Basic Information
Locus ID:
Ag4G00380
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
Carbohydrate-binding protein of the ER
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr4 | 11238127 | 11248205 | + | Ag4G00380 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 5.53 | 55,020.06 Da | 52.44 | 88.16 | -0.39 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF13414 | TPR repeat | 43 | 80 | 6.9E-7 | - |
| Pfam | PF02190 | ATP-dependent protease La (LON) substrate-binding domain | 272 | 469 | 1.1E-23 | IPR003111 |
| Pfam | PF13923 | Zinc finger, C3HC4 type (RING finger) | 188 | 225 | 6.4E-11 | - |
| SUPERFAMILY | SSF88697 | PUA domain-like | 272 | 468 | 5.22E-38 | IPR015947 |
| SUPERFAMILY | SSF57850 | RING/U-box | 183 | 250 | 1.95E-16 | - |
| SUPERFAMILY | SSF48452 | TPR-like | 34 | 174 | 1.0E-18 | IPR011990 |
| Gene3D | G3DSA:1.20.58.1480 | - | 409 | 470 | 1.3E-6 | - |
| Gene3D | G3DSA:1.25.40.10 | Tetratricopeptide repeat domain | 32 | 169 | 7.9E-20 | IPR011990 |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 174 | 269 | 6.0E-21 | IPR013083 |
| Gene3D | G3DSA:2.30.130.40 | - | 271 | 372 | 2.5E-28 | - |
| SMART | SM00028 | tpr_5 | 34 | 67 | 0.0074 | IPR019734 |
| SMART | SM00464 | lon_5 | 271 | 470 | 3.0E-18 | IPR003111 |
| SMART | SM00184 | ring_2 | 188 | 225 | 1.4E-7 | IPR001841 |
| ProSiteProfiles | PS50089 | Zinc finger RING-type profile. | 188 | 226 | 13.167916 | IPR001841 |
| ProSiteProfiles | PS51787 | Lon N-terminal domain profile. | 269 | 470 | 18.410616 | IPR003111 |
| ProSiteProfiles | PS50005 | TPR repeat profile. | 34 | 67 | 9.0569 | IPR019734 |
| ProSitePatterns | PS00518 | Zinc finger RING-type signature. | 203 | 212 | - | IPR017907 |
Gene Ontology
Molecular Function:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT1G18660.1 | zinc finger (C3HC4-type RING finger) family protein. | 0 |
| RefSeq | XP_017254034.1 | PREDICTED: LON peptidase N-terminal domain and RING finger protein 1-like [Daucus carota subsp. sativus] | 0 |
| D3YY23 | LON peptidase N-terminal domain and RING finger protein 1 OS=Mus musculus OX=10090 GN=Lonrf1 PE=1 SV=2 | 0 | |
| TrEMBL | A0A164XLU8 | LON peptidase N-terminal domain and RING finger protein 1 OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_016582 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 23.999874 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 25.25589 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 19.941708 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 20.874899 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 24.452219 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 15.205528 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 15.374977 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 6.589462 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 25.988764 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 27.183764 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 25.8867 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 35.204674 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 40.399803 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 37.572132 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 21.014406 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 21.056757 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 29.031542 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 26.03104 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 27.200193 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 26.304104 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 23.123928 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 23.267374 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 17.826433 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 24.126059 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 21.542049 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 36.653618 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 28.33886 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 30.43309 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 41.031403 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 29.147243 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 53.010311 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 35.338024 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 23.348465 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 16.362623 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 24.926876 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 9.85455 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 17.357433 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 15.542232 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 28.396471 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 44.356258 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 48.646076 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 13.137595 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 18.163408 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 8.567098 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 7.233618 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 21.050171 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 10.482052 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 31.05509 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 29.367294 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 36.055599 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 1 | jg18579 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_19654 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah000792 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_5g114180 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg31041, Sbi_jg58242 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg25846 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00004700 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl54772, Sgl60074 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000004283, gene:ENSEOMG00000023203 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.5AG0020160, CQ.Regalona.r1.5BG0021510 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30144410 |
| Apiaceae | Apium graveolens | 2 | Ag4G00380, Ag5G00594 |
| Arecaceae | Cocos nucifera | 1 | COCNU_05G002540 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103705242 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_08.1354.V1.1 |
| Asteraceae | Flaveria trinervia | 2 | Ftri2G11864, Ftri9G29455 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT1G18660.4 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10007493m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp1g16630.v2.2 |
| Brassicaceae | Brassica nigra | 3 | BniB03g028140.2N, BniB04g033240.2N, BniB06p000230.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq01G1849 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl01G2017 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno14g09810 |
| Dunaliellaceae | Dunaliella salina | 2 | Dusal.0118s00011.v1.0, Dusal.1511s00001.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate02g19700 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG10.622 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00041554 |
| Plumbaginaceae | Limonium bicolor | 1 | Lb1G01814 |
| Poaceae | Echinochloa crus-galli | 3 | AH01.3249, BH01.3633, CH01.3819 |
| Poaceae | Eleusine coracana subsp. coracana | 3 | gene-QOZ80_2BG0206680, gene-QOZ80_3AG0228920 ... |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.4HG0374770.1 |
| Poaceae | Lolium multiflorum | 2 | gene-QYE76_066228, gene-QYE76_066250 |
| Poaceae | Oryza coarctata | 2 | Oco05G016780, Oco06G017590 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_01G318400 |
| Poaceae | Sporobolus alterniflorus | 2 | Chr04G013710, Chr07G013100 |
| Poaceae | Thinopyrum elongatum | 1 | Tel4E01G246300 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC4AG024660, gene_TRIDC4BG028770 |
| Poaceae | Triticum aestivum | 3 | TraesCS4A02G162000.1, TraesCS4B02G151200.1 ... |
| Poaceae | Zea mays | 1 | Zm00001eb020460_P001 |
| Poaceae | Zoysia japonica | 1 | nbis-gene-47236 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g3484 |
| Portulacaceae | Portulaca oleracea | 4 | evm.TU.LG02.17, evm.TU.LG04.3211, evm.TU.LG09.1283 ... |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc06g17510 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_4_RagTag.602 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-28760 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-11267 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-1749 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000008l.384 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00000745 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-14519 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-1575 |
| Salicaceae | Populus euphratica | 1 | populus_peu29895 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132632913 |
| Solanaceae | Solanum chilense | 1 | SOLCI000962400 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107013629 |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_10991 |
| Tamaricaceae | Tamarix chinensis | 1 | TC08G2360 |
| Zosteraceae | Zostera marina | 1 | Zosma05g23890.v3.1 |