Basic Information
Locus ID:
gene_21914
Species & Taxonomic ID:
Mesembryanthemum crystallinum & 3544
Genome Assembly:
Koichi Toyokura Assembly
Short Name:
UBC23
Description:
Belongs to the ubiquitin-conjugating enzyme family
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| Super-Scaffold_5_Chr_4 | 37040628 | 37061006 | - | gene_21914 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 4.90 | 190,374.59 Da | 45.43 | 71.64 | -0.71 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd12230 | RRM1_U2AF65 | 235 | 317 | 5.31999E-40 | - |
| CDD | cd12231 | RRM2_U2AF65 | 356 | 432 | 8.07224E-44 | - |
| CDD | cd00195 | UBCc | 1460 | 1610 | 9.02749E-31 | IPR000608 |
| CDD | cd12232 | RRM3_U2AF65 | 468 | 556 | 4.51373E-34 | - |
| Pfam | PF00076 | RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) | 358 | 427 | 1.6E-17 | IPR000504 |
| Pfam | PF00179 | Ubiquitin-conjugating enzyme | 1462 | 1606 | 1.5E-21 | IPR000608 |
| Pfam | PF00076 | RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) | 238 | 312 | 5.7E-6 | IPR000504 |
| SUPERFAMILY | SSF54928 | RNA-binding domain, RBD | 236 | 321 | 6.85E-15 | IPR035979 |
| SUPERFAMILY | SSF54495 | UBC-like | 1440 | 1624 | 1.05E-37 | IPR016135 |
| SUPERFAMILY | SSF54928 | RNA-binding domain, RBD | 357 | 554 | 5.26E-28 | IPR035979 |
| Gene3D | G3DSA:3.30.70.330 | - | 465 | 558 | 3.0E-23 | IPR012677 |
| Gene3D | G3DSA:3.30.70.330 | - | 347 | 452 | 5.2E-22 | IPR012677 |
| Gene3D | G3DSA:3.30.70.330 | - | 231 | 332 | 2.5E-30 | IPR012677 |
| Gene3D | G3DSA:3.10.110.10 | Ubiquitin Conjugating Enzyme | 1424 | 1680 | 1.5E-76 | IPR016135 |
| SMART | SM00360 | rrm1_1 | 357 | 430 | 7.3E-22 | IPR000504 |
| SMART | SM00360 | rrm1_1 | 237 | 315 | 5.2E-13 | IPR000504 |
| SMART | SM00212 | ubc_7 | 1460 | 1617 | 6.3E-19 | - |
| SMART | SM00360 | rrm1_1 | 476 | 556 | 0.4 | IPR000504 |
| TIGRFAM | TIGR01642 | U2AF_lg: U2 snRNP auxilliary factor, large subunit, splicing factor | 65 | 554 | 3.2E-182 | IPR006529 |
| ProSiteProfiles | PS50102 | Eukaryotic RNA Recognition Motif (RRM) profile. | 356 | 434 | 15.95436 | IPR000504 |
| ProSiteProfiles | PS50102 | Eukaryotic RNA Recognition Motif (RRM) profile. | 236 | 319 | 12.867332 | IPR000504 |
| ProSiteProfiles | PS50102 | Eukaryotic RNA Recognition Motif (RRM) profile. | 475 | 553 | 8.535261 | IPR000504 |
| ProSiteProfiles | PS50127 | Ubiquitin-conjugating (UBC) core domain profile. | 1457 | 1617 | 33.900635 | IPR000608 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 658 | 677 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 152 | 166 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 22 | 151 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 619 | 646 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 177 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1367 | 1401 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1370 | 1385 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 611 | 705 | - | - |
Gene Ontology
Biological Process:
Molecular Function:
Cellular Component:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT2G16920.1 | ubiquitin-conjugating enzyme 23. | 0 |
| RefSeq | XP_021861165.1 | probable ubiquitin-conjugating enzyme E2 23 [Spinacia oleracea] | 0 |
| Q9ZVX1 | Probable ubiquitin-conjugating enzyme E2 23 OS=Arabidopsis thaliana OX=3702 GN=UBC23 PE=1 SV=1 | 0 | |
| TrEMBL | A0A803LGC1 | UBC core domain-containing protein OS=Chenopodium quinoa OX=63459 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 | 5 | jg26129, jg28888, jg28889, jg30378, jg882 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_21914 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah009645 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_9g213850 |
| Amaranthaceae | Salicornia bigelovii | 1 | Sbi_jg12251 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg21494 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00020458 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl55480, Sgl61327 |
| Amaranthaceae | Chenopodium album | 5 | gene:ENSEOMG00000014525, gene:ENSEOMG00000039134 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.7BG0002690, CQ.Regalona.r1.9AG0021980 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30249090 |
| Apiaceae | Apium graveolens | 1 | Ag11G03585 |
| Arecaceae | Cocos nucifera | 1 | COCNU_04G003260 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103718297 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_07.2549.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri13G28072 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT2G16920.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10022524m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp3g30200.v2.2 |
| Brassicaceae | Brassica nigra | 1 | BniB02g013060.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq07G1734 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl07G1875 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno10g09330 |
| Hydrocharitaceae | Thalassia testudinum | 2 | gene.Thate02g00150, gene.Thate07g01080 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 1 | nbisL1-mrna-5646 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG08.331 |
| Plantaginaceae | Plantago ovata | 2 | Pov_00001683, Pov_00007341 |
| Plumbaginaceae | Limonium bicolor | 1 | Lb6G30063 |
| Poaceae | Echinochloa crus-galli | 3 | AH02.1255, BH02.837, CH02.955 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_1AG0007990, gene-QOZ80_1BG0056770 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.3HG0222770.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_049135 |
| Poaceae | Oryza coarctata | 2 | Oco01G000980, Oco02G001010 |
| Poaceae | Oryza sativa | 1 | LOC_Os01g03520.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_02G049000 |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0205512, Pt_Chr0206977 |
| Poaceae | Sporobolus alterniflorus | 4 | Chr02G024510, Chr03G003370, Chr05G002420, Chr08G001640 |
| Poaceae | Thinopyrum elongatum | 1 | Tel3E01G060800 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC3AG005370, gene_TRIDC3BG004990 |
| Poaceae | Triticum aestivum | 3 | TraesCS3A02G047700.3, TraesCS3B02G034500.5 ... |
| Poaceae | Zea mays | 2 | Zm00001eb125670_P001, Zm00001eb334990_P002 |
| Poaceae | Zoysia japonica | 2 | nbis-gene-32258, nbis-gene-7092 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g7525 |
| Portulacaceae | Portulaca oleracea | 4 | evm.TU.LG02.1802, evm.TU.LG08.1109, evm.TU.LG09.133 ... |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc06g09010 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_1_RagTag.2333 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-6067 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-7923 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-3231 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000016l.52 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00016498 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-4610 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-22470 |
| Salicaceae | Populus euphratica | 2 | populus_peu08691, populus_peu36660 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132599340 |
| Solanaceae | Solanum chilense | 1 | SOLCI006584600 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107007981 |
| Tamaricaceae | Reaumuria soongarica | 1 | STRG.11769_chr02_+ |
| Tamaricaceae | Tamarix chinensis | 1 | TC10G0150 |
| Zosteraceae | Zostera marina | 2 | Zosma01g22290.v3.1, Zosma1314g00030.v3.1 |