Basic Information
Locus ID:
Ag4G00614
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
Ring finger protein
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr4 | 34192668 | 34199232 | - | Ag4G00614 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 7.35 | 79,635.45 Da | 55.81 | 64.72 | -0.61 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd16536 | RING-HC_RNF10 | 215 | 261 | 1.43007E-22 | - |
| Pfam | PF00097 | Zinc finger, C3HC4 type (RING finger) | 215 | 260 | 1.9E-6 | IPR018957 |
| SUPERFAMILY | SSF57850 | RING/U-box | 214 | 267 | 4.57E-12 | - |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 206 | 313 | 6.7E-12 | IPR013083 |
| SMART | SM00184 | ring_2 | 215 | 260 | 6.1E-7 | IPR001841 |
| ProSiteProfiles | PS50089 | Zinc finger RING-type profile. | 215 | 260 | 11.95817 | IPR001841 |
| ProSitePatterns | PS00518 | Zinc finger RING-type signature. | 230 | 239 | - | IPR017907 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 109 | 128 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 50 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 128 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 658 | 716 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 664 | 684 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 51 | 68 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 144 | 166 | - | - |
Gene Ontology
Molecular Function:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT3G26730.1 | RING/U-box superfamily protein. | 0 |
| RefSeq | XP_017247812.1 | PREDICTED: RING finger protein 10 isoform X2 [Daucus carota subsp. sativus] | 0 |
| Q08E13 | E3 ubiquitin-protein ligase RNF10 OS=Bos taurus OX=9913 GN=RNF10 PE=2 SV=1 | 0 | |
| TrEMBL | A0A165XHF2 | RING-type domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_014471 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 46.507534 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 32.093319 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 29.763834 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 32.428375 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 30.308374 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 33.9104 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 27.679153 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 26.941475 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 48.595867 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 51.345169 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 54.378738 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 54.460331 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 44.706566 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 43.410507 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 22.634016 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 26.329964 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 21.878384 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 26.186666 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 24.127457 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 27.861341 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 27.7616 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 26.798283 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 30.639683 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 28.579922 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 26.531984 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 34.275932 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 27.842455 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 24.173151 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 32.902882 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 18.083271 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 22.571695 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 18.136675 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 32.623035 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 31.016445 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 40.169209 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 21.463579 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 14.155255 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 17.06044 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 26.965187 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 22.887991 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 17.352856 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 24.675068 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 22.584509 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 33.69701 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 31.791162 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 22.602356 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 28.698503 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 45.920197 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 42.496731 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 40.960327 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 1 | jg19909 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_24975 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah012652 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_6g151930 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg42435, Sbi_jg45041 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg27113 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00002265 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl31839, Sgl37117 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000001974, gene:ENSEOMG00000003663 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.6AG0008720, CQ.Regalona.r1.6BG0009470 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30021320 |
| Apiaceae | Apium graveolens | 1 | Ag4G00614 |
| Arecaceae | Cocos nucifera | 1 | COCNU_15G005670 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103708052 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_09.1495.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | FtriNA10901 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT3G26730.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10003691m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp2g15850.v2.2 |
| Brassicaceae | Brassica nigra | 1 | BniB04g007800.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq08G0041 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl08G0042 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno07g03050 |
| Dunaliellaceae | Dunaliella salina | 2 | Dusal.1048s00002.v1.0, Dusal.2216s00001.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate05g10400 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00024325 |
| Plumbaginaceae | Limonium bicolor | 3 | Lb4G22340, Lb4G22345, Lb4G22558 |
| Poaceae | Echinochloa crus-galli | 3 | AH07.1944, BH07.1919, CH07.1785 |
| Poaceae | Eleusine coracana subsp. coracana | 1 | gene-QOZ80_2BG0187570 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.5HG0461110.1 |
| Poaceae | Lolium multiflorum | 2 | gene-QYE76_022591, gene-QYE76_022592 |
| Poaceae | Oryza coarctata | 2 | Oco03G011020, Oco04G011460 |
| Poaceae | Oryza sativa | 1 | LOC_Os02g31150.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_04G145400 |
| Poaceae | Puccinellia tenuiflora | 1 | Pt_Chr0201727 |
| Poaceae | Sporobolus alterniflorus | 3 | Chr06G011100, Chr13G011730, Chr15G012670 |
| Poaceae | Thinopyrum elongatum | 1 | Tel5E01G238100 |
| Poaceae | Triticum dicoccoides | 3 | gene_TRIDC5AG022080, gene_TRIDC5BG023760-28909 ... |
| Poaceae | Triticum aestivum | 3 | TraesCS5A02G135100.1, TraesCS5B02G133900.2 ... |
| Poaceae | Zea mays | 1 | Zm00001eb242020_P001 |
| Poaceae | Zoysia japonica | 1 | nbis-gene-20896 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g13577 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG03.2237, evm.TU.LG17.1289 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc05g14250 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_11_RagTag.236 |
| Rhizophoraceae | Carallia pectinifolia | 2 | nbisL1-mrna-14185, nbisL1-mrna-27478 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-3054 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-14328 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000005l.220 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00009994 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-18976 |
| Salicaceae | Populus euphratica | 1 | populus_peu27095 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132623999 |
| Solanaceae | Solanum chilense | 1 | SOLCI000001100 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107010829 |
| Tamaricaceae | Reaumuria soongarica | 1 | STRG.13974_chr05_- |
| Tamaricaceae | Tamarix chinensis | 1 | TC01G3393 |
| Zosteraceae | Zostera marina | 1 | Zosma05g09250.v3.1 |