Basic Information
Locus ID:
gene-BS78_04G192300
Species & Taxonomic ID:
Paspalum vaginatum & 158149
Genome Assembly:
GCA_026573395.1
Description:
RNA binding motif
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr4 | 34092146 | 34099046 | - | gene-BS78_04G192300 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 5.45 | 51,619.91 Da | 48.62 | 70.92 | -0.76 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd12291 | RRM1_La | 121 | 191 | 1.85792E-12 | - |
| CDD | cd08030 | LA_like_plant | 14 | 103 | 1.35469E-37 | - |
| CDD | cd12292 | RRM2_La_like | 334 | 401 | 3.03613E-16 | - |
| Pfam | PF05383 | La domain | 17 | 84 | 1.9E-21 | IPR006630 |
| Pfam | PF08777 | RNA binding motif | 331 | 431 | 1.3E-25 | IPR014886 |
| Pfam | PF00076 | RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) | 127 | 181 | 4.1E-8 | IPR000504 |
| SUPERFAMILY | SSF46785 | Winged helix DNA-binding domain | 11 | 109 | 2.09E-19 | IPR036390 |
| SUPERFAMILY | SSF54928 | RNA-binding domain, RBD | 118 | 381 | 1.37E-17 | IPR035979 |
| Gene3D | G3DSA:1.10.10.10 | - | 5 | 108 | 2.0E-25 | IPR036388 |
| Gene3D | G3DSA:3.30.70.330 | - | 113 | 213 | 7.4E-16 | IPR012677 |
| Gene3D | G3DSA:3.30.70.330 | - | 329 | 431 | 5.6E-26 | IPR012677 |
| SMART | SM00360 | rrm1_1 | 333 | 401 | 0.0038 | IPR000504 |
| SMART | SM00715 | la | 11 | 104 | 2.6E-30 | IPR006630 |
| SMART | SM00360 | rrm1_1 | 121 | 193 | 3.9E-6 | IPR000504 |
| ProSiteProfiles | PS50961 | La-type HTH domain profile. | 7 | 111 | 22.667122 | IPR006630 |
| ProSiteProfiles | PS50102 | Eukaryotic RNA Recognition Motif (RRM) profile. | 328 | 405 | 9.046923 | IPR000504 |
| ProSiteProfiles | PS50102 | Eukaryotic RNA Recognition Motif (RRM) profile. | 120 | 197 | 11.485845 | IPR000504 |
| ProSiteProfiles | PS51939 | xRRM domain profile. | 321 | 448 | 20.599051 | IPR014886 |
| PRINTS | PR00302 | Lupus La protein signature | 20 | 37 | 1.3E-11 | IPR002344 |
| PRINTS | PR00302 | Lupus La protein signature | 46 | 61 | 1.3E-11 | IPR002344 |
| PRINTS | PR00302 | Lupus La protein signature | 161 | 179 | 1.3E-11 | IPR002344 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 270 | 305 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 247 | 305 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 196 | 218 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 196 | 219 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 423 | 465 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 447 | 465 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 247 | 269 | - | - |
Gene Ontology
Biological Process:
Molecular Function:
Cellular Component:
KEGG Pathway
KO Term:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT4G32720.2 | La protein 1. Encodes AtLa1, a member of the highly abundant phosphoprotein La proteins. Predominantly localized to the nucleoplasm and was also detected in the nucleolar cavity. Has RNA binding activity. Required for normal ribosome biogenesis and embryogenesis. | 0 |
| RefSeq | XP_025828270.1 | la protein 1-like [Panicum hallii] | 0 |
| Q93ZV7 | La protein 1 OS=Arabidopsis thaliana OX=3702 GN=LA1 PE=1 SV=1 | 0 | |
| TrEMBL | A0A2T7F8U7 | La protein 1 OS=Panicum hallii var. hallii OX=1504633 GN=GQ55_1G295700 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 | jg23857 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah034908 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_2g031890 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg20994, Sbi_jg22787 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg16662 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00018229 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl62463, Sgl67008 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000019585, gene:ENSEOMG00000022090 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.2AG0016300, CQ.Regalona.r1.2BG0018080 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30253450 |
| Apiaceae | Apium graveolens | 2 | Ag6G01310, Ag7G01960 |
| Arecaceae | Cocos nucifera | 1 | COCNU_11G003630 |
| Arecaceae | Phoenix dactylifera | 2 | gene-LOC103698659, gene-LOC103707839 |
| Asparagaceae | Asparagus officinalis | 3 | AsparagusV1_01.425.V1.1, AsparagusV1_04.1498.V1.1 ... |
| Asteraceae | Flaveria trinervia | 1 | Ftri16G31063 |
| Brassicaceae | Arabidopsis thaliana | 2 | AT1G79880.1, AT4G32720.1 |
| Brassicaceae | Eutrema salsugineum | 2 | Thhalv10018639m.g.v1.0, Thhalv10025209m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 2 | Sp5g35890.v2.2, Sp7g30490.v2.2 |
| Brassicaceae | Brassica nigra | 4 | BniB02g085960.2N, BniB03g009750.2N, BniB05g005320.2N ... |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq04G2112 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl04G2308 |
| Cymodoceaceae | Cymodocea nodosa | 2 | gene.Cymno05g11730, gene.Cymno09g00900 |
| Dunaliellaceae | Dunaliella salina | 1 | Dusal.0100s00011.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate01g11320 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 1 | nbisL1-mrna-262 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG07.779 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00013650 |
| Plumbaginaceae | Limonium bicolor | 1 | Lb2G08475 |
| Poaceae | Echinochloa crus-galli | 7 | AH07.2558, AH09.1443, BH07.2368, BH07.2369, BH09.1623 ... |
| Poaceae | Eleusine coracana subsp. coracana | 4 | gene-QOZ80_2AG0137070, gene-QOZ80_2BG0192680 ... |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.2HG0178560.1 |
| Poaceae | Oryza coarctata | 4 | Oco03G015010, Oco04G015500, Oco07G009730, Oco08G009490 |
| Poaceae | Oryza sativa | 2 | LOC_Os02g39700.1, LOC_Os04g42010.1 |
| Poaceae | Paspalum vaginatum | 2 | gene-BS78_04G192300, gene-BS78_06G148400 |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0302240, Pt_Chr0302277 |
| Poaceae | Sporobolus alterniflorus | 5 | Chr09G016530, Chr13G007860, Chr23G009650, Chr25G010050 ... |
| Poaceae | Thinopyrum elongatum | 3 | Tel2E01G617200, Tel2E01G617400, Tel6E01G111700 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC2AG051030, gene_TRIDC2BG054450 |
| Poaceae | Triticum aestivum | 3 | TraesCS2A02G352500.1, TraesCS2B02G371800.1 ... |
| Poaceae | Zea mays | 3 | Zm00001eb246770_P001, Zm00001eb420980_P001 ... |
| Poaceae | Zoysia japonica | 2 | nbis-gene-18573, nbis-gene-36988 |
| Poaceae | Zoysia macrostachya | 2 | Zma_g16643, Zma_g19986 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG05.2347, evm.TU.LG07.1111 |
| Posidoniaceae | Posidonia oceanica | 3 | gene.Posoc01g25090, gene.Posoc04g13800, gene.Posoc08g05040 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_4_RagTag.781 |
| Rhizophoraceae | Carallia pectinifolia | 3 | nbisL1-mrna-14292, nbisL1-mrna-14293, nbisL1-mrna-28581 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-21416 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-1595 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000008l.506 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00000114 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-14398 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-19272 |
| Salicaceae | Populus euphratica | 2 | populus_peu04874, populus_peu12777 |
| Solanaceae | Lycium barbarum | 2 | gene-LOC132635655, gene-LOC132635656 |
| Solanaceae | Solanum chilense | 1 | SOLCI000456600 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107028966 |
| Tamaricaceae | Reaumuria soongarica | 2 | STRG.32833_chr09_-, STRG.4132_chr03_- |
| Tamaricaceae | Tamarix chinensis | 2 | TC01G1713, TC02G0338 |
| Zosteraceae | Zostera marina | 3 | Zosma01g10510.v3.1, Zosma03g31040.v3.1, Zosma06g13720.v3.1 |