Basic Information
Locus ID:
AgUnG00772
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
Histone-binding protein RBBP4 or subunit C of CAF1 complex
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| ctg4472 | 93848 | 107209 | + | AgUnG00772 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 5.44 | 50,537.88 Da | 55.20 | 76.58 | -0.44 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF00400 | WD domain, G-beta repeat | 163 | 198 | 0.018 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 331 | 368 | 5.8E-5 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 291 | 323 | 0.014 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 243 | 278 | 0.012 | IPR001680 |
| Pfam | PF12265 | Histone-binding protein RBBP4 or subunit C of CAF1 complex | 16 | 82 | 2.9E-17 | IPR022052 |
| SUPERFAMILY | SSF50978 | WD40 repeat-like | 112 | 428 | 1.43E-43 | IPR036322 |
| Gene3D | G3DSA:2.130.10.10 | - | 1 | 443 | 1.5E-106 | IPR015943 |
| SMART | SM00320 | WD40_4 | 328 | 368 | 4.0E-8 | IPR001680 |
| SMART | SM00320 | WD40_4 | 283 | 323 | 1.9E-4 | IPR001680 |
| SMART | SM00320 | WD40_4 | 158 | 198 | 0.27 | IPR001680 |
| SMART | SM00320 | WD40_4 | 238 | 278 | 8.7E-6 | IPR001680 |
| SMART | SM00320 | WD40_4 | 378 | 425 | 4.7 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 335 | 368 | 10.574686 | - |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 245 | 282 | 8.676514 | - |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 290 | 323 | 9.706414 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 245 | 287 | 10.34136 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 335 | 368 | 12.714052 | IPR001680 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 208 | 235 | - | - |
Gene Ontology
Molecular Function:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT2G19520.1 | Transducin family protein / WD-40 repeat family protein. Controls flowering. | 0 |
| RefSeq | XP_017248648.1 | PREDICTED: WD-40 repeat-containing protein MSI4-like [Daucus carota subsp. sativus] | 0 |
| O22607 | WD-40 repeat-containing protein MSI4 OS=Arabidopsis thaliana OX=3702 GN=MSI4 PE=1 SV=3 | 0 | |
| TrEMBL | A0A6L5BA29 | CAF1C_H4-bd domain-containing protein OS=Apium graveolens OX=4045 GN=AG4045_021136 PE=3 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 27.215401 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 17.566196 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 16.844343 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 14.767297 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 17.592508 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 14.581454 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 16.761559 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 16.234749 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 30.541601 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 36.306282 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 32.027515 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 35.160133 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 29.815712 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 30.140417 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 6.445746 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 6.748789 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 9.126436 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 9.023997 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 8.077451 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 8.946884 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 17.803034 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 19.585072 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 18.557302 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 25.033365 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 16.031084 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 11.992792 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 10.273033 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 12.251304 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 13.890293 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 3.642673 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 2.072502 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 1.461319 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 9.449792 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 16.163477 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 8.573566 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 8.473831 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 5.226246 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 6.938633 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 13.011484 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 5.003988 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 7.754602 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 16.409296 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 14.292254 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 21.80785 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 22.899843 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 18.185413 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 17.665583 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 29.04973 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 25.876078 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 23.763258 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 4 | jg13580, jg27258, jg31690, jg32926 |
| Aizoaceae | Mesembryanthemum crystallinum | 2 | gene_11035, gene_5646 |
| Amaranthaceae | Atriplex hortensis | 2 | Ah015315, Ah028883 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_7g176780 |
| Amaranthaceae | Salicornia bigelovii | 3 | Sbi_jg25365, Sbi_jg33537, Sbi_jg9219 |
| Amaranthaceae | Salicornia europaea | 2 | Seu_jg19368, Seu_jg8233 |
| Amaranthaceae | Suaeda aralocaspica | 2 | GOSA_00002918, GOSA_00011143 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl73248, Sgl76767 |
| Amaranthaceae | Chenopodium album | 4 | gene:ENSEOMG00000009150, gene:ENSEOMG00000033744 ... |
| Amaranthaceae | Chenopodium quinoa | 3 | CQ.Regalona.r1.7AG0000310, CQ.Regalona.r1.8AG0014470 ... |
| Anacardiaceae | Pistacia vera | 2 | pistato.v30116720, pistato.v30258240 |
| Apiaceae | Apium graveolens | 4 | Ag5G01674, Ag8G00241, Ag9G01089, AgUnG00772 |
| Arecaceae | Cocos nucifera | 1 | COCNU_02G001380 |
| Arecaceae | Phoenix dactylifera | 3 | gene-LOC103709571, gene-LOC103711179, gene-LOC103720121 |
| Asparagaceae | Asparagus officinalis | 3 | AsparagusV1_01.2358.V1.1, AsparagusV1_03.2940.V1.1 ... |
| Asteraceae | Flaveria trinervia | 4 | Ftri14G19218, Ftri18G21942, Ftri1G12254, FtriNA08905 |
| Brassicaceae | Arabidopsis thaliana | 2 | AT2G19520.1, AT4G29730.1 |
| Brassicaceae | Eutrema salsugineum | 2 | Thhalv10022653m.g.v1.0, Thhalv10025026m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp3g32900.v2.2 |
| Brassicaceae | Brassica nigra | 4 | BniB02g015640.2N, BniB03g068830.2N, BniB04g024920.2N ... |
| Casuarinaceae | Casuarina equisetifolia | 2 | Ceq02G0874, Ceq06G0853 |
| Casuarinaceae | Casuarina glauca | 2 | Cgl02G0885, Cgl06G0878 |
| Cymodoceaceae | Cymodocea nodosa | 2 | gene.Cymno01g11580, gene.Cymno06g03770 |
| Dunaliellaceae | Dunaliella salina | 1 | Dusal.0591s00008.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate02g24090 |
| Nitrariaceae | Nitraria sibirica | 2 | evm.TU.LG01.44, evm.TU.LG07.1238 |
| Plantaginaceae | Plantago ovata | 2 | Pov_00002934, Pov_00025814 |
| Plumbaginaceae | Limonium bicolor | 4 | Lb3G16981, Lb3G16984, Lb3G18747, Lb5G29398 |
| Poaceae | Echinochloa crus-galli | 2 | BH02.3017, CH02.3511 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_1AG0030700, gene-QOZ80_1BG0080660 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.3HG0284120.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_054860 |
| Poaceae | Oryza coarctata | 2 | Oco01G018560, Oco02G018840 |
| Poaceae | Oryza sativa | 1 | LOC_Os01g51300.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_03G252300 |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0602899, Pt_Chr0602945 |
| Poaceae | Sporobolus alterniflorus | 5 | Chr02G011510, Chr03G014710, Chr08G014780, Chr0G026270 ... |
| Poaceae | Thinopyrum elongatum | 1 | Tel3E01G422600 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC3AG037590, gene_TRIDC3BG041980 |
| Poaceae | Triticum aestivum | 3 | TraesCS3A02G250900.2, TraesCS3B02G280400.1 ... |
| Poaceae | Zea mays | 2 | Zm00001eb155150_P002, Zm00001eb361300_P001 |
| Poaceae | Zoysia japonica | 1 | nbis-gene-26268 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g10992 |
| Portulacaceae | Portulaca oleracea | 4 | evm.TU.LG05.2259, evm.TU.LG07.1132, evm.TU.LG19.335 ... |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc03g21310 |
| Rhizophoraceae | Bruguiera sexangula | 2 | evm.TU.Scaffold_10_RagTag.515, evm.TU.Scaffold_4_RagTag.1836 |
| Rhizophoraceae | Carallia pectinifolia | 2 | nbisL1-mrna-13005, nbisL1-mrna-25744 |
| Rhizophoraceae | Ceriops tagal | 2 | nbisL1-mrna-2561, nbisL1-mrna-6299 |
| Rhizophoraceae | Ceriops zippeliana | 2 | nbisL1-mrna-16905, nbisL1-mrna-4623 |
| Rhizophoraceae | Kandelia candel | 2 | evm.TU.utg000008l.1042, evm.TU.utg000033l.357 |
| Rhizophoraceae | Kandelia obovata | 2 | Maker00000330, Maker00014843 |
| Rhizophoraceae | Rhizophora apiculata | 2 | nbisL1-mrna-14842, nbisL1-mrna-4024 |
| Rhizophoraceae | Rhizophora mangle | 2 | nbisL1-mrna-1133, nbisL1-mrna-8191 |
| Salicaceae | Populus euphratica | 4 | populus_peu05068, populus_peu09186, populus_peu33535 ... |
| Solanaceae | Lycium barbarum | 3 | gene-LOC132616917, gene-LOC132618307, gene-LOC132633465 |
| Solanaceae | Solanum chilense | 2 | SOLCI001848200, SOLCI007226100 |
| Solanaceae | Solanum pennellii | 2 | gene-LOC107014851, gene-LOC107026383 |
| Tamaricaceae | Reaumuria soongarica | 2 | STRG.2420_chr01_-, gene_2506 |
| Tamaricaceae | Tamarix chinensis | 2 | TC05G0340, TC10G1754 |
| Zosteraceae | Zostera marina | 1 | Zosma05g25500.v3.1 |