Basic Information
Locus ID:
AsparagusV1_06.420.V1.1
Species & Taxonomic ID:
Asparagus officinalis & 4686
Genome Assembly:
GCA_001876935.1
Description:
U5 small nuclear ribonucleoprotein 40
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr6 | 7170686 | 7171708 | + | AsparagusV1_06.420.V1.1 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 7.69 | 37,407.01 Da | 35.00 | 77.44 | -0.39 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd00200 | WD40 | 44 | 337 | 3.36439E-66 | - |
| Pfam | PF00400 | WD domain, G-beta repeat | 40 | 75 | 4.3E-6 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 179 | 204 | 0.036 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 256 | 297 | 1.8E-5 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 211 | 247 | 2.4E-7 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 303 | 337 | 0.17 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 126 | 163 | 3.2E-4 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 82 | 119 | 1.0E-5 | IPR001680 |
| SUPERFAMILY | SSF50978 | WD40 repeat-like | 41 | 337 | 5.95E-80 | IPR036322 |
| Gene3D | G3DSA:2.130.10.10 | - | 36 | 340 | 8.9E-117 | IPR015943 |
| SMART | SM00320 | WD40_4 | 166 | 204 | 0.0087 | IPR001680 |
| SMART | SM00320 | WD40_4 | 80 | 119 | 2.7E-9 | IPR001680 |
| SMART | SM00320 | WD40_4 | 300 | 339 | 0.0065 | IPR001680 |
| SMART | SM00320 | WD40_4 | 208 | 247 | 2.5E-9 | IPR001680 |
| SMART | SM00320 | WD40_4 | 123 | 163 | 1.8E-6 | IPR001680 |
| SMART | SM00320 | WD40_4 | 37 | 76 | 3.1E-8 | IPR001680 |
| SMART | SM00320 | WD40_4 | 254 | 297 | 7.6E-6 | IPR001680 |
| PIRSF | PIRSF002394 | GNBP_B | 175 | 340 | 3.5E-31 | - |
| PIRSF | PIRSF002394 | GNBP_B | 41 | 211 | 4.3E-33 | - |
| PIRSF | PIRSF002394 | GNBP_B | 27 | 88 | 3.0E-6 | - |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 215 | 249 | 12.367405 | - |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 44 | 77 | 12.26195 | - |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 307 | 340 | 9.493783 | - |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 130 | 172 | 9.606159 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 87 | 123 | 13.184673 | - |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 44 | 77 | 14.852817 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 87 | 128 | 16.156128 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 276 | 306 | 10.70896 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 215 | 249 | 14.986489 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 307 | 340 | 9.672996 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 172 | 206 | 8.808332 | - |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 179 | 213 | 11.310488 | IPR001680 |
| ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 284 | 298 | - | IPR019775 |
| ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 106 | 120 | - | IPR019775 |
| ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 191 | 205 | - | IPR019775 |
| ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 150 | 164 | - | IPR019775 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 191 | 205 | 2.0E-7 | IPR020472 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 150 | 164 | 2.0E-7 | IPR020472 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 106 | 120 | 2.0E-7 | IPR020472 |
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_020268931.1 | U5 small nuclear ribonucleoprotein 40 kDa protein [Asparagus officinalis] | 0 |
| Q96DI7 | U5 small nuclear ribonucleoprotein 40 kDa protein OS=Homo sapiens OX=9606 GN=SNRNP40 PE=1 SV=1 | 0 | |
| TrEMBL | A0A5P1EJG3 | WD_REPEATS_REGION domain-containing protein OS=Asparagus officinalis OX=4686 GN=A4U43_C06F4200 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 |