Basic Information
Locus ID:
Ag1G01712
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
Zinc finger, C3HC4 type (RING finger)
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr1 | 194814265 | 194817283 | + | Ag1G01712 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 8.88 | 57,491.06 Da | 48.50 | 87.85 | -0.26 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd16448 | RING-H2 | 68 | 116 | 2.96708E-8 | - |
| Pfam | PF00092 | von Willebrand factor type A domain | 259 | 363 | 1.8E-5 | IPR002035 |
| Pfam | PF13639 | Ring finger domain | 67 | 116 | 7.0E-9 | IPR001841 |
| SUPERFAMILY | SSF53300 | vWA-like | 255 | 365 | 1.8E-11 | IPR036465 |
| SUPERFAMILY | SSF57850 | RING/U-box | 67 | 122 | 1.88E-14 | - |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 64 | 232 | 4.7E-11 | IPR013083 |
| Gene3D | G3DSA:3.40.50.410 | von Willebrand factor, type A domain | 260 | 386 | 3.6E-8 | IPR036465 |
| SMART | SM00184 | ring_2 | 68 | 115 | 2.6E-7 | IPR001841 |
| ProSiteProfiles | PS50089 | Zinc finger RING-type profile. | 68 | 116 | 11.825393 | IPR001841 |
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT5G60710.1 | Zinc finger (C3HC4-type RING finger) family protein. | 0 |
| RefSeq | XP_017224095.1 | PREDICTED: uncharacterized protein LOC108200451 [Daucus carota subsp. sativus] | 0 |
| F4JSV3 | Probable E3 ubiquitin-protein ligase EDA40 OS=Arabidopsis thaliana OX=3702 GN=EDA40 PE=2 SV=1 | 0 | |
| TrEMBL | A0A175YHT3 | RING-type domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_030823 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 5.364294 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 2.257509 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 0.616692 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 1.394492 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 1.130884 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 0.981154 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 1.573592 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 1.607759 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 18.602907 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 16.382696 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 19.384283 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 12.453589 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 11.03301 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 9.93181 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 3.154341 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 4.561081 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 8.735941 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 10.053049 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 9.146801 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 9.83439 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 6.310483 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 31.990156 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 48.775463 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 38.980888 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 35.447464 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 14.351259 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 11.626524 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 8.749709 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 18.351158 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 0.395394 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 0.802741 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 1.219929 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 1.347283 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 9.75339 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 1.217266 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 0.625967 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 0.23134 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 0.260955 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 7.068999 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 1.73407 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 0.523866 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 0.534462 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 0.330588 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 1.727475 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 2.895866 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 0.202538 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 5.888771 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 22.350815 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 24.25284 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 21.136251 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 3 | jg20529, jg21748, jg24727 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_6202 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah030082 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_7g163170 |
| Amaranthaceae | Salicornia bigelovii | 1 | Sbi_jg57043 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg24638 |
| Amaranthaceae | Chenopodium album | 2 | gene:ENSEOMG00000005387, gene:ENSEOMG00000039285 |
| Amaranthaceae | Chenopodium quinoa | 1 | CQ.Regalona.r1.7AG0017010 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30066370 |
| Apiaceae | Apium graveolens | 1 | Ag1G01712 |
| Arecaceae | Cocos nucifera | 1 | scaffold016239G000160 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103710661 |
| Asparagaceae | Asparagus officinalis | 3 | AsparagusV1_05.758.V1.1, AsparagusV1_05.759.V1.1 ... |
| Asteraceae | Flaveria trinervia | 1 | FtriNA07398 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10000890m.g.v1.0 |
| Brassicaceae | Brassica nigra | 1 | BniB02g064380.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq02G1438 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl02G1482 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno03g09200 |
| Hydrocharitaceae | Thalassia testudinum | 2 | gene.Thate05g11090, gene.Thate07g08550 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 1 | nbisL1-mrna-3896 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG12.1307 |
| Plantaginaceae | Plantago ovata | 2 | Pov_00006130, Pov_00011640 |
| Plumbaginaceae | Limonium bicolor | 1 | Lb5G27610 |
| Poaceae | Echinochloa crus-galli | 3 | AH03.1475, BH03.1628, CH03.1781 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_6AG0531340, gene-QOZ80_6BG0485140 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.5HG0471860.1 |
| Poaceae | Lolium multiflorum | 3 | gene-QYE76_004429, gene-QYE76_044938, gene-QYE76_044939 |
| Poaceae | Oryza coarctata | 2 | Oco17G002090, Oco18G002040 |
| Poaceae | Oryza sativa | 1 | LOC_Os09g12720.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_02G142600 |
| Poaceae | Puccinellia tenuiflora | 1 | Pt_Chr0702692 |
| Poaceae | Sporobolus alterniflorus | 3 | Chr10G012480, Chr11G009730, Chr14G011990 |
| Poaceae | Thinopyrum elongatum | 1 | Tel5E01G303000 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC5AG029070, gene_TRIDC5BG030590 |
| Poaceae | Triticum aestivum | 3 | TraesCS5A02G178300.1, TraesCS5B02G176000.2 ... |
| Poaceae | Zea mays | 1 | Zm00001eb309310_P001 |
| Poaceae | Zoysia japonica | 3 | nbis-gene-35486, nbis-gene-47932, nbis-gene-54894 |
| Poaceae | Zoysia macrostachya | 2 | Zma_g30139, Zma_g32342 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG01.213, evm.TU.LG04.539 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc02g22430 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_7_RagTag.1410 |
| Rhizophoraceae | Carallia pectinifolia | 2 | nbisL1-mrna-20082, nbisL1-mrna-20209 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-13548 |
| Rhizophoraceae | Ceriops zippeliana | 2 | nbisL1-mrna-13358, nbisL1-mrna-17968 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000002l.241 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00012104 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-9061 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-12096 |
| Salicaceae | Populus euphratica | 2 | populus_peu10500, populus_peu26569 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132616117 |
| Solanaceae | Solanum chilense | 1 | SOLCI004079400 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107015687 |
| Tamaricaceae | Reaumuria soongarica | 1 | STRG.7138_chr04_- |
| Tamaricaceae | Tamarix chinensis | 1 | TC06G1221 |
| Zosteraceae | Zostera marina | 1 | Zosma04g22980.v3.1 |