Basic Information
Locus ID:
Ag4G01265
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
PHD-finger
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr4 | 148532750 | 148545877 | - | Ag4G01265 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 6.79 | 158,559.31 Da | 49.02 | 73.65 | -0.53 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd15571 | ePHD | 1093 | 1198 | 1.52975E-24 | - |
| Pfam | PF13832 | PHD-zinc-finger like domain | 1092 | 1198 | 1.3E-23 | - |
| Pfam | PF13831 | PHD-finger | 261 | 293 | 1.5E-10 | - |
| Pfam | PF13831 | PHD-finger | 1035 | 1068 | 1.6E-7 | - |
| Pfam | PF13832 | PHD-zinc-finger like domain | 305 | 426 | 1.3E-20 | - |
| SUPERFAMILY | SSF57903 | FYVE/PHD zinc finger | 240 | 300 | 1.93E-9 | IPR011011 |
| SUPERFAMILY | SSF57903 | FYVE/PHD zinc finger | 1017 | 1069 | 5.98E-10 | IPR011011 |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 1090 | 1201 | 1.7E-15 | IPR013083 |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 999 | 1076 | 6.9E-10 | IPR013083 |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 236 | 299 | 5.4E-9 | IPR013083 |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 300 | 429 | 4.4E-21 | IPR013083 |
| SMART | SM00249 | PHD_3 | 1023 | 1068 | 5.7E-6 | IPR001965 |
| SMART | SM00249 | PHD_3 | 247 | 294 | 9.5E-6 | IPR001965 |
| SMART | SM00249 | PHD_3 | 1145 | 1199 | 0.0015 | IPR001965 |
| SMART | SM00249 | PHD_3 | 371 | 427 | 0.0014 | IPR001965 |
| ProSiteProfiles | PS50016 | Zinc finger PHD-type profile. | 1021 | 1070 | 8.9382 | IPR019787 |
| ProSiteProfiles | PS50016 | Zinc finger PHD-type profile. | 245 | 296 | 9.0539 | IPR019787 |
| ProSiteProfiles | PS51805 | Extended PHD (ePHD) domain profile. | 1090 | 1199 | 14.241232 | IPR034732 |
| ProSiteProfiles | PS51805 | Extended PHD (ePHD) domain profile. | 303 | 427 | 23.440874 | IPR034732 |
| ProSitePatterns | PS01359 | Zinc finger PHD-type signature. | 248 | 293 | - | IPR019786 |
| ProSitePatterns | PS01359 | Zinc finger PHD-type signature. | 1024 | 1067 | - | IPR019786 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 77 | 99 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 502 | 523 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 502 | 535 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1321 | 1365 | - | - |
| Coils | Coil | Coil | 915 | 935 | - | - |
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT1G77800.4 | - | 0 |
| RefSeq | XP_017227825.1 | PREDICTED: uncharacterized protein LOC108192260 [Daucus carota subsp. sativus] | 0 |
| Q9C5X4 | Histone H3-lysine(4) N-trimethyltransferase ATX1 OS=Arabidopsis thaliana OX=3702 GN=ATX1 PE=1 SV=2 | 0 | |
| TrEMBL | A0A175YEA4 | PHD-type domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_031233 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 13.760354 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 11.043089 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 14.804823 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 14.747135 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 14.537148 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 19.191088 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 16.616356 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 20.581768 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 29.941666 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 29.794466 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 30.975283 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 35.486347 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 30.204563 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 24.253746 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 6.831827 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 6.819671 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 7.091301 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 11.966323 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 8.581432 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 11.189186 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 13.229441 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 11.054008 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 11.466596 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 11.582773 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 10.879809 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 14.967998 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 11.96708 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 13.090817 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 12.962994 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 4.43102 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 5.692695 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 5.245749 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 11.14502 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 9.565171 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 9.049232 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 6.360686 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 3.785207 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 5.337928 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 16.678576 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 10.193936 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 6.873579 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 19.118237 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 15.192027 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 23.52243 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 20.461693 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 16.23844 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 22.100193 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 13.444217 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 15.186023 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 14.669129 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 2 | jg12148, jg23202 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_1524 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah022606 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_1g000440 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg4104, Sbi_jg49700 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg5556 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00022010 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl10500, Sgl15745 |
| Amaranthaceae | Chenopodium album | 5 | gene:ENSEOMG00000015975, gene:ENSEOMG00000032898 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.1AG0000490, CQ.Regalona.r1.2BG0028520 |
| Anacardiaceae | Pistacia vera | 2 | pistato.v30040290, pistato.v30041080 |
| Apiaceae | Apium graveolens | 2 | Ag2G01345, Ag4G01265 |
| Arecaceae | Cocos nucifera | 3 | COCNU_13G007840, scaffold000407G000010 ... |
| Arecaceae | Phoenix dactylifera | 2 | gene-LOC103696526, gene-LOC103696693 |
| Asparagaceae | Asparagus officinalis | 3 | AsparagusV1_03.1466.V1.1, AsparagusV1_07.3713.V1.1 ... |
| Asteraceae | Flaveria trinervia | 1 | FtriNA11068 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT1G77800.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10018012m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp5g32980.v2.2 |
| Brassicaceae | Brassica nigra | 2 | BniB03g057100.2N, BniB05g073950.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq09G1898 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl09G2071 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno04g09060 |
| Hydrocharitaceae | Thalassia testudinum | 2 | gene.Thate05g23870, gene.Thate06g16200 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 1 | nbisL1-mrna-8370 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG06.977 |
| Plantaginaceae | Plantago ovata | 2 | Pov_00021758, Pov_00021759 |
| Plumbaginaceae | Limonium bicolor | 2 | Lb5G27529, Lb5G27547 |
| Poaceae | Echinochloa crus-galli | 6 | AH06.746, AH07.3619, BH06.785, BH07.3429, CH06.817 ... |
| Poaceae | Eleusine coracana subsp. coracana | 4 | gene-QOZ80_2AG0147110, gene-QOZ80_2BG0202710 ... |
| Poaceae | Hordeum vulgare | 2 | HORVU.MOREX.r3.6HG0619100.1, HORVU.MOREX.r3.7HG0663440.1 |
| Poaceae | Lolium multiflorum | 2 | gene-QYE76_025672, gene-QYE76_027355 |
| Poaceae | Oryza coarctata | 4 | Oco03G022800, Oco04G023440, Oco11G004900, Oco12G004950 |
| Poaceae | Oryza sativa | 2 | LOC_Os02g52960.1, LOC_Os06g10690.1 |
| Poaceae | Paspalum vaginatum | 2 | gene-BS78_04G289000, gene-BS78_10G082300 |
| Poaceae | Puccinellia tenuiflora | 3 | Pt_Chr0203089, Pt_Chr0404987, Pt_Chr0405024 |
| Poaceae | Sporobolus alterniflorus | 7 | Chr06G001250, Chr09G018920, Chr11G020500, Chr13G003120 ... |
| Poaceae | Thinopyrum elongatum | 3 | Tel6E01G580500, Tel7E01G321500, Tel7E01G882000 |
| Poaceae | Triticum dicoccoides | 4 | gene_TRIDC6AG049340, gene_TRIDC6BG057780 ... |
| Poaceae | Triticum aestivum | 6 | TraesCS6A02G329200.1, TraesCS6B02G360000.8 ... |
| Poaceae | Zea mays | 4 | Zm00001eb193530_P001, Zm00001eb256170_P002 ... |
| Poaceae | Zoysia japonica | 3 | nbis-gene-35020, nbis-gene-40076, nbis-gene-4871 |
| Poaceae | Zoysia macrostachya | 3 | Zma_g17231, Zma_g29315, Zma_g31555 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG04.1962, evm.TU.LG06.371 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc01g21720 |
| Rhizophoraceae | Bruguiera sexangula | 2 | evm.TU.Scaffold_7_RagTag.1049, evm.TU.Scaffold_8_RagTag.685 |
| Rhizophoraceae | Carallia pectinifolia | 2 | nbisL1-mrna-18792, nbisL1-mrna-9551 |
| Rhizophoraceae | Ceriops tagal | 2 | nbisL1-mrna-18539, nbisL1-mrna-4769 |
| Rhizophoraceae | Ceriops zippeliana | 2 | nbisL1-mrna-18234, nbisL1-mrna-6872 |
| Rhizophoraceae | Kandelia candel | 2 | evm.TU.utg000002l.796, evm.TU.utg000018l.555 |
| Rhizophoraceae | Kandelia obovata | 2 | Maker00003167, Maker00010639 |
| Rhizophoraceae | Rhizophora apiculata | 2 | nbisL1-mrna-2956, nbisL1-mrna-8177 |
| Rhizophoraceae | Rhizophora mangle | 2 | nbisL1-mrna-20362, nbisL1-mrna-9892 |
| Salicaceae | Populus euphratica | 2 | populus_peu14679, populus_peu32351 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132627076 |
| Solanaceae | Solanum chilense | 1 | SOLCI006064400 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107004550 |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_15159 |
| Tamaricaceae | Tamarix chinensis | 1 | TC09G1762 |
| Zosteraceae | Zostera marina | 1 | Zosma03g20110.v3.1 |