Basic Information
Locus ID:
Sp5g03440.v2.2
Species & Taxonomic ID:
Schrenkiella parvula & 98039
Genome Assembly:
v2.2
Description:
U5 small nuclear ribonucleoprotein 40 kDa
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| ch5-1 | 1222312 | 1224352 | + | Sp5g03440.v2.2 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 6.89 | 37,168.72 Da | 32.05 | 71.10 | -0.44 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd00200 | WD40 | 42 | 333 | 1.19665E-72 | - |
| Pfam | PF00400 | WD domain, G-beta repeat | 252 | 293 | 4.3E-7 | IPR001680 |
| Pfam | PF12894 | Anaphase-promoting complex subunit 4 WD40 domain | 52 | 132 | 2.1E-6 | IPR024977 |
| Pfam | PF00400 | WD domain, G-beta repeat | 207 | 243 | 1.1E-5 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 176 | 201 | 0.0023 | IPR001680 |
| SUPERFAMILY | SSF50978 | WD40 repeat-like | 39 | 333 | 1.05E-82 | IPR036322 |
| Gene3D | G3DSA:2.130.10.10 | - | 34 | 336 | 5.2E-120 | IPR015943 |
| SMART | SM00320 | WD40_4 | 35 | 74 | 6.4E-7 | IPR001680 |
| SMART | SM00320 | WD40_4 | 78 | 117 | 1.6E-8 | IPR001680 |
| SMART | SM00320 | WD40_4 | 296 | 335 | 0.081 | IPR001680 |
| SMART | SM00320 | WD40_4 | 204 | 243 | 3.1E-8 | IPR001680 |
| SMART | SM00320 | WD40_4 | 120 | 160 | 2.8E-7 | IPR001680 |
| SMART | SM00320 | WD40_4 | 163 | 201 | 2.6E-4 | IPR001680 |
| SMART | SM00320 | WD40_4 | 250 | 293 | 5.9E-7 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 169 | 206 | 9.230148 | - |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 211 | 245 | 11.418318 | - |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 127 | 169 | 10.441614 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 85 | 126 | 16.256382 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 272 | 302 | 10.976305 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 42 | 75 | 14.41838 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 85 | 122 | 12.341042 | - |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 42 | 75 | 11.919224 | - |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 211 | 245 | 13.783434 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 176 | 210 | 12.814306 | IPR001680 |
| ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 147 | 161 | - | IPR019775 |
| ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 280 | 294 | - | IPR019775 |
| ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 104 | 118 | - | IPR019775 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 188 | 202 | 5.5E-8 | IPR020472 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 147 | 161 | 5.5E-8 | IPR020472 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 104 | 118 | 5.5E-8 | IPR020472 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 31 | - | - |
Gene Ontology
Molecular Function:
KEGG Pathway
KO Term:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT2G43770.1 | Transducin/WD40 repeat-like superfamily protein. | 0 |
| RefSeq | XP_033130970.1 | U5 small nuclear ribonucleoprotein 40 kDa protein [Brassica rapa] | 0 |
| Q96DI7 | U5 small nuclear ribonucleoprotein 40 kDa protein OS=Homo sapiens OX=9606 GN=SNRNP40 PE=1 SV=1 | 0 | |
| TrEMBL | A0A3P6B938 | (field mustard) hypothetical protein OS=Brassica campestris OX=3711 GN=BRAA07T30124Z PE=4 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 | 1 | jg5975 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_12326 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah008608 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg18879, Sbi_jg37326 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg5143 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00026241 |
| Amaranthaceae | Suaeda glauca | 7 | Sgl22751, Sgl22753, Sgl27883, Sgl27889, Sgl27901, Sgl27903 ... |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000011580, gene:ENSEOMG00000030236 ... |
| Amaranthaceae | Chenopodium quinoa | 3 | CQ.Regalona.r1.2AG0005710, CQ.Regalona.r1.4AG0021830 ... |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30247390 |
| Apiaceae | Apium graveolens | 3 | Ag11G03683, Ag1G01006, Ag3G00874 |
| Arecaceae | Cocos nucifera | 2 | COCNU_06G008700, COCNU_14G005760 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103708149 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_06.420.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri9G10053 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT2G43770.1 |
| Brassicaceae | Eutrema salsugineum | 2 | Thhalv10001531m.g.v1.0, Thhalv10006086m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 2 | Sp4g25840.v2.2, Sp5g03440.v2.2 |
| Brassicaceae | Brassica nigra | 3 | BniB01g002390.2N, BniB06g002410.2N, BniB06g053920.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq09G1378 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl09G1469 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno01g01840 |
| Dunaliellaceae | Dunaliella salina | 1 | Dusal.0361s00016.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate04g07070 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00025134 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_6AG0546890, gene-QOZ80_6BG0500360 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.7HG0741190.1.CDS1 |
| Poaceae | Lolium multiflorum | 2 | gene-QYE76_036531, gene-QYE76_036533 |
| Poaceae | Oryza coarctata | 2 | Oco11G014210, Oco12G014390 |
| Poaceae | Oryza sativa | 1 | LOC_Os06g44370.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_10G212200 |
| Poaceae | Sporobolus alterniflorus | 3 | Chr02G031190, Chr05G008900, Chr0G000390 |
| Poaceae | Thinopyrum elongatum | 1 | Tel7E01G856000 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC7AG069910, gene_TRIDC7BG064370 |
| Poaceae | Triticum aestivum | 3 | TraesCS7A02G499900.1.cds1, TraesCS7B02G406900.1.cds1 ... |
| Poaceae | Zea mays | 2 | Zm00001eb274960_P001, Zm00001eb389600_P002 |
| Poaceae | Zoysia japonica | 2 | nbis-gene-40866, nbis-gene-9867 |
| Poaceae | Zoysia macrostachya | 2 | Zma_g30921, Zma_g33177 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG02.1468, evm.TU.LG09.427 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc03g03660 |
| Rhizophoraceae | Bruguiera sexangula | 2 | evm.TU.Scaffold_3_RagTag.1543, evm.TU.Scaffold_6_RagTag.1152 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-1856 |
| Rhizophoraceae | Ceriops tagal | 2 | nbisL1-mrna-17907, nbisL1-mrna-18239 |
| Rhizophoraceae | Ceriops zippeliana | 2 | nbisL1-mrna-2760, nbisL1-mrna-992 |
| Rhizophoraceae | Kandelia candel | 1 | add.evm.TU.utg000019l.132 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00001877 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-5407 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-12915 |
| Salicaceae | Populus euphratica | 1 | populus_peu18766 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132636093 |
| Solanaceae | Solanum chilense | 1 | SOLCI005994700 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107015323 |
| Tamaricaceae | Reaumuria soongarica | 1 | STRG.4561_chr02_- |
| Tamaricaceae | Tamarix chinensis | 1 | TC12G1440 |
| Zosteraceae | Zostera marina | 1 | Zosma04g01990.v3.1 |