Basic Information
Locus ID:
BniB06g045890.2N
Species & Taxonomic ID:
Brassica nigra & 3710
Genome Assembly:
N100
Description:
Pentatricopeptide repeat-containing protein
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| B6 | 48798092 | 48803549 | + | BniB06g045890.2N |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 7.49 | 120,548.91 Da | 46.02 | 84.85 | -0.40 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd10461 | PUB_UBA_plant | 307 | 411 | 8.45572E-61 | - |
| CDD | cd14290 | UBA_PUB_plant | 112 | 160 | 2.38482E-24 | - |
| Pfam | PF13041 | PPR repeat family | 669 | 717 | 4.1E-13 | IPR002885 |
| Pfam | PF01535 | PPR repeat | 774 | 802 | 0.004 | IPR002885 |
| Pfam | PF01535 | PPR repeat | 745 | 771 | 0.58 | IPR002885 |
| Pfam | PF14432 | DYW family of nucleic acid deaminases | 937 | 1060 | 4.2E-33 | IPR032867 |
| Pfam | PF00627 | UBA/TS-N domain | 118 | 149 | 1.1E-7 | IPR015940 |
| Pfam | PF09409 | PUB domain | 320 | 390 | 2.1E-23 | IPR018997 |
| Pfam | PF01535 | PPR repeat | 612 | 639 | 2.5E-5 | IPR002885 |
| Pfam | PF01535 | PPR repeat | 846 | 869 | 0.34 | IPR002885 |
| SUPERFAMILY | SSF143503 | PUG domain-like | 299 | 410 | 4.18E-28 | IPR036339 |
| SUPERFAMILY | SSF46934 | UBA-like | 102 | 166 | 1.31E-15 | IPR009060 |
| Gene3D | G3DSA:1.25.40.10 | Tetratricopeptide repeat domain | 555 | 638 | 4.6E-9 | IPR011990 |
| Gene3D | G3DSA:1.10.8.10 | - | 114 | 159 | 6.0E-21 | - |
| Gene3D | G3DSA:1.25.40.10 | Tetratricopeptide repeat domain | 436 | 554 | 8.1E-6 | IPR011990 |
| Gene3D | G3DSA:1.25.40.10 | Tetratricopeptide repeat domain | 639 | 731 | 1.8E-24 | IPR011990 |
| Gene3D | G3DSA:1.20.58.2190 | - | 306 | 402 | 1.0E-26 | - |
| Gene3D | G3DSA:1.25.40.10 | Tetratricopeptide repeat domain | 789 | 942 | 5.4E-22 | IPR011990 |
| SMART | SM00580 | PGNneu | 323 | 386 | 3.3E-25 | - |
| SMART | SM00165 | uba_6 | 114 | 152 | 4.0E-4 | IPR015940 |
| TIGRFAM | TIGR00756 | PPR: pentatricopeptide repeat domain | 612 | 639 | 5.6E-5 | IPR002885 |
| TIGRFAM | TIGR00756 | PPR: pentatricopeptide repeat domain | 642 | 672 | 1.3E-4 | IPR002885 |
| TIGRFAM | TIGR00756 | PPR: pentatricopeptide repeat domain | 774 | 807 | 5.7E-4 | IPR002885 |
| TIGRFAM | TIGR00756 | PPR: pentatricopeptide repeat domain | 672 | 706 | 8.5E-10 | IPR002885 |
| ProSiteProfiles | PS50030 | Ubiquitin-associated domain (UBA) profile. | 112 | 153 | 12.233631 | IPR015940 |
| ProSiteProfiles | PS51375 | Pentatricopeptide (PPR) repeat profile. | 670 | 704 | 13.109773 | IPR002885 |
| ProSiteProfiles | PS51375 | Pentatricopeptide (PPR) repeat profile. | 771 | 805 | 10.358486 | IPR002885 |
| ProSiteProfiles | PS51375 | Pentatricopeptide (PPR) repeat profile. | 503 | 537 | 9.733692 | IPR002885 |
| ProSiteProfiles | PS51375 | Pentatricopeptide (PPR) repeat profile. | 608 | 642 | 9.350046 | IPR002885 |
| ProSitePatterns | PS00028 | Zinc finger C2H2 type domain signature. | 8 | 30 | - | IPR013087 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 82 | 105 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 258 | 292 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 258 | 272 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 191 | 211 | - | - |
| Coils | Coil | Coil | 239 | 263 | - | - |
| Coils | Coil | Coil | 184 | 215 | - | - |
Gene Ontology
Molecular Function:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT1G04840.1 | Tetratricopeptide repeat (TPR)-like superfamily protein. | 0 |
| RefSeq | XP_013697923.2 | pentatricopeptide repeat-containing protein At1g04840 [Brassica napus] | 0 |
| Q9MAT2 | Pentatricopeptide repeat-containing protein At1g04840 OS=Arabidopsis thaliana OX=3702 GN=PCMP-H64 PE=2 SV=1 | 0 | |
| TrEMBL | M4DFT4 | UBA domain-containing protein OS=Brassica rapa subsp. pekinensis OX=51351 PE=3 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| No sample metadata found. | |||||||
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 3 | jg36114, jg5885, jg5886 |
| Aizoaceae | Mesembryanthemum crystallinum | 2 | gene_4815, gene_6484 |
| Amaranthaceae | Atriplex hortensis | 4 | Ah020879, Ah022536, Ah027692, Ah028303 |
| Amaranthaceae | Beta vulgaris | 2 | BVRB_3g065820, BVRB_7g167870 |
| Amaranthaceae | Salicornia bigelovii | 4 | Sbi_jg26574, Sbi_jg33992, Sbi_jg59476, Sbi_jg63174 |
| Amaranthaceae | Salicornia europaea | 2 | Seu_jg15094, Seu_jg23719 |
| Amaranthaceae | Suaeda aralocaspica | 2 | GOSA_00011897, GOSA_00020665 |
| Amaranthaceae | Suaeda glauca | 4 | Sgl02861, Sgl07978, Sgl73859, Sgl77363 |
| Amaranthaceae | Chenopodium album | 6 | gene:ENSEOMG00000008418, gene:ENSEOMG00000029326 ... |
| Amaranthaceae | Chenopodium quinoa | 4 | CQ.Regalona.r1.3AG0025540, CQ.Regalona.r1.3BG0026460 ... |
| Anacardiaceae | Pistacia vera | 2 | pistato.v30014330, pistato.v30241900 |
| Apiaceae | Apium graveolens | 3 | Ag1G00517, Ag5G02146, Ag9G02890 |
| Arecaceae | Cocos nucifera | 2 | COCNU_11G002670, COCNU_15G004730 |
| Arecaceae | Phoenix dactylifera | 2 | gene-LOC103695657, gene-LOC103710594 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_02.434.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri11G33263 |
| Brassicaceae | Arabidopsis thaliana | 2 | AT1G04850.1, AT5G48690.1 |
| Brassicaceae | Eutrema salsugineum | 2 | Thhalv10004673m.g.v1.0, Thhalv10007758m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 2 | Sp1g03690.v2.2, Sp2g19100.v2.2 |
| Brassicaceae | Brassica nigra | 3 | BniB02g069760.2N, BniB03g001090.2N, BniB06g045890.2N |
| Casuarinaceae | Casuarina equisetifolia | 3 | Ceq06G1969, Ceq06G1970, Ceq07G0722 |
| Casuarinaceae | Casuarina glauca | 3 | Cgl04G2321, Cgl06G2060, Cgl07G0770 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno05g02750 |
| Dunaliellaceae | Dunaliella salina | 2 | Dusal.0045s00031.v1.0, Dusal.0045s00032.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate06g15200 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 2 | nbisL1-mrna-12584, nbisL1-mrna-9759 |
| Nitrariaceae | Nitraria sibirica | 2 | evm.TU.LG04.1586, evm.TU.LG11.529 |
| Plantaginaceae | Plantago ovata | 2 | Pov_00019458, Pov_00036444 |
| Plumbaginaceae | Limonium bicolor | 1 | Lb3G15801 |
| Poaceae | Echinochloa crus-galli | 6 | AH07.1864, AH08.2150, BH07.1853, BH08.2267, CH07.1712 ... |
| Poaceae | Eleusine coracana subsp. coracana | 4 | gene-QOZ80_2AG0131630, gene-QOZ80_2BG0187030 ... |
| Poaceae | Hordeum vulgare | 2 | HORVU.MOREX.r3.6HG0553470.1, HORVU.MOREX.r3.7HG0683160.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_030215 |
| Poaceae | Oryza coarctata | 3 | Oco03G010610, Oco04G010970, Oco16G012200 |
| Poaceae | Oryza sativa | 2 | LOC_Os02g30180.1, LOC_Os08g41500.1 |
| Poaceae | Paspalum vaginatum | 2 | gene-BS78_04G140000, gene-BS78_07G199700 |
| Poaceae | Puccinellia tenuiflora | 1 | Pt_Chr0705178 |
| Poaceae | Sporobolus alterniflorus | 4 | Chr13G012110, Chr15G013020, Chr20G001410, Chr29G001770 |
| Poaceae | Thinopyrum elongatum | 2 | Tel6E01G214900, Tel7E01G453500 |
| Poaceae | Triticum dicoccoides | 4 | gene_TRIDC6AG011140, gene_TRIDC6BG017010 ... |
| Poaceae | Triticum aestivum | 6 | TraesCS6A02G091500.1, TraesCS6B02G119800.1 ... |
| Poaceae | Zea mays | 2 | Zm00001eb175040_P001, Zm00001eb181030_P001 |
| Poaceae | Zoysia japonica | 2 | nbis-gene-20936, nbis-gene-42670 |
| Poaceae | Zoysia macrostachya | 2 | Zma_g13549, Zma_g23301 |
| Portulacaceae | Portulaca oleracea | 4 | evm.TU.LG13.1509, evm.TU.LG16.1662, evm.TU.LG21.1179 ... |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc01g06010 |
| Rhizophoraceae | Bruguiera sexangula | 3 | evm.TU.Scaffold_3_RagTag.1385, evm.TU.Scaffold_6_RagTag.997 ... |
| Rhizophoraceae | Carallia pectinifolia | 2 | nbisL1-mrna-15676, nbisL1-mrna-21062 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-11451 |
| Rhizophoraceae | Ceriops zippeliana | 4 | nbisL1-mrna-18633, nbisL1-mrna-18634, nbisL1-mrna-2631 ... |
| Rhizophoraceae | Kandelia candel | 2 | evm.TU.utg000011l.630, evm.TU.utg000019l.406 |
| Rhizophoraceae | Kandelia obovata | 2 | Maker00002006, Maker00007628 |
| Rhizophoraceae | Rhizophora apiculata | 2 | nbisL1-mrna-12252, nbisL1-mrna-1363 |
| Rhizophoraceae | Rhizophora mangle | 3 | nbisL1-mrna-18116, nbisL1-mrna-4941, nbisL1-mrna-4942 |
| Salicaceae | Populus euphratica | 3 | populus_peu01367, populus_peu24269, populus_peu30896 |
| Solanaceae | Lycium barbarum | 5 | gene-LOC132604386, gene-LOC132610914, gene-LOC132611544 ... |
| Solanaceae | Solanum chilense | 2 | SOLCI002051300, SOLCI004865900 |
| Solanaceae | Solanum pennellii | 3 | gene-LOC107007674, gene-LOC107029831, gene-LOC107030588 |
| Tamaricaceae | Reaumuria soongarica | 2 | MSTRG.12257_chr07_-, STRG.20503_chr08_+ |
| Tamaricaceae | Tamarix chinensis | 3 | TC11G1840, TC12G2141, TC12G2142 |
| Zosteraceae | Zostera marina | 1 | Zosma02g22590.v3.1 |