceae | Kandelia obovata | 2 | Maker00009386, Maker00015866 |
| Rhizophoraceae | Rhizophora apiculata | 2 | nbisL1-mrna-1192, nbisL1-mrna-6080 |
| Rhizophoraceae | Rhizophora mangle | 2 | nbisL1-mrna-23396, nbisL1-mrna-4685 |
| Salicaceae | Populus euphratica | 3 | populus_peu10421, populus_peu18422, populus_peu26973 |
| Solanaceae | Lycium barbarum | 2 | gene-LOC132613854, gene-LOC132636661 |
| Solanaceae | Solanum chilense | 2 | SOLCI000134000, SOLCI003924200 |
| Solanaceae | Solanum pennellii | 2 | gene-LOC107003012, gene-LOC107007198 |
| Tamaricaceae | Reaumuria soongarica | 2 | STRG.29901_chr10_+, gene_442 |
| Tamaricaceae | Tamarix chinensis | 2 | TC03G0399, TC08G0159 |
| Zosteraceae | Zostera marina | 2 | Zosma03g17610.v3.1, Zosma05g29840.v3.1 |