Basic Information
Locus ID:
GOSA_00002406
Species & Taxonomic ID:
Suaeda aralocaspica & 224144
Genome Assembly:
GCA_016808085.1
Description:
pre-mRNA-processing factor
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| Contig111 | 5812851 | 5814602 | - | GOSA_00002406 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 6.03 | 66,211.40 Da | 39.47 | 62.86 | -0.74 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd00200 | WD40 | 285 | 583 | 3.52803E-67 | - |
| Pfam | PF00400 | WD domain, G-beta repeat | 414 | 450 | 0.0021 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 506 | 541 | 0.21 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 327 | 365 | 2.1E-7 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 284 | 322 | 5.4E-7 | IPR001680 |
| SUPERFAMILY | SSF50978 | WD40 repeat-like | 280 | 583 | 7.14E-72 | IPR036322 |
| Gene3D | G3DSA:2.130.10.10 | - | 270 | 583 | 2.1E-97 | IPR015943 |
| SMART | SM00320 | WD40_4 | 368 | 409 | 3.4 | IPR001680 |
| SMART | SM00320 | WD40_4 | 282 | 322 | 4.1E-9 | IPR001680 |
| SMART | SM00320 | WD40_4 | 412 | 451 | 4.6E-6 | IPR001680 |
| SMART | SM00320 | WD40_4 | 326 | 365 | 6.6E-11 | IPR001680 |
| SMART | SM00320 | WD40_4 | 500 | 541 | 0.48 | IPR001680 |
| SMART | SM00320 | WD40_4 | 544 | 583 | 1.3 | IPR001680 |
| SMART | SM00320 | WD40_4 | 455 | 494 | 10.0 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 419 | 451 | 12.613797 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 333 | 370 | 11.681953 | - |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 419 | 451 | 10.495596 | - |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 333 | 374 | 15.554599 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 289 | 323 | 10.732868 | - |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 519 | 550 | 8.603614 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 289 | 323 | 12.914561 | IPR001680 |
| ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 309 | 323 | - | IPR019775 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 352 | 366 | 4.2E-5 | IPR020472 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 438 | 452 | 4.2E-5 | IPR020472 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 309 | 323 | 4.2E-5 | IPR020472 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 160 | 218 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 42 | 64 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 64 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 161 | 177 | - | - |
Gene Ontology
Molecular Function:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT1G10580.1 | Transducin/WD40 repeat-like superfamily protein. | 0 |
| RefSeq | XP_021850466.1 | pre-mRNA-processing factor 17 isoform X1 [Spinacia oleracea] | 0 |
| Q9DC48 | Pre-mRNA-processing factor 17 OS=Mus musculus OX=10090 GN=Cdc40 PE=1 SV=1 | 0 | |
| TrEMBL | A0A0K9QA28 | WD_REPEATS_REGION domain-containing protein OS=Spinacia oleracea OX=3562 GN=SOVF_202720 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 | jg9462 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_18136 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah013553 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_6g148920 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg42936, Sbi_jg45548 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg11394 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00002406 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl35361, Sgl40715 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000000484, gene:ENSEOMG00000012586 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.6AG0005420, CQ.Regalona.r1.6BG0005650 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30222460 |
| Apiaceae | Apium graveolens | 2 | Ag1G01332, Ag6G00331 |
| Arecaceae | Cocos nucifera | 1 | COCNU_09G004460 |
| Arecaceae | Phoenix dactylifera | 2 | gene-LOC103719239, gene-LOC103722596 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_07.2668.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri13G30231 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT1G10580.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10007215m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 2 | Sp1g09240.v2.2, Sp4g02400.v2.2 |
| Brassicaceae | Brassica nigra | 1 | BniB04g029020.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq07G0805 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl07G0859 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno15g02700 |
| Dunaliellaceae | Dunaliella salina | 1 | Dusal.0324s00009.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate01g02430 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG05.496 |
| Plantaginaceae | Plantago ovata | 3 | Pov_00022407, Pov_00036359, Pov_00036379 |
| Plumbaginaceae | Limonium bicolor | 1 | Lb1G06529 |
| Poaceae | Echinochloa crus-galli | 1 | CH01.3977 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_3AG0251290, gene-QOZ80_3BG0277070 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.4HG0370350.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_059173 |
| Poaceae | Oryza coarctata | 2 | Oco05G015340, Oco06G015840 |
| Poaceae | Oryza sativa | 1 | LOC_Os03g27970.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_01G336700 |
| Poaceae | Puccinellia tenuiflora | 1 | Pt_Chr0105195 |
| Poaceae | Sporobolus alterniflorus | 3 | Chr01G024650, Chr04G012940, Chr07G012400 |
| Poaceae | Thinopyrum elongatum | 1 | Tel4E01G265700 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC4AG025020, gene_TRIDC4BG027160 |
| Poaceae | Triticum aestivum | 3 | TraesCS4A02G160700.1, TraesCS4B02G157400.1 ... |
| Poaceae | Zea mays | 2 | Zm00001eb019350_P001, Zm00001eb392750_P001 |
| Poaceae | Zoysia japonica | 2 | nbis-gene-12064, nbis-gene-43535 |
| Poaceae | Zoysia macrostachya | 2 | Zma_g1056, Zma_g3413 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG03.398, evm.TU.LG12.1309 |
| Posidoniaceae | Posidonia oceanica | 3 | gene.Posoc01g00430, gene.Posoc01g00440, gene.Posoc01g00450 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_17_RagTag.246 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-23087 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-11676 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-14775 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000013l.171 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00006623 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-7078 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-15851 |
| Salicaceae | Populus euphratica | 2 | populus_peu07578, populus_peu21612 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132623630 |
| Solanaceae | Solanum chilense | 1 | SOLCI002314700 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107011665 |
| Tamaricaceae | Reaumuria soongarica | 1 | STRG.9170_chr03_+ |
| Zosteraceae | Zostera marina | 1 | Zosma01g19950.v3.1 |