Basic Information
Locus ID:
nbis-gene-24839
Species & Taxonomic ID:
Zoysia japonica & 309978
Genome Assembly:
GCA_040438285.1
Description:
RimM N-terminal domain
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| Zjn_sc00027.1 | 580013 | 583670 | - | nbis-gene-24839 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 5.30 | 70,723.54 Da | 43.40 | 87.20 | -0.33 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF01782 | RimM N-terminal domain | 99 | 185 | 2.3E-19 | IPR002676 |
| Pfam | PF05239 | PRC-barrel domain | 194 | 287 | 8.4E-8 | IPR027275 |
| SUPERFAMILY | SSF53448 | Nucleotide-diphospho-sugar transferases | 316 | 634 | 1.87E-40 | IPR029044 |
| SUPERFAMILY | SSF50346 | PRC-barrel domain | 197 | 286 | 3.61E-10 | IPR011033 |
| SUPERFAMILY | SSF50447 | Translation proteins | 96 | 190 | 6.71E-14 | IPR009000 |
| Gene3D | G3DSA:2.40.30.60 | RimM | 91 | 190 | 3.5E-18 | IPR036976 |
| Gene3D | G3DSA:3.90.550.10 | Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A | 303 | 591 | 2.2E-36 | IPR029044 |
| Gene3D | G3DSA:2.30.30.240 | - | 192 | 291 | 1.3E-21 | - |
| TIGRFAM | TIGR02273 | 16S_RimM: 16S rRNA processing protein RimM | 98 | 286 | 1.3E-34 | IPR011961 |
| Hamap | MF_00014 | Ribosome maturation factor RimM [rimM]. | 97 | 286 | 22.83872 | IPR011961 |
Gene Ontology
Biological Process:
Molecular Function:
Cellular Component:
KEGG Pathway
KO Term:
Pathway:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT5G46420.1 | 16S rRNA processing protein RimM family. | 0 |
| RefSeq | XP_025810136.1 | uncharacterized protein LOC112888012 [Panicum hallii] | 0 |
| B2J3X9 | Ribosome maturation factor RimM OS=Nostoc punctiforme (strain ATCC 29133 / PCC 73102) OX=63737 GN=rimM PE=3 SV=1 | 0 | |
| TrEMBL | A0A5J9U9W3 | RimM domain-containing protein (Fragment) OS=Eragrostis curvula OX=38414 GN=EJB05_36498 PE=3 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 | 1 | jg20707 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_519 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah016669 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg40519, Sbi_jg50559 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg2118 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00018049 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl45277, Sgl50060 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000010540, gene:ENSEOMG00000034376 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.8AG0008460, CQ.Regalona.r1.8BG0009450 |
| Anacardiaceae | Pistacia vera | 2 | pistato.v30070640, pistato.v30281860 |
| Apiaceae | Apium graveolens | 1 | Ag8G00829 |
| Arecaceae | Cocos nucifera | 1 | COCNU_06G006870 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103712681 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_01.3627.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri15G06941 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT5G46420.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10000812m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp2g11270.v2.2 |
| Brassicaceae | Brassica nigra | 1 | BniB02g063180.2N |
| Casuarinaceae | Casuarina glauca | 1 | Cgl04G0498 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno07g07440 |
| Dunaliellaceae | Dunaliella salina | 1 | Dusal.0371s00015.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate07g21110 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG12.708 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00038419 |
| Plumbaginaceae | Limonium bicolor | 1 | Lb4G25000 |
| Poaceae | Echinochloa crus-galli | 3 | AH05.1380, BH05.1550, CH05.1749 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_5AG0363000, gene-QOZ80_5BG0411040 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.1HG0089000.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_015485 |
| Poaceae | Oryza coarctata | 2 | Oco09G016940, Oco10G016780 |
| Poaceae | Oryza sativa | 1 | LOC_Os05g49130.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_09G237100 |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0202779, Pt_Chr0505707 |
| Poaceae | Sporobolus alterniflorus | 3 | Chr01G015710, Chr12G021060, Chr22G001130 |
| Poaceae | Thinopyrum elongatum | 1 | Tel1E01G665300 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC1AG059320, gene_TRIDC1BG068030 |
| Poaceae | Triticum aestivum | 3 | TraesCS1A02G402100.1, TraesCS1B02G431200.1 ... |
| Poaceae | Zea mays | 4 | Zm00001eb184690_P001, Zm00001eb296050_P001 ... |
| Poaceae | Zoysia japonica | 1 | nbis-gene-24839 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g28813 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG03.1903, evm.TU.LG14.201 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc04g21500 |
| Rhizophoraceae | Bruguiera sexangula | 2 | evm.TU.Scaffold_14_RagTag.855, evm.TU.Scaffold_14_RagTag.857 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-16615 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-5488 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-17179 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000025l.67 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00012233 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-15913 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-11075 |
| Salicaceae | Populus euphratica | 1 | populus_peu00971 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132621541 |
| Solanaceae | Solanum chilense | 1 | SOLCI004243100 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107010044 |
| Tamaricaceae | Reaumuria soongarica | 1 | STRG.18336_chr09_+ |
| Tamaricaceae | Tamarix chinensis | 1 | TC07G1865 |
| Zosteraceae | Zostera marina | 1 | Zosma01g37250.v3.1 |