Basic Information
Locus ID:
AgUnG01009
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
U4 U6 small nuclear ribonucleoprotein
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| ctg5576 | 67666 | 74698 | - | AgUnG01009 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 9.21 | 96,178.36 Da | 51.90 | 68.31 | -1.05 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF08572 | pre-mRNA processing factor 3 (PRP3) | 465 | 694 | 2.0E-62 | IPR013881 |
| Pfam | PF06544 | Protein of unknown function (DUF1115) | 719 | 840 | 1.6E-39 | IPR010541 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 187 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 18 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 615 | 634 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 32 | 187 | - | - |
| Coils | Coil | Coil | 97 | 117 | - | - |
| Coils | Coil | Coil | 509 | 529 | - | - |
| Coils | Coil | Coil | 611 | 633 | - | - |
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT1G28060.1 | Pre-mRNA-splicing factor 3. | 0 |
| RefSeq | XP_017222581.1 | PREDICTED: U4/U6 small nuclear ribonucleoprotein Prp3 isoform X1 [Daucus carota subsp. sativus] | 0 |
| Q9C7E7 | Protein RDM16 OS=Arabidopsis thaliana OX=3702 GN=RDM16 PE=2 SV=1 | 0 | |
| TrEMBL | A0A6L5B8V4 | Protein RDM16 OS=Apium graveolens OX=4045 GN=AG4045_016140 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 25.905689 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 17.939936 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 22.55253 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 22.327805 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 23.560926 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 20.084206 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 20.55028 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 22.843567 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 42.40694 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 45.388546 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 45.271793 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 50.472458 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 42.222519 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 44.452419 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 13.505075 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 12.763284 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 14.629478 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 20.128239 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 14.746963 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 17.919973 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 21.155222 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 19.898148 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 19.032959 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 19.04982 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 17.86578 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 21.017038 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 17.400284 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 18.243439 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 19.270426 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 11.245699 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 13.781323 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 10.625677 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 17.220474 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 14.946911 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 17.70293 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 13.34552 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 9.628341 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 10.51654 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 24.660919 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 18.116236 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 14.300256 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 27.958523 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 24.57589 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 31.231941 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 24.289078 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 24.036461 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 26.195148 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 20.001043 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 19.633654 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 18.188803 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 1 | jg14359 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_12952 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah033457 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_2g036900 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg20818, Sbi_jg22947 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg16818 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00009329 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl61999, Sgl66559 |
| Amaranthaceae | Chenopodium album | 4 | gene:ENSEOMG00000017731, gene:ENSEOMG00000021852 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.2BG0012630, CQ.Regalona.r1.7AG0012570 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30171920 |
| Apiaceae | Apium graveolens | 2 | Ag8G00800, AgUnG01009 |
| Arecaceae | Cocos nucifera | 2 | COCNU_06G013370, COCNU_14G012920 |
| Arecaceae | Phoenix dactylifera | 2 | gene-LOC103710186, gene-LOC103712035 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_07.3569.V1.1 |
| Asteraceae | Flaveria trinervia | 2 | Ftri13G01717, Ftri18G11679 |
| Brassicaceae | Arabidopsis thaliana | 3 | AT1G28060.1, AT3G55930.1, AT3G56790.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10006834m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp1g24240.v2.2 |
| Brassicaceae | Brassica nigra | 3 | BniB03g017330.2N, BniB03g032940.2N, BniB04g042520.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq02G0693 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl02G0701 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno02g09890 |
| Dunaliellaceae | Dunaliella salina | 1 | Dusal.0624s00006.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate02g10910 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 1 | nbisL1-mrna-8201 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG02.1517 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00040145 |
| Plumbaginaceae | Limonium bicolor | 3 | Lb2G12387, Lb2G12388, Lb2G12429 |
| Poaceae | Echinochloa crus-galli | 3 | AH03.1136, BH03.1297, CH03.1460 |
| Poaceae | Eleusine coracana subsp. coracana | 3 | gene-QOZ80_4AG0309720, gene-QOZ80_4BG0340890 ... |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.5HG0469310.1 |
| Poaceae | Lolium multiflorum | 3 | gene-QYE76_004142, gene-QYE76_016981, gene-QYE76_027151 |
| Poaceae | Oryza coarctata | 3 | Oco04G010340, Oco17G001010, Oco18G000880 |
| Poaceae | Oryza sativa | 1 | LOC_Os09g07500.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_03G137100 |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0705068, Pt_Chr0705091 |
| Poaceae | Sporobolus alterniflorus | 4 | Chr10G003810, Chr11G015110, Chr14G006280, Chr21G007210 |
| Poaceae | Thinopyrum elongatum | 2 | Tel5E01G285300, Tel7E01G174000 |
| Poaceae | Triticum dicoccoides | 5 | gene_TRIDC4AG060440, gene_TRIDC4AG060530 ... |
| Poaceae | Triticum aestivum | 6 | TraesCS4A02G380600.1, TraesCS5A02G168300.1 ... |
| Poaceae | Zea mays | 2 | Zm00001eb204030_P002, Zm00001eb238080_P002 |
| Poaceae | Zoysia japonica | 1 | nbis-gene-24538 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g31942 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc02g12740 |
| Rhizophoraceae | Bruguiera sexangula | 2 | evm.TU.Scaffold_11_RagTag.412, evm.TU.Scaffold_4_RagTag.1671 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-26067 |
| Rhizophoraceae | Ceriops tagal | 3 | nbisL1-mrna-10752, nbisL1-mrna-8483, nbisL1-mrna-8484 |
| Rhizophoraceae | Ceriops zippeliana | 3 | nbisL1-mrna-14167, nbisL1-mrna-14168, nbisL1-mrna-4484 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000008l.929 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00000184 |
| Rhizophoraceae | Rhizophora apiculata | 2 | nbisL1-mrna-17556, nbisL1-mrna-2123 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-9504 |
| Salicaceae | Populus euphratica | 2 | populus_peu06361, populus_peu20188 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132606062 |
| Solanaceae | Solanum chilense | 2 | SOLCI000212900, SOLCI007045600 |
| Solanaceae | Solanum pennellii | 2 | gene-LOC107018979, gene-LOC107023328 |
| Tamaricaceae | Reaumuria soongarica | 2 | STRG.28756_chr04_+, gene_12281 |
| Tamaricaceae | Tamarix chinensis | 1 | TC02G3795 |
| Zosteraceae | Zostera marina | 1 | Zosma01g21800.v3.1 |