Basic Information
Locus ID:
AgUnG00514
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| ctg352 | 34143 | 43592 | + | AgUnG00514 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 5.42 | 51,965.90 Da | 46.81 | 70.11 | -0.58 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd00590 | RRM_SF | 164 | 215 | 5.90264E-4 | - |
| Pfam | PF00642 | Zinc finger C-x8-C-x5-C-x3-H type (and similar) | 80 | 107 | 3.0E-9 | IPR000571 |
| SUPERFAMILY | SSF90229 | CCCH zinc finger | 76 | 112 | 1.7E-7 | IPR036855 |
| SUPERFAMILY | SSF53335 | S-adenosyl-L-methionine-dependent methyltransferases | 257 | 410 | 2.49E-6 | IPR029063 |
| Gene3D | G3DSA:2.40.50.1070 | - | 326 | 461 | 6.6E-9 | - |
| Gene3D | G3DSA:4.10.1000.10 | - | 73 | 113 | 7.1E-11 | - |
| SMART | SM00356 | c3hfinal6 | 79 | 107 | 2.3E-6 | IPR000571 |
| ProSiteProfiles | PS50103 | Zinc finger C3H1-type profile. | 79 | 108 | 14.990263 | IPR000571 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 13 | 31 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 106 | 139 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 76 | - | - |
| Coils | Coil | Coil | 265 | 285 | - | - |
Gene Ontology
Molecular Function:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT2G28450.2 | zinc finger (CCCH-type) family protein. | 0 |
| RefSeq | XP_017253286.1 | PREDICTED: zinc finger CCCH domain-containing protein 24 [Daucus carota subsp. sativus] | 0 |
| Q8L7S3 | Zinc finger CCCH domain-containing protein 24 OS=Arabidopsis thaliana OX=3702 GN=At2g28450 PE=1 SV=1 | 0 | |
| TrEMBL | A0A6L5BCT2 | C3H1-type domain-containing protein OS=Apium graveolens OX=4045 GN=AG4045_000693 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 5.338791 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 3.924966 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 4.109601 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 4.227647 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 4.003617 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 5.100429 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 4.541225 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 4.209591 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 3.682383 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 4.62381 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 3.964636 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 5.264761 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 4.813612 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 3.979945 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 0.472042 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 1.146653 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 0.781692 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 1.814505 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 1.410618 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 2.608492 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 2.423061 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 1.22912 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 1.780915 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 1.642617 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 1.90716 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 3.46731 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 2.280234 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 2.783402 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 2.421762 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 0.3013 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 1.005888 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 0.704186 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 2.504475 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 0.822308 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 1.584244 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 0.647901 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 0.127449 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 0.516242 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 5.671641 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 1.781618 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 0.944179 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 2.775783 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 6.112204 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 14.664035 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 5.96652 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 2.017962 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 7.822075 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 1.185453 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 1.073298 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 1.247649 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 1 | jg35872 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_20859 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah037774 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_9g208060 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg41873, Sbi_jg48254 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg27595 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00019765 |
| Amaranthaceae | Suaeda glauca | 4 | Sgl22058, Sgl27336, Sgl78570, Sgl81054 |
| Amaranthaceae | Chenopodium album | 4 | gene:ENSEOMG00000016164, gene:ENSEOMG00000016348 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.9AG0004940, CQ.Regalona.r1.9BG0017370 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30058730 |
| Apiaceae | Apium graveolens | 4 | Ag2G00954, AgUnG00514, AgUnG01597, AgUnG01598 |
| Arecaceae | Cocos nucifera | 1 | COCNU_07G000100 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103708402 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_04.21.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri16G31703 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT2G28450.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10016347m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp4g11270.v2.2 |
| Brassicaceae | Brassica nigra | 1 | BniB06g017450.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq08G1718 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl08G1758 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno15g04020 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate03g06300 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG09.923 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00014650 |
| Plumbaginaceae | Limonium bicolor | 1 | Lb6G32392 |
| Poaceae | Echinochloa crus-galli | 3 | AH09.31, BH09.106, CH09.76 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_4AG0328510, gene-QOZ80_4BG0360510 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.2HG0100410.2 |
| Poaceae | Lolium multiflorum | 2 | gene-QYE76_038082, gene-QYE76_038083 |
| Poaceae | Oryza coarctata | 1 | Oco08G000150 |
| Poaceae | Oryza sativa | 1 | LOC_Os04g01480.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_06G004200 |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0305932, Pt_Chr0306000 |
| Poaceae | Sporobolus alterniflorus | 4 | Chr23G019170, Chr25G016790, Chr26G000780, Chr30G014600 |
| Poaceae | Thinopyrum elongatum | 1 | Tel2E01G096800 |
| Poaceae | Triticum dicoccoides | 1 | gene_TRIDC2BG004730 |
| Poaceae | Triticum aestivum | 3 | TraesCS2A02G039200.1, TraesCS2B02G051800.1 ... |
| Poaceae | Zea mays | 2 | Zm00001eb089580_P001, Zm00001eb418880_P001 |
| Poaceae | Zoysia japonica | 1 | nbis-gene-46845 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g19214 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG02.2197, evm.TU.LG23.431 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc06g00040 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_13_RagTag.713 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-30333 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-19756 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-16094 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000015l.413 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00015772 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-4332 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-15083 |
| Salicaceae | Populus euphratica | 1 | populus_peu35491 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132600428 |
| Solanaceae | Solanum chilense | 1 | SOLCI004152300 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107004810 |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_14615 |
| Tamaricaceae | Tamarix chinensis | 1 | TC01G2749 |
| Zosteraceae | Zostera marina | 1 | Zosma01g38900.v3.1 |