Basic Information
Locus ID:
Ag3G01671
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
protein At4g01020, chloroplastic
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr3 | 123803473 | 123811057 | - | Ag3G01671 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 6.96 | 194,565.30 Da | 47.25 | 91.15 | -0.20 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd17917 | DEXHc_RHA-like | 269 | 425 | 3.5624E-51 | - |
| CDD | cd18791 | SF2_C_RHA | 430 | 590 | 9.3517E-64 | - |
| Pfam | PF07717 | Oligonucleotide/oligosaccharide-binding (OB)-fold | 806 | 883 | 4.1E-10 | IPR011709 |
| Pfam | PF00271 | Helicase conserved C-terminal domain | 461 | 581 | 3.2E-13 | IPR001650 |
| Pfam | PF00270 | DEAD/DEAH box helicase | 260 | 411 | 1.5E-7 | IPR011545 |
| Pfam | PF01485 | IBR domain, a half RING-finger domain | 1592 | 1640 | 1.5E-6 | IPR002867 |
| Pfam | PF04408 | Helicase associated domain (HA2) | 643 | 737 | 1.2E-9 | IPR007502 |
| SUPERFAMILY | SSF57850 | RING/U-box | 1503 | 1565 | 1.06E-8 | - |
| SUPERFAMILY | SSF57850 | RING/U-box | 1661 | 1710 | 2.94E-9 | - |
| SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 245 | 761 | 3.16E-72 | IPR027417 |
| Gene3D | G3DSA:1.20.120.1750 | - | 1636 | 1715 | 3.4E-12 | - |
| Gene3D | G3DSA:3.40.50.300 | - | 429 | 599 | 2.2E-53 | IPR027417 |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 1502 | 1582 | 1.1E-9 | IPR013083 |
| Gene3D | G3DSA:1.20.120.1080 | - | 626 | 731 | 9.0E-13 | - |
| Gene3D | G3DSA:3.40.50.300 | - | 235 | 428 | 7.4E-63 | IPR027417 |
| SMART | SM00487 | ultradead3 | 250 | 435 | 5.9E-30 | IPR014001 |
| SMART | SM00490 | helicmild6 | 484 | 582 | 2.0E-15 | IPR001650 |
| SMART | SM00847 | ha2_5 | 642 | 738 | 5.2E-16 | IPR007502 |
| SMART | SM00647 | ibrneu5 | 1641 | 1705 | 0.094 | IPR002867 |
| SMART | SM00647 | ibrneu5 | 1571 | 1640 | 4.1E-5 | IPR002867 |
| ProSiteProfiles | PS51194 | Superfamilies 1 and 2 helicase C-terminal domain profile. | 456 | 622 | 15.348907 | IPR001650 |
| ProSiteProfiles | PS50089 | Zinc finger RING-type profile. | 1507 | 1550 | 8.668251 | IPR001841 |
| ProSiteProfiles | PS51192 | Superfamilies 1 and 2 helicase ATP-binding type-1 domain profile. | 262 | 426 | 20.870718 | IPR014001 |
| ProSiteProfiles | PS51873 | TRIAD supradomain profile. | 1503 | 1712 | 28.437553 | IPR044066 |
| ProSitePatterns | PS00690 | DEAH-box subfamily ATP-dependent helicases signature. | 368 | 377 | - | IPR002464 |
| ProSitePatterns | PS00028 | Zinc finger C2H2 type domain signature. | 1692 | 1713 | - | IPR013087 |
| ProSitePatterns | PS00518 | Zinc finger RING-type signature. | 1523 | 1532 | - | IPR017907 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 22 | - | - |
Gene Ontology
Molecular Function:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT5G10370.1 | helicase domain-containing protein / IBR domain-containing protein / zinc finger protein-related. | 0 |
| RefSeq | XP_017247272.1 | PREDICTED: ATP-dependent RNA helicase DEAH11, chloroplastic-like [Daucus carota subsp. sativus] | 0 |
| F4KGU4 | ATP-dependent RNA helicase DEAH12, chloroplastic OS=Arabidopsis thaliana OX=3702 GN=At5g10370 PE=3 SV=1 | 0 | |
| TrEMBL | A0A162ABL8 | RNA helicase OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_014198 PE=3 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 12.336844 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 10.233498 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 7.005763 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 9.798958 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 9.856391 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 8.021472 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 8.656321 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 6.449895 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 15.929033 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 15.534717 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 16.47995 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 18.60755 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 18.462179 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 13.764252 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 2.619807 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 2.537836 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 2.566797 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 4.581328 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 1.909742 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 4.438968 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 5.980323 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 4.250876 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 4.72346 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 4.744164 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 4.464763 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 5.675165 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 4.199762 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 5.367509 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 4.96524 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 2.074857 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 3.096555 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 2.340667 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 6.394952 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 4.886433 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 5.560065 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 5.213463 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 4.359989 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 3.860302 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 4.044671 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 2.482435 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 1.398274 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 7.596054 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 4.734664 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 16.068336 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 13.039728 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 6.957404 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 13.048083 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 4.639629 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 5.300923 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 4.839613 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
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 |