Basic Information
Locus ID:
Ag2G00687
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
Replication factor C subunit
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr2 | 24054483 | 24058660 | + | Ag2G00687 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 7.53 | 36,894.34 Da | 39.60 | 93.49 | -0.04 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd18140 | HLD_clamp_RFC | 174 | 236 | 4.86936E-19 | - |
| CDD | cd00009 | AAA | 32 | 166 | 7.6816E-25 | - |
| Pfam | PF08542 | Replication factor C C-terminal domain | 239 | 324 | 1.0E-20 | IPR013748 |
| Pfam | PF00004 | ATPase family associated with various cellular activities (AAA) | 53 | 170 | 8.8E-15 | IPR003959 |
| SUPERFAMILY | SSF48019 | post-AAA+ oligomerization domain-like | 238 | 329 | 5.53E-26 | IPR008921 |
| SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 15 | 237 | 5.78E-53 | IPR027417 |
| Gene3D | G3DSA:1.20.272.10 | - | 239 | 331 | 1.7E-30 | - |
| Gene3D | G3DSA:1.10.8.60 | - | 175 | 238 | 2.0E-20 | - |
| Gene3D | G3DSA:3.40.50.300 | - | 11 | 174 | 7.7E-55 | IPR027417 |
| SMART | SM00382 | AAA_5 | 49 | 175 | 2.8E-12 | IPR003593 |
Gene Ontology
Biological Process:
Molecular Function:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT1G63160.1 | replication factor C 2. | 0 |
| RefSeq | XP_017249835.1 | PREDICTED: replication factor C subunit 2 [Daucus carota subsp. sativus] | 0 |
| Q9CAM7 | Replication factor C subunit 2 OS=Arabidopsis thaliana OX=3702 GN=RFC2 PE=1 SV=1 | 0 | |
| TrEMBL | A0A164ZGD1 | AAA domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_019129 PE=3 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 34.486256 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 25.887882 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 23.616257 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 20.680483 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 23.483978 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 22.106489 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 18.364851 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 10.108264 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 47.151997 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 50.143848 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 52.180622 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 53.287186 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 49.363926 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 49.909515 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 19.133579 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 19.987318 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 22.859907 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 15.569855 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 20.973692 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 18.860432 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 22.94854 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 26.755898 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 26.763956 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 28.524673 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 27.70797 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 22.33481 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 16.486183 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 20.134214 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 19.921473 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 13.82941 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 19.241129 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 19.168785 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 24.170679 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 36.865425 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 21.569239 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 24.17338 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 17.272011 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 21.116226 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 21.576099 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 9.805904 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 7.037931 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 14.262781 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 22.053114 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 44.24675 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 30.998987 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 19.24052 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 23.176672 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 41.919624 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 38.232853 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 47.425205 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 1 | jg7608 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_14783 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah003787 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_5g100920 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg23723, Sbi_jg7563 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg12470 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00001260 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl51918, Sgl57213 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000007444, gene:ENSEOMG00000021068 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.5AG0007870, CQ.Regalona.r1.5BG0008380 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30143760 |
| Apiaceae | Apium graveolens | 1 | Ag2G00687 |
| Arecaceae | Cocos nucifera | 1 | COCNU_07G006950 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103714160 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_04.3107.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri3G05693 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT1G63160.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10023584m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp2g01430.v2.2 |
| Brassicaceae | Brassica nigra | 2 | BniB02g058490.2N, BniB03g033940.2N |
| Casuarinaceae | Casuarina equisetifolia | 3 | Ceq03G0439, Ceq04G0380, Ceq04G0532 |
| Casuarinaceae | Casuarina glauca | 2 | Cgl03G0542, Cgl04G0484 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno14g04770 |
| Dunaliellaceae | Dunaliella salina | 1 | Dusal.0395s00010.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate02g04230 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG10.1356 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00003130 |
| Plumbaginaceae | Limonium bicolor | 2 | Lb2G10744, Lb2G10753 |
| Poaceae | Echinochloa crus-galli | 3 | AH09.1963, BH09.2130, CH09.2273 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_5AG0361350, gene-QOZ80_5BG0409780 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.2HG0187470.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_045617 |
| Poaceae | Oryza coarctata | 2 | Oco07G013440, Oco08G012980 |
| Poaceae | Oryza sativa | 1 | LOC_Os04g48060.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_06G203600 |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0301621, Pt_Chr0307353 |
| Poaceae | Sporobolus alterniflorus | 4 | Chr18G016110, Chr22G000150, Chr25G005210, Chr30G005070 |
| Poaceae | Thinopyrum elongatum | 1 | Tel2E01G688600 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC2AG057980, gene_TRIDC2BG060880 |
| Poaceae | Triticum aestivum | 2 | TraesCS2A02G401300.1, TraesCS2B02G419300.1 |
| Poaceae | Zea mays | 1 | Zm00001eb428750_P002 |
| Poaceae | Zoysia japonica | 2 | nbis-gene-13550, nbis-gene-24718 |
| Poaceae | Zoysia macrostachya | 2 | Zma_g27465, Zma_g28908 |
| Portulacaceae | Portulaca oleracea | 4 | evm.TU.Contig2.4, evm.TU.Contig27.1, evm.TU.LG04.3428 ... |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc06g11580 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_14_RagTag.222 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-18157 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-9702 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-8488 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000007l.238 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00018412 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-16065 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-10858 |
| Salicaceae | Populus euphratica | 1 | populus_peu34355 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132634954 |
| Solanaceae | Solanum chilense | 1 | SOLCI001252200 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107026904 |
| Tamaricaceae | Reaumuria soongarica | 1 | STRG.23496_chr05_+ |
| Tamaricaceae | Tamarix chinensis | 1 | TC01G4312 |
| Zosteraceae | Zostera marina | 2 | Zosma01g21420.v3.1, Zosma04g12020.v3.1 |