Basic Information
Locus ID:
BniB04g024190.2N
Species & Taxonomic ID:
Brassica nigra & 3710
Genome Assembly:
N100
Description:
lysine-specific demethylase
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| B4 | 13021432 | 13029224 | + | BniB04g024190.2N |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 7.85 | 166,342.66 Da | 52.49 | 86.91 | -0.37 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd16100 | ARID | 102 | 188 | 1.32117E-17 | - |
| CDD | cd15543 | PHD_RSF1 | 238 | 282 | 7.9284E-20 | - |
| Pfam | PF02373 | JmjC domain, hydroxylase | 408 | 524 | 5.8E-43 | IPR003347 |
| Pfam | PF01388 | ARID/BRIGHT DNA binding domain | 102 | 188 | 1.6E-10 | IPR001606 |
| Pfam | PF02928 | C5HC2 zinc finger | 618 | 669 | 3.1E-14 | IPR004198 |
| Pfam | PF00628 | PHD-finger | 238 | 284 | 6.5E-9 | IPR019787 |
| Pfam | PF02375 | jmjN domain | 32 | 65 | 1.4E-13 | IPR003349 |
| Pfam | PF08429 | PLU-1-like protein | 933 | 1180 | 6.6E-15 | IPR013637 |
| SUPERFAMILY | SSF57903 | FYVE/PHD zinc finger | 229 | 285 | 2.66E-14 | IPR011011 |
| SUPERFAMILY | SSF57903 | FYVE/PHD zinc finger | 1353 | 1401 | 1.38E-10 | IPR011011 |
| SUPERFAMILY | SSF46774 | ARID-like | 80 | 199 | 5.23E-25 | IPR036431 |
| SUPERFAMILY | SSF51197 | Clavaminate synthase-like | 372 | 556 | 8.24E-32 | - |
| Gene3D | G3DSA:1.10.150.60 | - | 99 | 198 | 2.5E-18 | IPR036431 |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 1340 | 1398 | 7.8E-11 | IPR013083 |
| Gene3D | G3DSA:2.60.120.650 | Cupin | 15 | 526 | 2.1E-125 | - |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 210 | 283 | 1.6E-16 | IPR013083 |
| SMART | SM01014 | ARID_2 | 95 | 188 | 9.5E-9 | - |
| SMART | SM00545 | JmjN_1 | 30 | 71 | 1.7E-18 | IPR003349 |
| SMART | SM00558 | cupin_9 | 375 | 541 | 2.7E-68 | IPR003347 |
| SMART | SM00249 | PHD_3 | 237 | 283 | 4.1E-9 | IPR001965 |
| SMART | SM00249 | PHD_3 | 1355 | 1397 | 5.0E-4 | IPR001965 |
| SMART | SM00501 | bright_3 | 99 | 193 | 8.8E-30 | IPR001606 |
| ProSiteProfiles | PS50016 | Zinc finger PHD-type profile. | 235 | 285 | 9.570099 | IPR019787 |
| ProSiteProfiles | PS51184 | JmjC domain profile. | 375 | 541 | 37.351284 | IPR003347 |
| ProSiteProfiles | PS51011 | ARID domain profile. | 98 | 192 | 18.07448 | IPR001606 |
| ProSiteProfiles | PS51183 | JmjN domain profile. | 31 | 72 | 16.626623 | IPR003349 |
| ProSitePatterns | PS01359 | Zinc finger PHD-type signature. | 1356 | 1396 | - | IPR019786 |
| ProSitePatterns | PS01359 | Zinc finger PHD-type signature. | 238 | 282 | - | IPR019786 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 678 | 708 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1403 | 1422 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 684 | 705 | - | - |
Gene Ontology
Molecular Function:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT1G63490.2 | - | 0 |
| RefSeq | XP_013611382.1 | PREDICTED: lysine-specific demethylase 5D isoform X3 [Brassica oleracea var. oleracea] | 0 |
| F4I240 | Lysine-specific demethylase JMJ17 OS=Arabidopsis thaliana OX=3702 GN=JMJ17 PE=1 SV=1 | 0 | |
| TrEMBL | A0A0D3E3W4 | [Histone H3]-trimethyl-L-lysine(4) demethylase OS=Brassica oleracea var. oleracea OX=109376 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 | jg7628 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_14746 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah004642 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg23843, Sbi_jg7673 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg12348 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00001211 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl51980, Sgl57283 |
| Amaranthaceae | Chenopodium album | 4 | gene:ENSEOMG00000008167, gene:ENSEOMG00000022133 ... |
| Amaranthaceae | Chenopodium quinoa | 4 | CQ.Regalona.r1.2BG0010030, CQ.Regalona.r1.5AG0007490 ... |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30137140 |
| Apiaceae | Apium graveolens | 1 | Ag6G01764 |
| Arecaceae | Cocos nucifera | 1 | COCNU_09G007690 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103705556 |
| Asparagaceae | Asparagus officinalis | 2 | AsparagusV1_07.2188.V1.1, AsparagusV1_07.2189.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri13G25995 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT1G63490.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10023217m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp2g01130.v2.2 |
| Brassicaceae | Brassica nigra | 1 | BniB04g024190.2N |
| Casuarinaceae | Casuarina equisetifolia | 2 | Ceq03G0366, Ceq03G0370 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl03G0462 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG10.1379 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00030419 |
| Plumbaginaceae | Limonium bicolor | 5 | Lb2G10687, Lb2G10688, Lb2G10689, Lb2G10690, Lb2G10861 |
| Poaceae | Echinochloa crus-galli | 3 | AH06.3076, BH06.2875, CH06.989 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_6AG0551750, gene-QOZ80_6BG0505330 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.7HG0752360.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_037051 |
| Poaceae | Oryza coarctata | 2 | Oco11G017830, Oco12G018160 |
| Poaceae | Oryza sativa | 1 | LOC_Os06g51490.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_10G267700 |
| Poaceae | Puccinellia tenuiflora | 1 | Pt_Chr0404194 |
| Poaceae | Sporobolus alterniflorus | 1 | Chr10G022770 |
| Poaceae | Thinopyrum elongatum | 1 | Tel7E01G1015100 |
| Poaceae | Triticum dicoccoides | 1 | gene_TRIDC7AG078290 |
| Poaceae | Triticum aestivum | 3 | TraesCS7A02G566000.1, TraesCS7B02G492100.1 ... |
| Poaceae | Zea mays | 1 | Zm00001eb229050_P001 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG18.600, evm.TU.LG26.431 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc06g05360 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_16_RagTag.185 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-22424 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-6279 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-20315 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000022l.382 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00014317 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-3525 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-6682 |
| Salicaceae | Populus euphratica | 1 | populus_peu34394 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132634893 |
| Solanaceae | Solanum chilense | 1 | SOLCI004164700 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107028578 |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_11321 |
| Tamaricaceae | Tamarix chinensis | 1 | TC06G0230 |