Basic Information
Locus ID:
nbisL1-mrna-3939
Species & Taxonomic ID:
Carallia pectinifolia & 98586
Genome Assembly:
GCA_037832335.1
Description:
protein At4g01020, chloroplastic
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr02 | 12138987 | 12146044 | - | nbisL1-mrna-3939 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 7.65 | 194,310.50 Da | 46.68 | 89.86 | -0.21 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd17917 | DEXHc_RHA-like | 270 | 426 | 2.30785E-53 | - |
| CDD | cd18791 | SF2_C_RHA | 431 | 594 | 4.91638E-64 | - |
| Pfam | PF00270 | DEAD/DEAH box helicase | 260 | 414 | 1.1E-7 | IPR011545 |
| Pfam | PF07717 | Oligonucleotide/oligosaccharide-binding (OB)-fold | 811 | 890 | 5.2E-10 | IPR011709 |
| Pfam | PF04408 | Helicase associated domain (HA2) | 647 | 741 | 4.1E-8 | IPR007502 |
| Pfam | PF01485 | IBR domain, a half RING-finger domain | 1589 | 1649 | 1.4E-7 | IPR002867 |
| Pfam | PF00271 | Helicase conserved C-terminal domain | 465 | 586 | 2.2E-14 | IPR001650 |
| SUPERFAMILY | SSF57850 | RING/U-box | 1670 | 1718 | 6.18E-9 | - |
| SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 255 | 764 | 6.86E-68 | IPR027417 |
| SUPERFAMILY | SSF57850 | RING/U-box | 1597 | 1655 | 2.65E-5 | - |
| SUPERFAMILY | SSF57850 | RING/U-box | 1512 | 1581 | 5.14E-9 | - |
| Gene3D | G3DSA:3.40.50.300 | - | 430 | 604 | 2.6E-54 | IPR027417 |
| Gene3D | G3DSA:3.40.50.300 | - | 238 | 429 | 1.7E-61 | IPR027417 |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 1512 | 1595 | 1.1E-9 | IPR013083 |
| Gene3D | G3DSA:1.20.120.1750 | - | 1627 | 1722 | 2.4E-9 | - |
| Gene3D | G3DSA:1.20.120.1080 | - | 631 | 774 | 7.5E-10 | - |
| SMART | SM00487 | ultradead3 | 251 | 436 | 1.5E-30 | IPR014001 |
| SMART | SM00647 | ibrneu5 | 1650 | 1714 | 0.33 | IPR002867 |
| SMART | SM00647 | ibrneu5 | 1585 | 1649 | 4.6E-9 | IPR002867 |
| SMART | SM00847 | ha2_5 | 646 | 742 | 4.8E-11 | IPR007502 |
| SMART | SM00490 | helicmild6 | 488 | 586 | 2.1E-17 | IPR001650 |
| ProSiteProfiles | PS51194 | Superfamilies 1 and 2 helicase C-terminal domain profile. | 460 | 626 | 14.880842 | IPR001650 |
| ProSiteProfiles | PS50089 | Zinc finger RING-type profile. | 1517 | 1555 | 8.71251 | IPR001841 |
| ProSiteProfiles | PS51873 | TRIAD supradomain profile. | 1513 | 1721 | 27.716702 | IPR044066 |
| ProSiteProfiles | PS51192 | Superfamilies 1 and 2 helicase ATP-binding type-1 domain profile. | 263 | 427 | 18.116837 | IPR014001 |
| ProSitePatterns | PS00518 | Zinc finger RING-type signature. | 1533 | 1542 | - | IPR017907 |
| ProSitePatterns | PS00690 | DEAH-box subfamily ATP-dependent helicases signature. | 369 | 378 | - | IPR002464 |
| ProSitePatterns | PS00028 | Zinc finger C2H2 type domain signature. | 1701 | 1722 | - | IPR013087 |
| Coils | Coil | Coil | 151 | 171 | - | - |
Gene Ontology
Molecular Function:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT4G01020.1 | helicase domain-containing protein / IBR domain-containing protein / zinc finger protein-related. | 0 |
| RefSeq | XP_021642659.1 | ATP-dependent RNA helicase DEAH11, chloroplastic-like isoform X1 [Hevea brasiliensis] | 0 |
| P0CE10 | ATP-dependent RNA helicase DEAH11, chloroplastic OS=Arabidopsis thaliana OX=3702 GN=At4g01020 PE=3 SV=1 | 0 | |
| TrEMBL | A0A2P2JTR2 | RNA helicase 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 | jg17052 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_16894 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah026708 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_6g138750 |
| Amaranthaceae | Salicornia bigelovii | 5 | Sbi_jg12768, Sbi_jg53124, Sbi_jg53129, Sbi_jg5761 ... |
| Amaranthaceae | Salicornia europaea | 2 | Seu_jg13485, Seu_jg8752 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00013519 |
| Amaranthaceae | Suaeda glauca | 3 | Sgl34220, Sgl39518, Sgl39563 |
| Amaranthaceae | Chenopodium album | 1 | gene:ENSEOMG00000002562 |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.6BG0019900, CQ.Regalona.r1.9AG0000080 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30203470 |
| Apiaceae | Apium graveolens | 1 | Ag3G01671 |
| Arecaceae | Cocos nucifera | 4 | COCNU_02G007090, COCNU_03G007140, COCNU_05G005500 ... |
| Arecaceae | Phoenix dactylifera | 2 | gene-LOC103696124, gene-LOC103701784 |
| Asparagaceae | Asparagus officinalis | 2 | AsparagusV1_03.1863.V1.1, AsparagusV1_08.3177.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri18G25441 |
| Brassicaceae | Arabidopsis thaliana | 2 | AT4G01020.1, AT5G10370.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10012419m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp6g33080.v2.2 |
| Brassicaceae | Brassica nigra | 3 | BniB01g033430.2N, BniB02g051570.2N, BniB08g004790.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq06G1977 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl06G2086 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno03g12230 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate04g12520 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 1 | nbisL1-mrna-4375 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG02.2482 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00026396 |
| Plumbaginaceae | Limonium bicolor | 2 | Lb5G27896, Lb8G36379 |
| Poaceae | Echinochloa crus-galli | 3 | AH03.3736, BH03.4015, CH03.4283 |
| Poaceae | Eleusine coracana subsp. coracana | 1 | gene-QOZ80_7AG0577610 |
| Poaceae | Hordeum vulgare | 2 | HORVU.MOREX.r3.2HG0124060.1, HORVU.MOREX.r3.5HG0440160.1 |
| Poaceae | Lolium multiflorum | 2 | gene-QYE76_039487, gene-QYE76_050226 |
| Poaceae | Oryza coarctata | 2 | Oco13G012990, Oco14G013680 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_02G353800 |
| Poaceae | Puccinellia tenuiflora | 1 | Pt_Chr0700312 |
| Poaceae | Sporobolus alterniflorus | 4 | Chr19G002040, Chr24G015030, Chr27G015190, Chr28G011940 |
| Poaceae | Thinopyrum elongatum | 3 | Tel2E01G323900, Tel3E01G192000, Tel5E01G151700 |
| Poaceae | Triticum dicoccoides | 5 | gene_TRIDC2AG020750, gene_TRIDC3AG013700 ... |
| Poaceae | Triticum aestivum | 9 | TraesCS2A02G164100.1, TraesCS2B02G190100.1 ... |
| Poaceae | Zea mays | 1 | Zm00001eb327760_P001 |
| Poaceae | Zoysia japonica | 2 | nbis-gene-23578, nbis-gene-344 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g26536 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG05.260, evm.TU.LG25.1054 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc02g29810 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_2_RagTag.1290 |
| Rhizophoraceae | Carallia pectinifolia | 2 | nbisL1-mrna-3939, nbisL1-mrna-3973 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-17314 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-18726 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000009l.452 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00005543 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-12354 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-23201 |
| Salicaceae | Populus euphratica | 3 | populus_peu01442, populus_peu13728, populus_peu24188 |
| Solanaceae | Lycium barbarum | 2 | gene-LOC132612644, gene-LOC132613750 |
| Solanaceae | Solanum chilense | 2 | SOLCI000030600, SOLCI006111000 |
| Solanaceae | Solanum pennellii | 2 | gene-LOC107004738, gene-LOC107017803 |
| Tamaricaceae | Reaumuria soongarica | 2 | gene_15627, gene_3486 |
| Tamaricaceae | Tamarix chinensis | 3 | TC09G0173, TC11G0701, TC11G0703 |
| Zosteraceae | Zostera marina | 2 | Zosma04g19990.v3.1, Zosma05g20540.v3.1 |