Basic Information
Locus ID:
Ag8G01633
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
DEAD-box ATP-dependent RNA helicase 58
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr8 | 224242119 | 224246332 | + | Ag8G01633 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 8.83 | 52,414.76 Da | 50.45 | 98.51 | -0.11 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd18787 | SF2_C_DEAD | 301 | 446 | 8.12773E-26 | - |
| CDD | cd00268 | DEADc | 83 | 268 | 1.42296E-53 | - |
| Pfam | PF00270 | DEAD/DEAH box helicase | 96 | 268 | 1.2E-31 | IPR011545 |
| Pfam | PF00271 | Helicase conserved C-terminal domain | 317 | 432 | 7.6E-16 | IPR001650 |
| SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 104 | 447 | 1.09E-43 | IPR027417 |
| Gene3D | G3DSA:3.40.50.300 | - | 299 | 467 | 1.2E-26 | IPR027417 |
| Gene3D | G3DSA:3.40.50.300 | - | 48 | 282 | 1.3E-48 | IPR027417 |
| SMART | SM00487 | ultradead3 | 91 | 304 | 2.1E-33 | IPR014001 |
| SMART | SM00490 | helicmild6 | 354 | 434 | 2.5E-14 | IPR001650 |
| ProSiteProfiles | PS51192 | Superfamilies 1 and 2 helicase ATP-binding type-1 domain profile. | 103 | 284 | 21.549757 | IPR014001 |
| ProSiteProfiles | PS51194 | Superfamilies 1 and 2 helicase C-terminal domain profile. | 313 | 470 | 14.019406 | IPR001650 |
Gene Ontology
Molecular Function:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT5G19210.2 | P-loop containing nucleoside triphosphate hydrolases superfamily protein. | 0 |
| RefSeq | XP_017220020.1 | PREDICTED: DEAD-box ATP-dependent RNA helicase 58, chloroplastic isoform X1 [Daucus carota subsp. sativus] | 0 |
| Q3E9C3 | DEAD-box ATP-dependent RNA helicase 58, chloroplastic OS=Arabidopsis thaliana OX=3702 GN=RH58 PE=2 SV=1 | 0 | |
| TrEMBL | A0A175YNX1 | DEAD-box ATP-dependent RNA helicase 58, chloroplastic OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_027172 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 7.067067 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 6.451584 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 5.134482 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 5.030893 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 4.63868 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 5.882099 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 4.136182 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 3.692265 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 9.237803 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 6.523807 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 9.050073 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 9.621636 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 8.649483 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 7.501738 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 7.502348 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 9.013267 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 6.305902 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 6.857362 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 9.214573 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 6.028208 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 9.397845 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 5.678948 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 7.673958 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 10.628492 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 5.88262 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 8.473939 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 7.966628 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 7.286951 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 8.940157 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 1.221905 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 2.344309 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 1.592845 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 5.898841 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 4.657741 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 5.230372 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 2.512366 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 1.289959 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 1.054226 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 8.416112 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 6.176743 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 9.682278 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 1.886502 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 2.149148 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 3.208561 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 2.554631 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 2.735959 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 3.145991 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 7.218156 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 7.229855 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 5.953678 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 1 | jg12536 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_2645 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah020273 |
| Amaranthaceae | Salicornia bigelovii | 3 | Sbi_jg5106, Sbi_jg6889, Sbi_jg6890 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg13153 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00003880 |
| Amaranthaceae | Suaeda glauca | 3 | Sgl00050, Sgl05123, Sgl05149 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000013099, gene:ENSEOMG00000032331 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.3AG0014230, CQ.Regalona.r1.3BG0014240 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30237240 |
| Apiaceae | Apium graveolens | 1 | Ag8G01633 |
| Arecaceae | Cocos nucifera | 1 | scaffold010161G000010 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103696541 |
| Asparagaceae | Asparagus officinalis | 2 | AsparagusV1_07.1804.V1.1, AsparagusV1_08.169.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri14G05941 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT5G19210.2 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10013438m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp6g25180.v2.2 |
| Brassicaceae | Brassica nigra | 2 | BniB03g053430.2N, BniB05g044490.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq07G1036 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl07G1081 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno05g05400 |
| Dunaliellaceae | Dunaliella salina | 1 | Dusal.0239s00015.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate02g26060 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG11.1091 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00025964 |
| Plumbaginaceae | Limonium bicolor | 2 | Lb1G00122, Lb1G00129 |
| Poaceae | Echinochloa crus-galli | 6 | AH02.4644, AH07.1018, BH02.4709, BH07.1127, CH07.909 ... |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_1AG0048090, gene-QOZ80_1BG0097990 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.3HG0327850.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_058843 |
| Poaceae | Oryza coarctata | 1 | Oco02G032100 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_03G417600 |
| Poaceae | Puccinellia tenuiflora | 1 | Pt_Chr0601077 |
| Poaceae | Sporobolus alterniflorus | 2 | Chr03G023950, Chr08G017660 |
| Poaceae | Thinopyrum elongatum | 1 | Tel3E01G882800 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC3AG074320, gene_TRIDC3BG085630 |
| Poaceae | Triticum aestivum | 2 | TraesCS3B02G592900.1, TraesCS3D02G530600.1 |
| Poaceae | Zea mays | 1 | Zm00001eb362300_P003 |
| Poaceae | Zoysia japonica | 1 | nbis-gene-10757 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g9436 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG06.1700, evm.TU.LG11.1058 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc01g11350 |
| Rhizophoraceae | Bruguiera sexangula | 2 | evm.TU.Scaffold_3_RagTag.473, evm.TU.Scaffold_3_RagTag.474 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-6465 |
| Rhizophoraceae | Ceriops zippeliana | 2 | nbisL1-mrna-6199, nbisL1-mrna-6200 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000019l.935 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00012809 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-6333 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-2097 |
| Salicaceae | Populus euphratica | 1 | populus_peu21344 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132644973 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107001883 |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_8463 |
| Tamaricaceae | Tamarix chinensis | 1 | TC12G1425 |
| Zosteraceae | Zostera marina | 1 | Zosma01g20600.v3.1 |