Basic Information
Locus ID:
Ag2G00493
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
U3 small nucleolar RNA-associated protein
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr2 | 12327005 | 12334675 | + | Ag2G00493 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 9.50 | 60,457.38 Da | 35.77 | 77.75 | -0.57 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF08149 | BING4CT (NUC141) domain | 356 | 434 | 1.9E-33 | IPR012952 |
| Pfam | PF00400 | WD domain, G-beta repeat | 278 | 308 | 1.5E-7 | IPR001680 |
| SUPERFAMILY | SSF50978 | WD40 repeat-like | 108 | 381 | 4.95E-40 | IPR036322 |
| Gene3D | G3DSA:2.130.10.10 | - | 240 | 392 | 1.4E-21 | IPR015943 |
| Gene3D | G3DSA:2.130.10.10 | - | 89 | 239 | 2.0E-8 | IPR015943 |
| SMART | SM01033 | BING4CT_2 | 355 | 435 | 4.0E-50 | IPR012952 |
| SMART | SM00320 | WD40_4 | 105 | 144 | 150.0 | IPR001680 |
| SMART | SM00320 | WD40_4 | 147 | 184 | 88.0 | IPR001680 |
| SMART | SM00320 | WD40_4 | 269 | 308 | 2.5E-10 | IPR001680 |
| SMART | SM00320 | WD40_4 | 227 | 266 | 9.0 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 276 | 310 | 12.525585 | - |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 276 | 317 | 15.888781 | IPR001680 |
| ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 295 | 309 | - | IPR019775 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 486 | 513 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 470 | 513 | - | - |
Gene Ontology
Molecular Function:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT3G10530.1 | Transducin/WD40 repeat-like superfamily protein. | 0 |
| RefSeq | XP_017252839.1 | PREDICTED: probable U3 small nucleolar RNA-associated protein 7 [Daucus carota subsp. sativus] | 0 |
| Q9P4X3 | Probable U3 small nucleolar RNA-associated protein 7 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) OX=284812 GN=utp7 PE=3 SV=1 | 0 | |
| TrEMBL | A0A162A6C0 | BING4CT domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_019312 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 18.786758 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 11.630151 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 10.098356 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 12.041569 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 11.317567 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 11.025202 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 10.005142 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 9.391504 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 20.44298 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 17.909903 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 21.967934 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 21.536758 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 23.415213 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 18.17149 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 4.482947 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 8.108011 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 8.985608 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 9.197844 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 9.323279 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 13.540525 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 12.73168 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 16.515852 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 16.358477 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 18.48267 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 14.899258 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 11.858647 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 9.400692 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 11.853453 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 12.357421 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 3.135226 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 6.174597 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 4.498306 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 5.762502 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 8.955765 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 10.295343 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 6.883968 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 3.926401 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 5.080666 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 10.104589 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 4.905218 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 2.801847 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 23.410067 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 13.080883 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 29.45853 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 21.098074 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 35.299099 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 17.211744 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 22.018324 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 17.309969 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 19.531981 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 1 | jg34381 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_24174 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah022375 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_3g056890 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg59026, Sbi_jg63605 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg23286 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00012865 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl02445, Sgl07598 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000012275, gene:ENSEOMG00000030474 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.3AG0024360, CQ.Regalona.r1.3BG0025190 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30170300 |
| Apiaceae | Apium graveolens | 1 | Ag2G00493 |
| Arecaceae | Cocos nucifera | 1 | COCNU_02G013980 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103713730 |
| Asteraceae | Flaveria trinervia | 1 | Ftri15G08245 |
| Brassicaceae | Arabidopsis thaliana | 2 | AT3G10530.1, AT3G23850.1 |
| Brassicaceae | Eutrema salsugineum | 2 | Thhalv10016037m.g.v1.0, Thhalv10020478m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp3g08810.v2.2 |
| Brassicaceae | Brassica nigra | 2 | BniB01g054480.2N, BniB07g057600.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq04G0399 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl04G0499 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno08g05520 |
| Dunaliellaceae | Dunaliella salina | 1 | Dusal.0308s00015.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate04g15880 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 2 | nbisL1-mrna-6491, nbisL1-mrna-9862 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG02.1160 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00028625 |
| Plumbaginaceae | Limonium bicolor | 1 | Lb7G34532 |
| Poaceae | Echinochloa crus-galli | 6 | AH02.901, AH07.1933, BH02.1227, BH07.1907, CH02.1351 ... |
| Poaceae | Eleusine coracana subsp. coracana | 3 | gene-QOZ80_5BG0426520, gene-QOZ80_8AG0632140 ... |
| Poaceae | Hordeum vulgare | 2 | HORVU.MOREX.r3.2HG0214620.1, HORVU.MOREX.r3.4HG0341160.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_062979 |
| Poaceae | Oryza coarctata | 2 | Oco01G003530, Oco02G003570 |
| Poaceae | Oryza sativa | 1 | LOC_Os01g08770.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_04G144300 |
| Poaceae | Puccinellia tenuiflora | 4 | Pt_Chr0104423, Pt_Chr0200383, Pt_Chr0704378, Pt_Ctg00136 |
| Poaceae | Sporobolus alterniflorus | 3 | Chr06G011170, Chr13G011810, Chr15G012760 |
| Poaceae | Thinopyrum elongatum | 3 | Tel1E01G617100, Tel4E01G051800, Tel4E01G114100 |
| Poaceae | Triticum dicoccoides | 3 | gene_TRIDC1AG055600, gene_TRIDC4AG038440 ... |
| Poaceae | Triticum aestivum | 5 | TraesCS1B02G399700.1, TraesCS1D02G385600.1 ... |
| Poaceae | Zea mays | 1 | Zm00001eb272000_P001 |
| Poaceae | Zoysia japonica | 1 | nbis-gene-18960 |
| Poaceae | Zoysia macrostachya | 2 | Zma_g16369, Zma_g16373 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG07.185, evm.TU.LG15.59 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc05g13600 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_4_RagTag.1556 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-11369 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-13230 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-4382 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000008l.845 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00000038 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-2207 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-9609 |
| Salicaceae | Populus euphratica | 2 | populus_peu06175, populus_peu20018 |
| Solanaceae | Lycium barbarum | 2 | gene-LOC132639832, gene-LOC132641614 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107018485 |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_153 |
| Tamaricaceae | Tamarix chinensis | 1 | TC11G1641 |
| Zosteraceae | Zostera marina | 5 | Zosma04g08080.v3.1, Zosma04g08090.v3.1, Zosma04g08100.v3.1 ... |