Basic Information
Locus ID:
Ag5G00997
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
Protein SDE2 homolog
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr5 | 54754754 | 54758026 | - | Ag5G00997 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 7.16 | 49,317.38 Da | 49.11 | 78.58 | -0.76 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF13297 | Telomere stability C-terminal | 384 | 443 | 2.4E-27 | - |
| Pfam | PF13019 | Silencing defective 2 N-terminal ubiquitin domain | 6 | 152 | 3.4E-32 | IPR024974 |
| SUPERFAMILY | SSF54236 | Ubiquitin-like | 4 | 58 | 1.04E-10 | IPR029071 |
| Gene3D | G3DSA:3.10.20.90 | - | 1 | 80 | 8.9E-10 | - |
| ProSiteProfiles | PS50053 | Ubiquitin domain profile. | 5 | 80 | 9.983231 | IPR000626 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 192 | 290 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 192 | 223 | - | - |
| Coils | Coil | Coil | 114 | 141 | - | - |
Gene Ontology
Molecular Function:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT4G01000.1 | Ubiquitin-like superfamily protein. | 0 |
| RefSeq | XP_017218164.1 | PREDICTED: protein SDE2 homolog [Daucus carota subsp. sativus] | 0 |
| Q6IQ49 | Splicing regulator SDE2 OS=Homo sapiens OX=9606 GN=SDE2 PE=1 SV=1 | 0 | |
| TrEMBL | A0A164TYQ0 | Ubiquitin-like domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_025250 PE=3 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 41.593285 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 34.494591 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 34.188541 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 35.107124 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 39.57394 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 35.885387 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 39.022301 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 35.208439 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 70.503075 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 68.688324 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 73.435486 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 80.635452 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 68.833443 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 61.517815 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 26.632145 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 26.568554 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 27.419851 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 32.498466 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 27.175877 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 28.629902 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 32.604954 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 44.260841 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 37.815807 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 43.939194 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 40.329773 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 39.605389 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 31.867525 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 24.131721 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 37.625111 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 12.363571 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 15.176165 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 11.943102 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 25.11467 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 26.764927 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 27.676332 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 18.833561 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 12.458609 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 14.340325 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 25.938038 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 25.53545 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 15.099076 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 36.785927 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 26.72361 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 36.466488 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 34.053658 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 34.938862 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 36.464745 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 45.097511 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 49.042614 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 40.947163 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 2 | jg2004, jg29447 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_1631 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah022862 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_1g003170 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg3962, Sbi_jg49175 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg6068 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00000575 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl10916, Sgl16270 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000013547, gene:ENSEOMG00000035791 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.1AG0002090, CQ.Regalona.r1.2BG0026150 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30005740 |
| Apiaceae | Apium graveolens | 1 | Ag5G00997 |
| Arecaceae | Cocos nucifera | 1 | scaffold000561G000040 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103696901 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_05.2835.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri3G06469 |
| Brassicaceae | Arabidopsis thaliana | 2 | AT3G06455.1, AT4G01000.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10028668m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 2 | Sp1g00950.v2.2, Sp6g01150.v2.2 |
| Brassicaceae | Brassica nigra | 3 | BniB02g056930.2N, BniB08g041210.2N, BniB08g043360.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq02G1259 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl02G1299 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno16g01750 |
| Dunaliellaceae | Dunaliella salina | 1 | Dusal.0023s00044.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate09g15000 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 2 | nbisL1-mrna-6154, nbisL1-mrna-9534 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG04.708 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00016597 |
| Plumbaginaceae | Limonium bicolor | 2 | Lb1G02236, Lb1G03660 |
| Poaceae | Echinochloa crus-galli | 3 | AH02.2766, BH02.2849, CH02.3690 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_1AG0028750, gene-QOZ80_1BG0078990 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.3HG0280450.1 |
| Poaceae | Lolium multiflorum | 3 | gene-QYE76_012576, gene-QYE76_054591, gene-QYE76_054599 |
| Poaceae | Oryza coarctata | 2 | Oco01G017390, Oco02G017640 |
| Poaceae | Oryza sativa | 1 | LOC_Os01g48930.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_03G232800 |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0107862, Pt_Chr0602365 |
| Poaceae | Sporobolus alterniflorus | 6 | Chr02G012590, Chr03G013580, Chr05G021030, Chr08G013740 ... |
| Poaceae | Thinopyrum elongatum | 1 | Tel3E01G442500 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC3AG039680, gene_TRIDC3BG044830 |
| Poaceae | Triticum aestivum | 3 | TraesCS3A02G266500.1, TraesCS3B02G300000.1 ... |
| Poaceae | Zea mays | 2 | Zm00001eb156640_P002, Zm00001eb360440_P001 |
| Poaceae | Zoysia japonica | 2 | nbis-gene-12577, nbis-gene-26115 |
| Poaceae | Zoysia macrostachya | 2 | Zma_g10884, Zma_g8434 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG04.2160, evm.TU.LG06.148 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc09g09010 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_9_RagTag.601 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-21616 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-936 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-7400 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000003l.208 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00017535 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-1705 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-5438 |
| Salicaceae | Populus euphratica | 2 | populus_peu27567, populus_peu31564 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132645452 |
| Solanaceae | Solanum chilense | 1 | SOLCI004987100 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107007865 |
| Tamaricaceae | Reaumuria soongarica | 1 | STRG.28856_chr11_- |
| Tamaricaceae | Tamarix chinensis | 1 | TC03G1952 |
| Zosteraceae | Zostera marina | 1 | Zosma03g16490.v3.1 |