Basic Information
Locus ID:
Ag2G01027
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
PHD finger family protein
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr2 | 53371672 | 53387741 | - | Ag2G01027 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 8.51 | 179,818.75 Da | 50.19 | 75.02 | -0.47 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd15489 | PHD_SF | 1295 | 1342 | 5.56798E-7 | - |
| Pfam | PF02791 | DDT domain | 200 | 255 | 1.3E-13 | IPR018501 |
| Pfam | PF15612 | WSTF, HB1, Itc1p, MBD9 motif 1 | 316 | 349 | 1.8E-4 | IPR028942 |
| Pfam | PF00628 | PHD-finger | 428 | 469 | 1.0E-8 | IPR019787 |
| SUPERFAMILY | SSF57903 | FYVE/PHD zinc finger | 1554 | 1603 | 6.2E-5 | IPR011011 |
| SUPERFAMILY | SSF57903 | FYVE/PHD zinc finger | 418 | 470 | 1.22E-14 | IPR011011 |
| SUPERFAMILY | SSF57903 | FYVE/PHD zinc finger | 1291 | 1349 | 3.54E-9 | IPR011011 |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 1289 | 1349 | 2.7E-9 | IPR013083 |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 416 | 487 | 6.5E-14 | IPR013083 |
| SMART | SM00249 | PHD_3 | 1295 | 1343 | 0.69 | IPR001965 |
| SMART | SM00571 | testlast3 | 199 | 259 | 1.4E-10 | IPR018501 |
| SMART | SM00249 | PHD_3 | 1558 | 1602 | 0.0017 | IPR001965 |
| SMART | SM00249 | PHD_3 | 427 | 469 | 1.4E-11 | IPR001965 |
| SMART | SM00249 | PHD_3 | 1123 | 1172 | 2.5 | IPR001965 |
| ProSiteProfiles | PS50016 | Zinc finger PHD-type profile. | 425 | 471 | 10.1397 | IPR019787 |
| ProSiteProfiles | PS50827 | DDT domain profile. | 199 | 259 | 15.099307 | IPR018501 |
| ProSitePatterns | PS01359 | Zinc finger PHD-type signature. | 428 | 468 | - | IPR019786 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 20 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 879 | 902 | - | - |
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT5G22760.1 | PHD finger family protein. | 0 |
| RefSeq | XP_028097415.1 | DDT domain-containing protein PTM-like isoform X1 [Camellia sinensis] | 0 |
| F4JYC8 | DDT domain-containing protein PTM OS=Arabidopsis thaliana OX=3702 GN=PTM PE=1 SV=1 | 0 | |
| TrEMBL | A0A164Z890 | PHD-type domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_018746 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 11.798517 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 6.291338 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 3.811307 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 4.476991 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 4.639326 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 3.460918 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 3.251902 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 2.172524 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 0.76318 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 0.767363 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 1.204849 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 1.67236 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 2.304335 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 1.668439 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 0.789194 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 0.423388 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 0.782109 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 0.961112 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 1.222134 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 2.134154 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 2.056903 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 1.234195 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 1.613367 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 1.996661 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 1.5979 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 1.485892 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 1.061591 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 1.436269 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 1.475993 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 0.406091 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 1.042338 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 0.693543 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 3.214562 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 2.287115 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 2.48298 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 2.498543 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 0.495653 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 1.211349 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 0.675302 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 0.564173 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 0.571982 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 3.389991 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 3.499303 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 7.811388 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 5.970819 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 4.275661 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 5.406787 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 1.426547 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 1.569224 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 1.299362 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 4 | jg16345, jg8187, jg8191, jg8534 |
| Aizoaceae | Mesembryanthemum crystallinum | 2 | gene_11602, gene_21235 |
| Amaranthaceae | Atriplex hortensis | 2 | Ah005047, Ah011493 |
| Amaranthaceae | Beta vulgaris | 2 | BVRB_4g073390, BVRB_9g210880 |
| Amaranthaceae | Salicornia bigelovii | 4 | Sbi_jg11906, Sbi_jg17859, Sbi_jg46853, Sbi_jg62483 |
| Amaranthaceae | Salicornia europaea | 2 | Seu_jg1060, Seu_jg21148 |
| Amaranthaceae | Suaeda aralocaspica | 2 | GOSA_00007175, GOSA_00009474 |
| Amaranthaceae | Suaeda glauca | 4 | Sgl59177, Sgl80325, Sgl82788, Sgl82794 |
| Amaranthaceae | Chenopodium album | 7 | gene:ENSEOMG00000019528, gene:ENSEOMG00000027405 ... |
| Amaranthaceae | Chenopodium quinoa | 4 | CQ.Regalona.r1.4BG0002060, CQ.Regalona.r1.9AG0010610 ... |
| Anacardiaceae | Pistacia vera | 2 | pistato.v30051350, pistato.v30057270 |
| Apiaceae | Apium graveolens | 5 | Ag11G04354, Ag2G01027, Ag5G01215, Ag5G02730, Ag6G02295 |
| Arecaceae | Cocos nucifera | 2 | scaffold005364G000020, scaffold029272G000010 |
| Arecaceae | Phoenix dactylifera | 3 | gene-LOC103696328, gene-LOC103705599, gene-LOC103723835 |
| Asteraceae | Flaveria trinervia | 3 | Ftri11G03128, Ftri12G12319, Ftri13G15123 |
| Brassicaceae | Arabidopsis thaliana | 3 | AT5G12400.1, AT5G22760.1, AT5G35210.1 |
| Brassicaceae | Eutrema salsugineum | 2 | Thhalv10012427m.g.v1.0, Thhalv10012428m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 3 | Sp5g16400.v2.2, Sp6g22660.v2.2, Sp6g31240.v2.2 |
| Brassicaceae | Brassica nigra | 5 | BniB02g049720.2N, BniB05g025410.2N, BniB05g041460.2N ... |
| Casuarinaceae | Casuarina equisetifolia | 2 | Ceq05G1663, Ceq05G1715 |
| Casuarinaceae | Casuarina glauca | 2 | Cgl05G1656, Cgl05G1717 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno03g13560 |
| Hydrocharitaceae | Thalassia testudinum | 2 | gene.Thate02g16540, gene.Thate05g01030 |
| Nitrariaceae | Nitraria sibirica | 2 | evm.TU.LG09.171, evm.TU.LG09.774 |
| Plantaginaceae | Plantago ovata | 4 | Pov_00006627, Pov_00012500, Pov_00024373, Pov_00026488 |
| Plumbaginaceae | Limonium bicolor | 2 | Lb3G15682, Lb3G19930 |
| Poaceae | Echinochloa crus-galli | 14 | AH01.1528, AH01.1529, AH03.3973, AH04.196, AH04.274 ... |
| Poaceae | Eleusine coracana subsp. coracana | 3 | gene-QOZ80_5AG0381300, gene-QOZ80_7AG0580400 ... |
| Poaceae | Hordeum vulgare | 3 | HORVU.MOREX.r3.2HG0116410.1, HORVU.MOREX.r3.4HG0355590.1 ... |
| Poaceae | Lolium multiflorum | 3 | gene-QYE76_003146, gene-QYE76_039040, gene-QYE76_065275 |
| Poaceae | Oryza coarctata | 4 | Oco13G014960, Oco14G015810, Oco21G001060, Oco22G001890 |
| Poaceae | Oryza sativa | 2 | LOC_Os07g46690.1, LOC_Os11g05130.1 |
| Poaceae | Paspalum vaginatum | 5 | gene-BS78_02G093300, gene-BS78_02G379700 ... |
| Poaceae | Puccinellia tenuiflora | 6 | Pt_Chr0103659, Pt_Chr0103676, Pt_Chr0305094, Pt_Chr0305146 ... |
| Poaceae | Sporobolus alterniflorus | 11 | Chr04G022060, Chr04G022070, Chr04G022080, Chr06G023790 ... |
| Poaceae | Thinopyrum elongatum | 4 | Tel2E01G264700, Tel4E01G208000, Tel5E01G236500 ... |
| Poaceae | Triticum dicoccoides | 7 | gene_TRIDC2AG015620, gene_TRIDC2BG018780 ... |
| Poaceae | Triticum aestivum | 9 | TraesCS2A02G126900.1, TraesCS2B02G148800.1 ... |
| Poaceae | Zea mays | 4 | Zm00001eb092810_P002, Zm00001eb214600_P001 ... |
| Poaceae | Zoysia japonica | 3 | nbis-gene-167, nbis-gene-25663, nbis-gene-33183 |
| Poaceae | Zoysia macrostachya | 3 | Zma_g24727, Zma_g5726, Zma_g7016 |
| Portulacaceae | Portulaca oleracea | 4 | evm.TU.LG06.1060, evm.TU.LG11.463, evm.TU.LG18.1709 ... |
| Posidoniaceae | Posidonia oceanica | 2 | gene.Posoc02g33260, gene.Posoc05g23110 |
| Rhizophoraceae | Bruguiera sexangula | 2 | evm.TU.Scaffold_13_RagTag.1011 ... |
| Rhizophoraceae | Carallia pectinifolia | 2 | nbisL1-mrna-30004, nbisL1-mrna-30674 |
| Rhizophoraceae | Ceriops tagal | 2 | nbisL1-mrna-3519, nbisL1-mrna-4825 |
| Rhizophoraceae | Ceriops zippeliana | 2 | nbisL1-mrna-16375, nbisL1-mrna-22078 |
| Rhizophoraceae | Kandelia candel | 2 | evm.TU.utg000015l.256, evm.TU.utg000015l.605 |
| Rhizophoraceae | Kandelia obovata | 2 | Maker00015617, Maker00015887 |
| Rhizophoraceae | Rhizophora apiculata | 2 | nbisL1-mrna-4141, nbisL1-mrna-4508 |
| Rhizophoraceae | Rhizophora mangle | 2 | nbisL1-mrna-20784, nbisL1-mrna-22182 |
| Salicaceae | Populus euphratica | 5 | populus_peu01969, populus_peu08552, populus_peu35835 ... |
| Solanaceae | Lycium barbarum | 3 | gene-LOC132600516, gene-LOC132604445, gene-LOC132643627 |
| Solanaceae | Solanum chilense | 2 | SOLCI001772100, SOLCI002623400 |
| Solanaceae | Solanum pennellii | 3 | gene-LOC107004581, gene-LOC107004681, gene-LOC107023253 |
| Tamaricaceae | Reaumuria soongarica | 2 | gene_7401, gene_8603 |
| Tamaricaceae | Tamarix chinensis | 2 | TC03G1863, TC07G1486 |
| Zosteraceae | Zostera marina | 1 | Zosma04g20720.v3.1 |