Basic Information
Locus ID:
Ag3G02342
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
RING FYVE PHD zinc finger superfamily protein
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr3 | 264650688 | 264663535 | + | Ag3G02342 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 8.44 | 51,664.51 Da | 45.02 | 72.54 | -0.47 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF00628 | PHD-finger | 233 | 280 | 2.2E-9 | IPR019787 |
| Pfam | PF01448 | ELM2 domain | 319 | 420 | 1.5E-4 | IPR000949 |
| SUPERFAMILY | SSF57903 | FYVE/PHD zinc finger | 224 | 286 | 3.32E-14 | IPR011011 |
| Gene3D | G3DSA:3.30.40.100 | - | 369 | 438 | 6.1E-10 | - |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 218 | 296 | 1.7E-15 | IPR013083 |
| SMART | SM00249 | PHD_3 | 233 | 279 | 6.1E-7 | IPR001965 |
| ProSiteProfiles | PS50016 | Zinc finger PHD-type profile. | 231 | 281 | 9.445499 | IPR019787 |
| ProSiteProfiles | PS51050 | Zinc finger CW-type profile. | 365 | 429 | 11.164706 | IPR011124 |
| ProSitePatterns | PS01359 | Zinc finger PHD-type signature. | 234 | 278 | - | IPR019786 |
Gene Ontology
Molecular Function:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT2G19260.1 | RING/FYVE/PHD zinc finger superfamily protein. | 0 |
| RefSeq | XP_017244047.1 | PREDICTED: uncharacterized protein LOC108215926 [Daucus carota subsp. sativus] | 0 |
| A2BIL7 | Tyrosine-protein kinase BAZ1B OS=Danio rerio OX=7955 GN=baz1b PE=1 SV=2 | 0 | |
| TrEMBL | A0A162A9B9 | PHD-type domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_014666 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 17.32556 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 10.236138 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 7.866652 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 7.346897 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 9.572982 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 7.832014 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 9.884076 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 8.776272 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 17.457289 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 16.866232 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 17.606792 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 16.811577 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 13.057878 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 12.349495 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 9.50216 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 9.178803 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 12.474934 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 8.528456 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 8.961349 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 7.960908 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 8.537657 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 12.405997 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 14.655066 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 11.709784 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 10.651095 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 11.204274 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 9.453834 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 10.233178 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 10.660226 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 7.707138 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 6.785253 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 5.774926 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 8.50798 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 11.055423 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 6.373128 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 6.029925 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 5.185658 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 5.516865 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 9.981737 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 6.384129 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 5.605433 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 8.277546 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 8.436925 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 10.145361 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 10.17616 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 7.46036 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 9.046074 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 24.042839 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 23.330698 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 27.620907 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 2 | jg31836, jg32782 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_11106 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah015499 |
| Amaranthaceae | Salicornia bigelovii | 1 | Sbi_jg25239 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg19510 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00011265 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl43209, Sgl48037 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000012276, gene:ENSEOMG00000033567 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.8AG0013830, CQ.Regalona.r1.8BG0015060 |
| Anacardiaceae | Pistacia vera | 2 | pistato.v30252170, pistato.v30262770 |
| Apiaceae | Apium graveolens | 3 | Ag10G02723, Ag2G02656, Ag3G02342 |
| Arecaceae | Cocos nucifera | 2 | COCNU_02G019340, COCNU_11G009790 |
| Arecaceae | Phoenix dactylifera | 2 | gene-LOC103707060, gene-LOC103713145 |
| Asparagaceae | Asparagus officinalis | 2 | AsparagusV1_05.2384.V1.1, AsparagusV1_05.3532.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri7G27114 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT2G19260.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10022602m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp3g32620.v2.2 |
| Brassicaceae | Brassica nigra | 2 | BniB03g068450.2N, BniB04g025100.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq04G2007 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl04G2194 |
| Cymodoceaceae | Cymodocea nodosa | 2 | gene.Cymno01g08520, gene.Cymno06g06110 |
| Dunaliellaceae | Dunaliella salina | 1 | Dusal.3946s00001.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate04g02250 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 1 | nbisL1-mrna-3719 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG07.528 |
| Plantaginaceae | Plantago ovata | 2 | Pov_00003543, Pov_00036912 |
| Plumbaginaceae | Limonium bicolor | 3 | Lb4G22640, Lb4G23149, Lb4G24157 |
| Poaceae | Echinochloa crus-galli | 6 | AH04.2172, AH06.2555, BH04.2324, BH06.2357, CH04.2589 ... |
| Poaceae | Hordeum vulgare | 3 | HORVU.MOREX.r3.4HG0360400.3, HORVU.MOREX.r3.4HG0360500.1 ... |
| Poaceae | Lolium multiflorum | 3 | gene-QYE76_036420, gene-QYE76_066159, gene-QYE76_066367 |
| Poaceae | Oryza coarctata | 2 | Oco07G005790, Oco08G005800 |
| Poaceae | Oryza sativa | 1 | LOC_Os04g34720.2 |
| Poaceae | Paspalum vaginatum | 2 | gene-BS78_05G134400, gene-BS78_10G216600 |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0401390, Pt_Chr0704724 |
| Poaceae | Sporobolus alterniflorus | 8 | Chr01G019870, Chr02G031420, Chr05G009200, Chr12G018170 ... |
| Poaceae | Thinopyrum elongatum | 2 | Tel4E01G278000, Tel7E01G832900 |
| Poaceae | Triticum dicoccoides | 4 | gene_TRIDC4AG026600, gene_TRIDC4BG024350 ... |
| Poaceae | Triticum aestivum | 6 | TraesCS4A02G166600.1, TraesCS4B02G145500.6 ... |
| Poaceae | Zea mays | 3 | Zm00001eb002000_P001, Zm00001eb274650_P002 ... |
| Poaceae | Zoysia japonica | 3 | nbis-gene-23994, nbis-gene-48709, nbis-gene-9832 |
| Poaceae | Zoysia macrostachya | 2 | Zma_g28307, Zma_g30946 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG08.1557, evm.TU.LG22.451 |
| Posidoniaceae | Posidonia oceanica | 2 | gene.Posoc01g20530, gene.Posoc03g15440 |
| Rhizophoraceae | Bruguiera sexangula | 2 | evm.TU.Scaffold_4_RagTag.1492, evm.TU.Scaffold_4_RagTag.2040 |
| Rhizophoraceae | Carallia pectinifolia | 3 | nbisL1-mrna-13499, nbisL1-mrna-25466, nbisL1-mrna-25467 |
| Rhizophoraceae | Ceriops tagal | 3 | nbisL1-mrna-1987, nbisL1-mrna-7827, nbisL1-mrna-7828 |
| Rhizophoraceae | Ceriops zippeliana | 3 | nbisL1-mrna-4325, nbisL1-mrna-4326, nbisL1-mrna-4806 |
| Rhizophoraceae | Kandelia candel | 2 | evm.TU.utg000008l.1187, evm.TU.utg000008l.810 |
| Rhizophoraceae | Kandelia obovata | 2 | Maker00000735, Maker00001274 |
| Rhizophoraceae | Rhizophora apiculata | 2 | nbisL1-mrna-14258, nbisL1-mrna-2244 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-9673 |
| Salicaceae | Populus euphratica | 4 | populus_peu05832, populus_peu05833, populus_peu11200 ... |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132621684 |
| Solanaceae | Solanum chilense | 1 | SOLCI000502500 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107008793 |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_8212 |
| Tamaricaceae | Tamarix chinensis | 1 | TC10G0723 |
| Zosteraceae | Zostera marina | 4 | Zosma02g15600.v3.1, Zosma03g07030.v3.1, Zosma03g19580.v3.1 ... |