Basic Information
Locus ID:
TC11G0235
Species & Taxonomic ID:
Tamarix chinensis & 189791
Genome Assembly:
GCA_030549775.1
Description:
Sigma factors are initiation factors that promote the attachment of plastid-encoded RNA polymerase (PEP) to specific initiation sites and are then released
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr11 | 5370250 | 5376690 | + | TC11G0235 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 5.87 | 96,315.90 Da | 40.02 | 89.09 | -0.35 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd06171 | Sigma70_r4 | 796 | 853 | 9.63193E-14 | - |
| Pfam | PF00005 | ABC transporter | 124 | 299 | 8.5E-19 | IPR003439 |
| Pfam | PF04545 | Sigma-70, region 4 | 802 | 853 | 1.7E-18 | IPR007630 |
| Pfam | PF04542 | Sigma-70 region 2 | 634 | 703 | 1.2E-18 | IPR007627 |
| Pfam | PF04539 | Sigma-70 region 3 | 713 | 788 | 4.3E-18 | IPR007624 |
| SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 105 | 345 | 2.89E-36 | IPR027417 |
| SUPERFAMILY | SSF88659 | Sigma3 and sigma4 domains of RNA polymerase sigma factors | 707 | 780 | 3.11E-12 | IPR013324 |
| SUPERFAMILY | SSF88659 | Sigma3 and sigma4 domains of RNA polymerase sigma factors | 766 | 857 | 4.11E-24 | IPR013324 |
| SUPERFAMILY | SSF88946 | Sigma2 domain of RNA polymerase sigma factors | 554 | 704 | 6.44E-45 | IPR013325 |
| Gene3D | G3DSA:1.10.10.10 | - | 707 | 783 | 5.5E-15 | IPR036388 |
| Gene3D | G3DSA:1.10.10.10 | - | 789 | 866 | 2.8E-24 | IPR036388 |
| Gene3D | G3DSA:3.40.50.300 | - | 105 | 413 | 9.1E-48 | IPR027417 |
| Gene3D | G3DSA:1.10.601.10 | RNA Polymerase Primary Sigma Factor | 487 | 706 | 6.4E-40 | - |
| SMART | SM00382 | AAA_5 | 133 | 348 | 0.0035 | IPR003593 |
| TIGRFAM | TIGR02937 | sigma70-ECF: RNA polymerase sigma factor, sigma-70 family | 632 | 856 | 1.4E-32 | IPR014284 |
| ProSiteProfiles | PS50893 | ATP-binding cassette, ABC transporter-type domain profile. | 109 | 367 | 16.313332 | IPR003439 |
| ProSitePatterns | PS00716 | Sigma-70 factors family signature 2. | 827 | 853 | - | IPR000943 |
| PRINTS | PR00046 | Major sigma-70 factor signature | 682 | 690 | 1.1E-21 | IPR000943 |
| PRINTS | PR00046 | Major sigma-70 factor signature | 806 | 818 | 1.1E-21 | IPR000943 |
| PRINTS | PR00046 | Major sigma-70 factor signature | 658 | 671 | 1.1E-21 | IPR000943 |
| PRINTS | PR00046 | Major sigma-70 factor signature | 827 | 842 | 1.1E-21 | IPR000943 |
| PRINTS | PR00046 | Major sigma-70 factor signature | 842 | 853 | 1.1E-21 | IPR000943 |
Gene Ontology
Biological Process:
Molecular Function:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT1G08540.1 | RNApolymerase sigma subunit 2. Enodes a subunit of chloroplast RNA polymerase, confers the ability to recognize promoter sequences on the core enzyme. SIG1 is induced by red and blue light. | 0 |
| RefSeq | XP_018817644.1 | RNA polymerase sigma factor sigB isoform X2 [Juglans regia] | 0 |
| O22056 | RNA polymerase sigma factor sigB OS=Arabidopsis thaliana OX=3702 GN=SIGB PE=2 SV=2 | 0 | |
| TrEMBL | A0A5B6ZZE0 | RNA polymerase sigma factor OS=Davidia involucrata OX=16924 GN=Din_019190 PE=3 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 | 2 | jg1678, jg29090 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_23115 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah023418 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_7g172600 |
| Amaranthaceae | Salicornia bigelovii | 4 | Sbi_jg28739, Sbi_jg3221, Sbi_jg5769, Sbi_jg5770 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg6705 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00000061 |
| Amaranthaceae | Suaeda glauca | 3 | Sgl11547, Sgl16923, Sgl17045 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000014613, gene:ENSEOMG00000035714 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.1AG0008460, CQ.Regalona.r1.1BG0017410 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30094020 |
| Apiaceae | Apium graveolens | 3 | Ag10G00375, Ag1G00373, Ag5G01248 |
| Arecaceae | Cocos nucifera | 2 | COCNU_07G010890, COCNU_10G008190 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103718565 |
| Asparagaceae | Asparagus officinalis | 2 | AsparagusV1_01.1179.V1.1, AsparagusV1_08.65.V1.1 |
| Asteraceae | Flaveria trinervia | 2 | Ftri15G04390, Ftri18G30669 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT1G08540.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10007187m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp1g07200.v2.2 |
| Brassicaceae | Brassica nigra | 2 | BniB03g002780.2N, BniB04g031140.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq05G0169 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl05G0176 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno16g05810 |
| Dunaliellaceae | Dunaliella salina | 1 | Dusal.0049s00001.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate05g11550 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 1 | nbisL1-mrna-8336 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG03.1931 |
| Plantaginaceae | Plantago ovata | 2 | Pov_00016895, Pov_00016914 |
| Plumbaginaceae | Limonium bicolor | 2 | Lb1G03125, Lb2G11570 |
| Poaceae | Echinochloa crus-galli | 7 | AH01.4195, AH04.1190, BH01.4510, BH04.1150, CH01.4788 ... |
| Poaceae | Eleusine coracana subsp. coracana | 4 | gene-QOZ80_3AG0242670, gene-QOZ80_3BG0285540 ... |
| Poaceae | Hordeum vulgare | 2 | HORVU.MOREX.r3.4HG0374390.1, HORVU.MOREX.r3.4HG0388780.1 |
| Poaceae | Lolium multiflorum | 2 | gene-QYE76_066976, gene-QYE76_069038 |
| Poaceae | Oryza coarctata | 4 | Oco05G009380, Oco06G009720, Oco21G005050, Oco22G006200 |
| Poaceae | Oryza sativa | 2 | LOC_Os03g16430.1, LOC_Os11g26160.1 |
| Poaceae | Paspalum vaginatum | 2 | gene-BS78_01G403500, gene-BS78_05G127200 |
| Poaceae | Puccinellia tenuiflora | 3 | Pt_Chr0102274, Pt_Chr0102304, Pt_Chr0102962 |
| Poaceae | Sporobolus alterniflorus | 5 | Chr01G030860, Chr04G007610, Chr07G004010, Chr16G007370 ... |
| Poaceae | Thinopyrum elongatum | 2 | Tel4E01G303600, Tel4E01G368400 |
| Poaceae | Triticum dicoccoides | 4 | gene_TRIDC4AG013000, gene_TRIDC4AG022580 ... |
| Poaceae | Triticum aestivum | 6 | TraesCS4A02G095200.1, TraesCS4A02G157100.1 ... |
| Poaceae | Zea mays | 3 | Zm00001eb012130_P003, Zm00001eb169360_P001 ... |
| Poaceae | Zoysia japonica | 2 | nbis-gene-35996, nbis-gene-3768 |
| Poaceae | Zoysia macrostachya | 2 | Zma_g17867, Zma_g3938 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG04.1713, evm.TU.LG10.1201 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc07g00090 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_1_RagTag.486 |
| Rhizophoraceae | Carallia pectinifolia | 3 | nbisL1-mrna-3038, nbisL1-mrna-3130, nbisL1-mrna-7686 |
| Rhizophoraceae | Ceriops tagal | 2 | nbisL1-mrna-16022, nbisL1-mrna-19160 |
| Rhizophoraceae | Ceriops zippeliana | 2 | nbisL1-mrna-13930, nbisL1-mrna-5515 |
| Rhizophoraceae | Kandelia candel | 2 | evm.TU.utg000009l.241, evm.TU.utg000012l.300 |
| Rhizophoraceae | Kandelia obovata | 2 | Maker00005466, Maker00011153 |
| Rhizophoraceae | Rhizophora apiculata | 2 | nbisL1-mrna-12792, nbisL1-mrna-8495 |
| Rhizophoraceae | Rhizophora mangle | 2 | nbisL1-mrna-16408, nbisL1-mrna-630 |
| Salicaceae | Populus euphratica | 4 | populus_peu16193, populus_peu19289, populus_peu19290 ... |
| Solanaceae | Lycium barbarum | 2 | gene-LOC132635716, gene-LOC132645103 |
| Solanaceae | Solanum chilense | 1 | SOLCI001247500 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107007105 |
| Tamaricaceae | Reaumuria soongarica | 3 | STRG.22652_chr10_-, STRG.22655_chr10_+, gene_2855 |
| Tamaricaceae | Tamarix chinensis | 1 | TC11G0235 |
| Zosteraceae | Zostera marina | 2 | Zosma05g01000.v3.1, Zosma06g01080.v3.1 |