Basic Information
Locus ID:
Ag2G01345
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
PHD-finger
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr2 | 96144602 | 96160655 | + | Ag2G01345 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 7.24 | 164,349.42 Da | 45.62 | 76.98 | -0.48 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd15489 | PHD_SF | 1084 | 1128 | 1.61053E-5 | - |
| CDD | cd15571 | ePHD | 1152 | 1257 | 1.89824E-23 | - |
| Pfam | PF13832 | PHD-zinc-finger like domain | 369 | 487 | 7.9E-22 | - |
| Pfam | PF13831 | PHD-finger | 1096 | 1128 | 1.3E-7 | - |
| Pfam | PF13831 | PHD-finger | 325 | 357 | 6.2E-11 | - |
| Pfam | PF13832 | PHD-zinc-finger like domain | 1151 | 1257 | 2.9E-21 | - |
| SUPERFAMILY | SSF57903 | FYVE/PHD zinc finger | 305 | 374 | 3.32E-10 | IPR011011 |
| SUPERFAMILY | SSF57903 | FYVE/PHD zinc finger | 1083 | 1129 | 9.75E-9 | IPR011011 |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 301 | 367 | 6.5E-11 | IPR013083 |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 1147 | 1259 | 1.7E-14 | IPR013083 |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 368 | 490 | 9.4E-24 | IPR013083 |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 1060 | 1137 | 1.1E-8 | IPR013083 |
| SMART | SM00249 | PHD_3 | 311 | 358 | 4.1E-7 | IPR001965 |
| SMART | SM00249 | PHD_3 | 1084 | 1129 | 6.9E-6 | IPR001965 |
| SMART | SM00249 | PHD_3 | 1204 | 1258 | 0.0016 | IPR001965 |
| SMART | SM00249 | PHD_3 | 432 | 488 | 7.7E-4 | IPR001965 |
| ProSiteProfiles | PS51805 | Extended PHD (ePHD) domain profile. | 367 | 488 | 24.026361 | IPR034732 |
| ProSiteProfiles | PS50016 | Zinc finger PHD-type profile. | 1082 | 1131 | 8.680099 | IPR019787 |
| ProSiteProfiles | PS51805 | Extended PHD (ePHD) domain profile. | 1149 | 1258 | 12.179565 | IPR034732 |
| ProSiteProfiles | PS50016 | Zinc finger PHD-type profile. | 309 | 360 | 9.4099 | IPR019787 |
| ProSitePatterns | PS01359 | Zinc finger PHD-type signature. | 1085 | 1128 | - | IPR019786 |
| ProSitePatterns | PS01359 | Zinc finger PHD-type signature. | 312 | 357 | - | IPR019786 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1378 | 1420 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1385 | 1419 | - | - |
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT1G77800.4 | - | 0 |
| RefSeq | XP_017246915.1 | PREDICTED: uncharacterized protein LOC108218473 [Daucus carota subsp. sativus] | 0 |
| TrEMBL | A0A165XNV5 | PHD-type domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_014282 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 20.523727 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 15.866852 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 14.378874 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 15.777085 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 17.320778 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 20.268757 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 17.124205 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 20.612442 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 26.429438 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 23.301918 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 25.680418 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 26.620274 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 28.652273 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 22.431587 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 8.171521 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 9.27343 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 8.382118 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 14.909595 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 10.836929 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 12.714684 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 14.538932 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 12.149371 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 12.643517 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 11.793438 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 10.832547 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 15.713202 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 12.386744 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 12.401696 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 13.763034 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 6.639947 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 10.357974 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 8.613315 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 8.926643 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 10.261262 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 7.085547 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 6.689388 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 4.13114 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 4.559198 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 14.891118 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 9.677819 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 9.313659 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 21.565783 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 26.531975 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 28.33704 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 26.946501 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 18.517054 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 27.526871 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 17.038733 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 19.629072 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 16.602282 | 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 |