Basic Information
Locus ID:
Ag7G00124
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
zinc finger CCCH domain-containing protein
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr7 | 3741793 | 3747667 | - | Ag7G00124 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 7.92 | 37,206.07 Da | 48.12 | 50.80 | -1.05 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd16539 | RING-HC_RNF113A_B | 263 | 303 | 4.24006E-25 | - |
| Pfam | PF13920 | Zinc finger, C3HC4 type (RING finger) | 264 | 305 | 1.3E-8 | - |
| Pfam | PF00642 | Zinc finger C-x8-C-x5-C-x3-H type (and similar) | 190 | 215 | 4.9E-10 | IPR000571 |
| SUPERFAMILY | SSF57850 | RING/U-box | 264 | 308 | 5.98E-13 | - |
| SUPERFAMILY | SSF90229 | CCCH zinc finger | 188 | 220 | 1.96E-9 | IPR036855 |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 263 | 322 | 1.2E-15 | IPR013083 |
| Gene3D | G3DSA:4.10.1000.10 | - | 187 | 221 | 1.6E-6 | - |
| SMART | SM00356 | c3hfinal6 | 189 | 216 | 1.1E-7 | IPR000571 |
| SMART | SM00184 | ring_2 | 265 | 302 | 1.8E-4 | IPR001841 |
| ProSiteProfiles | PS50103 | Zinc finger C3H1-type profile. | 189 | 217 | 14.877594 | IPR000571 |
| ProSiteProfiles | PS50089 | Zinc finger RING-type profile. | 265 | 303 | 10.409105 | IPR001841 |
| ProSitePatterns | PS00518 | Zinc finger RING-type signature. | 280 | 289 | - | IPR017907 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 77 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 50 | 77 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 20 | - | - |
Gene Ontology
Molecular Function:
KEGG Pathway
KO Term:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT1G01350.1 | Zinc finger (CCCH-type/C3HC4-type RING finger) family protein. | 0 |
| RefSeq | XP_017259151.1 | PREDICTED: zinc finger CCCH domain-containing protein 1-like [Daucus carota subsp. sativus] | 0 |
| Q8GX84 | Zinc finger CCCH domain-containing protein 1 OS=Arabidopsis thaliana OX=3702 GN=At1g01350 PE=2 SV=2 | 0 | |
| TrEMBL | A0A166JG62 | C3H1-type domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_004784 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 47.999134 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 26.436049 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 25.644745 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 23.646208 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 26.015247 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 30.051775 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 33.206211 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 28.91099 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 19.913153 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 20.101538 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 22.28352 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 26.78442 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 27.746433 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 23.573181 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 16.1614 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 19.178278 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 15.402895 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 13.761261 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 13.103685 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 17.021694 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 19.484383 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 22.517332 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 21.926815 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 17.339529 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 18.539238 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 17.497475 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 17.67561 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 12.762267 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 17.659849 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 16.264839 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 15.368599 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 18.031893 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 19.939714 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 24.590158 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 23.123579 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 18.260601 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 18.760027 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 18.025711 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 15.017107 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 9.20749 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 7.258041 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 45.8367 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 38.394081 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 44.891602 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 32.703945 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 37.066833 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 25.19953 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 15.657707 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 13.062901 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 16.947609 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 1 | jg29439 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_23556 |
| Amaranthaceae | Atriplex hortensis | 4 | Ah010097, Ah029096, Ah029526, Ah036934 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_5g103040 |
| Amaranthaceae | Salicornia bigelovii | 4 | Sbi_jg11981, Sbi_jg39543, Sbi_jg46911, Sbi_jg54768 |
| Amaranthaceae | Salicornia europaea | 2 | Seu_jg14791, Seu_jg21200 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00005602 |
| Amaranthaceae | Suaeda glauca | 4 | Sgl55659, Sgl60866, Sgl71266, Sgl74838 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000019996, gene:ENSEOMG00000038132 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.7BG0006640, CQ.Regalona.r1.9AG0018060 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30005660 |
| Apiaceae | Apium graveolens | 2 | Ag7G00124, Ag7G02470 |
| Arecaceae | Cocos nucifera | 1 | COCNU_02G003020 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103707227 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_03.365.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri15G05286 |
| Brassicaceae | Arabidopsis thaliana | 3 | AT1G01350.1, AT4G01023.1, AT5G06420.1 |
| Brassicaceae | Eutrema salsugineum | 2 | Thhalv10009432m.g.v1.0, Thhalv10029283m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 2 | Sp1g00940.v2.2, Sp6g01130.v2.2 |
| Brassicaceae | Brassica nigra | 3 | BniB02g000490.2N, BniB02g022740.2N, BniB03g037150.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq02G1248 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl02G1289 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno06g02890 |
| Dunaliellaceae | Dunaliella salina | 2 | Dusal.0341s00001.v1.0, Dusal.0341s00002.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate03g21710 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG04.720 |
| Plantaginaceae | Plantago ovata | 3 | Pov_00011633, Pov_00022441, Pov_00025824 |
| Plumbaginaceae | Limonium bicolor | 1 | Lb6G31400 |
| Poaceae | Echinochloa crus-galli | 3 | AH02.2109, BH02.2176, CH02.2334 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_2AG0108130, gene-QOZ80_2BG0161770 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.4HG0391280.1 |
| Poaceae | Lolium multiflorum | 3 | gene-QYE76_022336, gene-QYE76_052300, gene-QYE76_065406 |
| Poaceae | Oryza coarctata | 2 | Oco03G008370, Oco04G008710 |
| Poaceae | Oryza sativa | 1 | LOC_Os02g19804.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_04G108800 |
| Poaceae | Sporobolus alterniflorus | 2 | Chr0G013750, Chr0G033170 |
| Poaceae | Thinopyrum elongatum | 2 | Tel3E01G686600, Tel4E01G385800 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC4AG011310, gene_TRIDC6BG048250 |
| Poaceae | Triticum aestivum | 4 | TraesCS4A02G082400.1, TraesCS4B02G221600.1 ... |
| Poaceae | Zea mays | 1 | Zm00001eb204190_P001 |
| Poaceae | Zoysia japonica | 2 | nbis-gene-34184, nbis-gene-50910 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g12533 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG19.1270, evm.TU.LG24.1270 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc03g23210 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_10_RagTag.1173 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-6810 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-2667 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-22054 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000015l.211 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00015850 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-16327 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-21392 |
| Salicaceae | Populus euphratica | 1 | populus_peu27573 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132621144 |
| Solanaceae | Solanum chilense | 1 | SOLCI003805700 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107011147 |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_15843 |
| Tamaricaceae | Tamarix chinensis | 1 | TC03G2260 |
| Zosteraceae | Zostera marina | 1 | Zosma04g04560.v3.1 |