Basic Information
Locus ID:
nbisL1-mrna-4685
Species & Taxonomic ID:
Carallia pectinifolia & 98586
Genome Assembly:
GCA_037832335.1
Description:
Transcription initiation factor TFIID subunit
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr02 | 19356105 | 19376835 | - | nbisL1-mrna-4685 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 5.74 | 214,683.83 Da | 50.95 | 75.46 | -0.77 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd04369 | Bromodomain | 1798 | 1892 | 1.13748E-25 | - |
| CDD | cd17064 | Ubl_TAFs_like | 671 | 742 | 3.0972E-34 | - |
| Pfam | PF09247 | TATA box-binding protein binding | 17 | 64 | 1.2E-10 | IPR009067 |
| Pfam | PF12157 | Protein of unknown function (DUF3591) | 588 | 1158 | 7.0E-138 | IPR022591 |
| Pfam | PF00240 | Ubiquitin family | 673 | 743 | 5.7E-11 | IPR000626 |
| Pfam | PF00439 | Bromodomain | 1798 | 1873 | 7.3E-19 | IPR001487 |
| Pfam | PF15288 | Zinc knuckle | 1408 | 1427 | 5.9E-5 | IPR041670 |
| SUPERFAMILY | SSF54236 | Ubiquitin-like | 641 | 741 | 3.91E-16 | IPR029071 |
| SUPERFAMILY | SSF47370 | Bromodomain | 1786 | 1899 | 3.66E-28 | IPR036427 |
| SUPERFAMILY | SSF47055 | TAF(II)230 TBP-binding fragment | 23 | 61 | 3.14E-8 | IPR036741 |
| Gene3D | G3DSA:1.20.920.10 | - | 1714 | 1908 | 3.9E-27 | IPR036427 |
| Gene3D | G3DSA:1.10.1100.10 | - | 20 | 70 | 1.9E-6 | IPR036741 |
| Gene3D | G3DSA:3.10.20.90 | - | 653 | 743 | 4.4E-15 | - |
| SMART | SM00213 | ubq_7 | 671 | 743 | 1.8E-12 | IPR000626 |
| SMART | SM00297 | bromo_6 | 1787 | 1897 | 1.2E-25 | IPR001487 |
| ProSiteProfiles | PS50014 | Bromodomain profile. | 1807 | 1877 | 18.6122 | IPR001487 |
| ProSiteProfiles | PS50053 | Ubiquitin domain profile. | 671 | 741 | 15.710161 | IPR000626 |
| ProSitePatterns | PS00633 | Bromodomain signature. | 1812 | 1869 | - | IPR018359 |
| PRINTS | PR00503 | Bromodomain signature | 1840 | 1858 | 5.3E-9 | IPR001487 |
| PRINTS | PR00503 | Bromodomain signature | 1858 | 1877 | 5.3E-9 | IPR001487 |
| PRINTS | PR00503 | Bromodomain signature | 1810 | 1823 | 5.3E-9 | IPR001487 |
| PRINTS | PR00503 | Bromodomain signature | 1824 | 1840 | 5.3E-9 | IPR001487 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 27 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1243 | 1278 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1545 | 1613 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1445 | 1480 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 137 | 156 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1588 | 1613 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1466 | 1480 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1247 | 1265 | - | - |
| Coils | Coil | Coil | 74 | 94 | - | - |
| Coils | Coil | Coil | 1712 | 1739 | - | - |
Gene Ontology
Molecular Function:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT1G32750.1 | HAC13 protein (HAC13). This gene is predicted to encode a histone acetyltransferase. Five lines with RNAi constructs directed against HAF1 grow normally and can produce root calli, but have defects in agrobacterium-mediated transformation. | 0 |
| RefSeq | XP_020534043.1 | - | 0 |
| Q8LRK9 | Transcription initiation factor TFIID subunit 1 OS=Arabidopsis thaliana OX=3702 GN=TAF1 PE=1 SV=1 | 0 | |
| TrEMBL | A0A2P2MNG2 | Transcription initiation factor TFIID subunit 1 isoform X2 OS=Rhizophora mucronata OX=61149 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 | 1 | jg28518 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_2845 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah019571 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_3g058510 |
| Amaranthaceae | Salicornia bigelovii | 3 | Sbi_jg25942, Sbi_jg38517, Sbi_jg6622 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg15310 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00006407 |
| Amaranthaceae | Suaeda glauca | 5 | Sgl01840, Sgl01841, Sgl06997, Sgl79237, Sgl81698 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000015267, gene:ENSEOMG00000032286 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.3AG0010850, CQ.Regalona.r1.3BG0011040 |
| Anacardiaceae | Pistacia vera | 2 | pistato.v30102830, pistato.v30261160 |
| Apiaceae | Apium graveolens | 2 | Ag4G02735, Ag7G00549 |
| Arecaceae | Cocos nucifera | 1 | COCNU_01G015820 |
| Arecaceae | Phoenix dactylifera | 3 | gene-LOC103718979, gene-LOC120107979, gene-LOC120108968 |
| Asparagaceae | Asparagus officinalis | 2 | AsparagusV1_03.203.V1.1, AsparagusV1_03.226.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri16G12161 |
| Brassicaceae | Arabidopsis thaliana | 2 | AT1G32750.1, AT3G19040.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10006532m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 2 | Sp1g28210.v2.2, Sp3g17140.v2.2 |
| Brassicaceae | Brassica nigra | 2 | BniB07g016900.2N, BniB07g051470.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq09G0603 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl09G0641 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno05g10550 |
| Dunaliellaceae | Dunaliella salina | 1 | Dusal.0232s00002.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate06g08610 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG08.776 |
| Plantaginaceae | Plantago ovata | 4 | Pov_00002129, Pov_00004518, Pov_00014480, Pov_00023629 |
| Plumbaginaceae | Limonium bicolor | 1 | Lb1G04603 |
| Poaceae | Echinochloa crus-galli | 5 | AH05.3914, AH06.2445, BH06.2244, CH05.4145, CH06.2467 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_6AG0546340, gene-QOZ80_6BG0499700 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.7HG0744780.1 |
| Poaceae | Lolium multiflorum | 9 | gene-QYE76_007624, gene-QYE76_007626, gene-QYE76_007628 ... |
| Poaceae | Oryza coarctata | 2 | Oco11G013820, Oco12G014010 |
| Poaceae | Oryza sativa | 1 | LOC_Os06g43790.1 |
| Poaceae | Paspalum vaginatum | 2 | gene-BS78_02G113400, gene-BS78_10G207000 |
| Poaceae | Puccinellia tenuiflora | 1 | Pt_Chr0401600 |
| Poaceae | Sporobolus alterniflorus | 6 | Chr02G030870, Chr0G000050, Chr0G000060, Chr10G018960 ... |
| Poaceae | Thinopyrum elongatum | 2 | Tel7E01G892500, Tel7E01G892700 |
| Poaceae | Triticum dicoccoides | 5 | gene_TRIDC7AG072320, gene_TRIDC7AG072340 ... |
| Poaceae | Triticum aestivum | 6 | TraesCS7A02G514800.1, TraesCS7A02G515000.1 ... |
| Poaceae | Zea mays | 1 | Zm00001eb386900_P001 |
| Poaceae | Zoysia japonica | 1 | nbis-gene-40908 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g33140 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG06.1498, evm.TU.LG11.861 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc01g23010 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_2_RagTag.510 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-4685 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-2061 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-9670 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000009l.655 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00006140 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-2607 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-16587 |
| Salicaceae | Populus euphratica | 2 | populus_peu22749, populus_peu24171 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132602807 |
| Solanaceae | Solanum chilense | 1 | SOLCI000387400 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107025862 |
| Tamaricaceae | Reaumuria soongarica | 2 | gene_12267, gene_9225 |
| Tamaricaceae | Tamarix chinensis | 1 | TC10G0552 |
| Zosteraceae | Zostera marina | 1 | Zosma03g31420.v3.1 |