Basic Information
Locus ID:
Ag6G01875
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
Ubiquitin-like domain-containing CTD
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr6 | 132276081 | 132280000 | - | Ag6G01875 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 6.52 | 38,160.43 Da | 38.69 | 94.21 | -0.41 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd01813 | Ubl_UBLCP1 | 14 | 87 | 4.03432E-25 | - |
| Pfam | PF03031 | NLI interacting factor-like phosphatase | 146 | 308 | 2.2E-27 | IPR004274 |
| Pfam | PF00240 | Ubiquitin family | 16 | 77 | 7.5E-8 | IPR000626 |
| SUPERFAMILY | SSF56784 | HAD-like | 133 | 310 | 2.48E-28 | IPR036412 |
| SUPERFAMILY | SSF54236 | Ubiquitin-like | 10 | 91 | 2.76E-17 | IPR029071 |
| Gene3D | G3DSA:3.40.50.1000 | - | 97 | 325 | 1.1E-63 | IPR023214 |
| Gene3D | G3DSA:3.10.20.90 | - | 7 | 91 | 7.8E-22 | - |
| SMART | SM00577 | forpap2 | 144 | 286 | 3.5E-15 | IPR004274 |
| SMART | SM00213 | ubq_7 | 14 | 87 | 8.1E-7 | IPR000626 |
| TIGRFAM | TIGR02245 | HAD_IIID1: HAD hydrolase, family IIID | 125 | 319 | 5.9E-107 | IPR011943 |
| ProSiteProfiles | PS50053 | Ubiquitin domain profile. | 14 | 85 | 10.484065 | IPR000626 |
| ProSiteProfiles | PS50969 | FCP1 homology domain profile. | 141 | 302 | 23.934305 | IPR004274 |
Gene Ontology
Molecular Function:
Cellular Component:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT4G06599.1 | ubiquitin family protein. | 0 |
| RefSeq | XP_017235647.1 | PREDICTED: ubiquitin-like domain-containing CTD phosphatase [Daucus carota subsp. sativus] | 0 |
| Q8W3M6 | Ubiquitin-like domain-containing CTD phosphatase OS=Arabidopsis thaliana OX=3702 GN=At4g06599 PE=2 SV=1 | 0 | |
| TrEMBL | A0A166DYS9 | protein-serine/threonine phosphatase OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_006685 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 26.721561 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 24.485058 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 23.697229 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 26.349295 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 30.370911 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 20.638166 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 23.528591 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 20.796951 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 43.716629 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 41.084126 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 43.563313 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 42.919674 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 42.166576 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 40.830448 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 31.44643 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 31.435656 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 32.452782 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 27.923351 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 31.986603 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 29.999058 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 29.949951 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 40.928711 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 40.250797 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 38.968178 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 36.414963 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 33.173588 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 33.33976 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 27.756262 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 33.093559 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 15.184313 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 18.838894 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 17.099789 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 18.542513 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 27.204622 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 20.769249 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 15.619743 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 15.359626 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 14.807722 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 22.703609 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 14.352461 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 11.854342 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 33.325703 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 39.456429 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 44.568913 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 40.275841 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 34.143349 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 43.470745 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 42.957756 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 42.529926 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 35.252098 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 1 | jg28381 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_24855 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah025119 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_6g145730 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg12933, Sbi_jg52930 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg8928 |
| Amaranthaceae | Suaeda aralocaspica | 2 | GOSA_00028807, GOSA_00028810 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl32578, Sgl37857 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000001641, gene:ENSEOMG00000003888 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.6AG0011940, CQ.Regalona.r1.6BG0012310 |
| Apiaceae | Apium graveolens | 1 | Ag6G01875 |
| Arecaceae | Cocos nucifera | 1 | COCNU_01G020100 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103702628 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_04.2746.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri4G16314 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT4G06599.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10025663m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp7g16990.v2.2 |
| Brassicaceae | Brassica nigra | 3 | BniB02g072770.2N, BniB05g019160.2N, BniB08g061120.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq09G0421 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl09G0459 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno05g00810 |
| Dunaliellaceae | Dunaliella salina | 1 | Dusal.0282s00005.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate09g01370 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG08.770 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00039951 |
| Plumbaginaceae | Limonium bicolor | 1 | Lb5G28122 |
| Poaceae | Echinochloa crus-galli | 3 | AH02.4047, BH02.4057, CH02.4086 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_1AG0041640, gene-QOZ80_1BG0091650 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.3HG0298380.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_056883 |
| Poaceae | Oryza coarctata | 2 | Oco01G026270, Oco02G027250 |
| Poaceae | Oryza sativa | 1 | LOC_Os01g65450.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_03G353600 |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0600002, Pt_Chr0600016 |
| Poaceae | Sporobolus alterniflorus | 4 | Chr02G003330, Chr03G021240, Chr05G029910, Chr08G020990 |
| Poaceae | Thinopyrum elongatum | 1 | Tel3E01G614400 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC3AG055160, gene_TRIDC3BG061750 |
| Poaceae | Triticum aestivum | 3 | TraesCS3A02G386000.1, TraesCS3B02G418100.1 ... |
| Poaceae | Zea mays | 1 | Zm00001eb366430_P001 |
| Poaceae | Zoysia japonica | 1 | nbis-gene-11222 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g9109 |
| Portulacaceae | Portulaca oleracea | 1 | evm.TU.LG23.228 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc01g02030 |
| Rhizophoraceae | Bruguiera sexangula | 3 | evm.TU.Scaffold_2_RagTag.1441, evm.TU.Scaffold_2_RagTag.1443 ... |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-3698 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-82 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-18877 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000009l.436 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00005091 |
| Rhizophoraceae | Rhizophora apiculata | 2 | nbisL1-mrna-2869, nbisL1-mrna-2870 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-19187 |
| Salicaceae | Populus euphratica | 3 | populus_peu08294, populus_peu33320, populus_peu38029 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132598669 |
| Solanaceae | Solanum chilense | 1 | SOLCI002905800 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107032095 |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_16712 |
| Tamaricaceae | Tamarix chinensis | 1 | TC04G0032 |
| Zosteraceae | Zostera marina | 1 | Zosma03g37060.v3.1 |