Basic Information
Locus ID:
Ag6G02468
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
Pentatricopeptide repeat-containing protein
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr6 | 253526564 | 253528549 | - | Ag6G02468 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 5.87 | 60,192.94 Da | 31.70 | 90.36 | -0.06 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF01535 | PPR repeat | 121 | 145 | 0.0077 | IPR002885 |
| Pfam | PF01535 | PPR repeat | 252 | 282 | 0.014 | IPR002885 |
| Pfam | PF14432 | DYW family of nucleic acid deaminases | 409 | 523 | 1.4E-26 | IPR032867 |
| Pfam | PF13041 | PPR repeat family | 45 | 92 | 6.7E-9 | IPR002885 |
| Pfam | PF13041 | PPR repeat family | 349 | 396 | 4.0E-11 | IPR002885 |
| Pfam | PF13041 | PPR repeat family | 148 | 194 | 3.1E-12 | IPR002885 |
| SUPERFAMILY | SSF48452 | TPR-like | 33 | 350 | 1.42E-5 | IPR011990 |
| SUPERFAMILY | SSF48452 | TPR-like | 322 | 435 | 3.24E-6 | IPR011990 |
| Gene3D | G3DSA:1.25.40.10 | Tetratricopeptide repeat domain | 2 | 99 | 4.9E-21 | IPR011990 |
| Gene3D | G3DSA:1.25.40.10 | Tetratricopeptide repeat domain | 100 | 215 | 3.1E-21 | IPR011990 |
| Gene3D | G3DSA:1.25.40.10 | Tetratricopeptide repeat domain | 314 | 467 | 9.2E-27 | IPR011990 |
| Gene3D | G3DSA:1.25.40.10 | Tetratricopeptide repeat domain | 216 | 312 | 2.5E-11 | IPR011990 |
| TIGRFAM | TIGR00756 | PPR: pentatricopeptide repeat domain | 149 | 183 | 9.1E-7 | IPR002885 |
| TIGRFAM | TIGR00756 | PPR: pentatricopeptide repeat domain | 21 | 48 | 1.1E-4 | IPR002885 |
| TIGRFAM | TIGR00756 | PPR: pentatricopeptide repeat domain | 352 | 385 | 7.9E-6 | IPR002885 |
| TIGRFAM | TIGR00756 | PPR: pentatricopeptide repeat domain | 324 | 352 | 4.9E-4 | IPR002885 |
| TIGRFAM | TIGR00756 | PPR: pentatricopeptide repeat domain | 48 | 82 | 1.5E-5 | IPR002885 |
| ProSiteProfiles | PS51375 | Pentatricopeptide (PPR) repeat profile. | 350 | 384 | 11.465577 | IPR002885 |
| ProSiteProfiles | PS51375 | Pentatricopeptide (PPR) repeat profile. | 250 | 284 | 8.648523 | IPR002885 |
| ProSiteProfiles | PS51375 | Pentatricopeptide (PPR) repeat profile. | 46 | 80 | 10.259834 | IPR002885 |
| ProSiteProfiles | PS51375 | Pentatricopeptide (PPR) repeat profile. | 15 | 45 | 8.6266 | IPR002885 |
| ProSiteProfiles | PS51375 | Pentatricopeptide (PPR) repeat profile. | 319 | 349 | 9.843305 | IPR002885 |
| ProSiteProfiles | PS51375 | Pentatricopeptide (PPR) repeat profile. | 147 | 181 | 10.709248 | IPR002885 |
Gene Ontology
Molecular Function:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT3G15130.1 | Tetratricopeptide repeat (TPR)-like superfamily protein. | 0 |
| RefSeq | XP_017233693.1 | PREDICTED: putative pentatricopeptide repeat-containing protein At3g15130 [Daucus carota subsp. sativus] | 0 |
| P0C898 | Putative pentatricopeptide repeat-containing protein At3g15130 OS=Arabidopsis thaliana OX=3702 GN=PCMP-H86 PE=3 SV=1 | 0 | |
| TrEMBL | A0A5J5A580 | DYW_deaminase domain-containing protein OS=Nyssa sinensis OX=561372 GN=F0562_007169 PE=3 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 2.200176 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 1.032576 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 0.571809 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 0.840484 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 0.746641 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 0.815073 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 0.589851 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 0.430593 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 1.395402 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 1.491926 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 1.887835 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 0.901816 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 1.483977 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 0.68325 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 0.317223 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 0.959328 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 0.317854 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 0.236149 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 0.213513 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 0.282557 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 0.375504 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 0.576602 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 0.860072 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 0.776201 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 0.769327 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 0.608517 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 0.44508 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 0.178837 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 0.388542 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 0.089828 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 0.138153 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 0.122 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 0.586423 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 0.695268 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 0.200103 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 0.248712 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 0.131252 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 0.122528 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 0.589754 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 0.355438 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 0.130738 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 1.747487 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 0.740158 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 0.759156 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 0.660397 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 1.443294 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 0.59312 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 2.007313 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 1.134483 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 1.051174 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_17827 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah031897 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_2g043850 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg30324, Sbi_jg43743 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg18166 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00028084 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl71252, Sgl74824 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000015971, gene:ENSEOMG00000020746 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.2AG0001480, CQ.Regalona.r1.2BG0002540 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30253240 |
| Apiaceae | Apium graveolens | 2 | Ag10G01959, Ag6G02468 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT3G15130.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10022068m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp3g13340.v2.2 |
| Brassicaceae | Brassica nigra | 1 | BniB07g028090.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq04G2134 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl04G2339 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate04g04800 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG07.1361 |
| Poaceae | Echinochloa crus-galli | 2 | AH09.2784, BH09.3020 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_4AG0298630, gene-QOZ80_4BG0329330 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.2HG0214790.1.CDS1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_064732 |
| Poaceae | Oryza coarctata | 1 | Oco08G019110 |
| Poaceae | Oryza sativa | 1 | LOC_Os04g58980.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_06G292000 |
| Poaceae | Puccinellia tenuiflora | 1 | Pt_Chr0300539 |
| Poaceae | Sporobolus alterniflorus | 2 | Chr23G000390, Chr26G018800 |
| Poaceae | Thinopyrum elongatum | 1 | Tel2E01G995500 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC2AG080060, gene_TRIDC2BG088150 |
| Poaceae | Triticum aestivum | 5 | TraesCS2A02G577500.1.cds1, TraesCS2B02G609900.1.cds1 ... |
| Poaceae | Zea mays | 1 | Zm00001eb076040_P001 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG03.2552, evm.TU.LG17.1594 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_10_RagTag.793 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-13690 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-11913 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-9042 |
| Rhizophoraceae | Kandelia candel | 1 | add.evm.TU.utg000004l.52 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-18266 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-7922 |
| Salicaceae | Populus euphratica | 1 | populus_peu12798 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132602789 |
| Solanaceae | Solanum chilense | 1 | SOLCI001403200 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107024509 |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_3798 |
| Tamaricaceae | Tamarix chinensis | 1 | TC01G1671 |
| Zosteraceae | Zostera marina | 1 | Zosma02g01630.v3.1 |