Basic Information
Locus ID:
Ag4G01174
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
FANCL C-terminal domain
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr4 | 127738957 | 127744019 | + | Ag4G01174 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 6.40 | 38,380.02 Da | 52.80 | 79.52 | -0.30 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd16490 | RING-CH-C4HC3_FANCL | 255 | 321 | 7.6538E-24 | - |
| Pfam | PF18891 | FANCL UBC-like domain 3 | 148 | 244 | 5.2E-20 | IPR044037 |
| Pfam | PF18890 | FANCL UBC-like domain 2 | 63 | 146 | 2.0E-16 | IPR043898 |
| Pfam | PF11793 | FANCL C-terminal domain | 252 | 328 | 3.6E-28 | IPR026850 |
| SUPERFAMILY | SSF57850 | RING/U-box | 255 | 327 | 5.03E-7 | - |
| Gene3D | G3DSA:3.10.110.10 | Ubiquitin Conjugating Enzyme | 58 | 145 | 1.1E-26 | IPR016135 |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 241 | 332 | 1.6E-26 | IPR013083 |
| Gene3D | G3DSA:3.10.110.20 | - | 146 | 240 | 1.4E-28 | IPR043003 |
| SMART | SM01197 | FANCL_C_2 | 252 | 329 | 4.0E-40 | - |
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT5G65740.2 | zinc ion binding. | 0 |
| RefSeq | XP_017242671.1 | PREDICTED: E3 ubiquitin-protein ligase FANCL isoform X2 [Daucus carota subsp. sativus] | 0 |
| Q9CR14 | E3 ubiquitin-protein ligase FANCL OS=Mus musculus OX=10090 GN=Fancl PE=1 SV=1 | 0 | |
| TrEMBL | A0A161XZ23 | E3 ubiquitin-protein ligase FANCL OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_010781 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 12.402738 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 9.08132 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 8.476624 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 9.440543 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 7.349528 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 8.488049 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 7.241417 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 6.100288 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 13.373055 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 13.925138 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 13.691799 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 14.290152 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 14.957847 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 12.004053 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 6.571239 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 6.312337 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 11.86354 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 6.188032 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 6.387698 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 6.793364 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 12.436116 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 18.496479 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 23.856213 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 17.564388 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 17.653751 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 10.201991 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 10.245364 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 10.796384 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 10.740227 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 2.32687 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 5.147701 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 2.587729 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 3.715032 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 9.695019 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 6.328684 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 5.184158 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 1.804073 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 3.029929 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 4.642465 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 3.927652 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 3.688958 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 20.58127 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 21.940931 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 14.909044 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 25.6534 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 14.926426 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 34.059387 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 35.264736 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 40.985207 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 41.064781 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 1 | jg17329 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30204550 |
| Apiaceae | Apium graveolens | 1 | Ag4G01174 |
| Arecaceae | Cocos nucifera | 1 | COCNU_13G004750 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103704265 |
| Asparagaceae | Asparagus officinalis | 2 | AsparagusV1_03.2451.V1.1, AsparagusV1_06.1365.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri17G06593 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT5G65740.2 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10004606m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp2g28840.v2.2 |
| Brassicaceae | Brassica nigra | 1 | BniB06g014040.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq06G0428 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl06G0446 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno17g02310 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate08g21360 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 1 | nbisL1-mrna-10587 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG02.2619 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00024118 |
| Plumbaginaceae | Limonium bicolor | 1 | Lb8G36408 |
| Poaceae | Echinochloa crus-galli | 3 | AH01.754, BH01.896, CH01.913 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_3AG0217980, gene-QOZ80_3BG0263210 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.4HG0338990.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_062229 |
| Poaceae | Oryza coarctata | 2 | Oco05G022350, Oco06G023240 |
| Poaceae | Oryza sativa | 1 | LOC_Os03g51680.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_01G096900 |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0107445, Pt_Chr0107478 |
| Poaceae | Sporobolus alterniflorus | 3 | Chr01G006420, Chr04G027710, Chr12G031030 |
| Poaceae | Thinopyrum elongatum | 1 | Tel4E01G098100 |
| Poaceae | Triticum dicoccoides | 1 | gene_TRIDC4AG040180 |
| Poaceae | Triticum aestivum | 3 | TraesCS4A02G256800.1, TraesCS4B02G057700.2 ... |
| Poaceae | Zea mays | 3 | Zm00001eb172840_P001, Zm00001eb215660_P003 ... |
| Poaceae | Zoysia macrostachya | 1 | Zma_g578 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc10g06710 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_6_RagTag.1753 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-17410 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-16798 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-12017 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000011l.1064 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00007233 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-15422 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-3335 |
| Salicaceae | Populus euphratica | 1 | populus_peu23737 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132618760 |
| Solanaceae | Solanum chilense | 1 | SOLCI005391400 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107012770 |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_16194 |
| Tamaricaceae | Tamarix chinensis | 1 | TC09G0312 |
| Zosteraceae | Zostera marina | 1 | Zosma06g30260.v3.1 |