Basic Information
Locus ID:
Ag10G01116
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 |
|---|---|---|---|---|
| chr10 | 160854992 | 160857513 | + | Ag10G01116 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 5.93 | 51,147.07 Da | 28.46 | 99.02 | 0.16 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF01535 | PPR repeat | 76 | 103 | 6.2E-5 | IPR002885 |
| Pfam | PF01535 | PPR repeat | 177 | 205 | 2.6E-4 | IPR002885 |
| Pfam | PF01535 | PPR repeat | 151 | 174 | 0.15 | IPR002885 |
| Pfam | PF01535 | PPR repeat | 375 | 399 | 2.5E-4 | IPR002885 |
| Pfam | PF01535 | PPR repeat | 403 | 431 | 2.0E-4 | IPR002885 |
| Pfam | PF01535 | PPR repeat | 48 | 73 | 0.0032 | IPR002885 |
| Pfam | PF13041 | PPR repeat family | 299 | 343 | 5.8E-10 | IPR002885 |
| Pfam | PF01535 | PPR repeat | 273 | 293 | 0.52 | IPR002885 |
| Gene3D | G3DSA:1.25.40.10 | Tetratricopeptide repeat domain | 213 | 348 | 4.1E-22 | IPR011990 |
| Gene3D | G3DSA:1.25.40.10 | Tetratricopeptide repeat domain | 106 | 212 | 2.0E-17 | IPR011990 |
| Gene3D | G3DSA:1.25.40.10 | Tetratricopeptide repeat domain | 349 | 454 | 1.4E-18 | IPR011990 |
| TIGRFAM | TIGR00756 | PPR: pentatricopeptide repeat domain | 403 | 436 | 4.4E-4 | IPR002885 |
| TIGRFAM | TIGR00756 | PPR: pentatricopeptide repeat domain | 177 | 210 | 7.0E-6 | IPR002885 |
| TIGRFAM | TIGR00756 | PPR: pentatricopeptide repeat domain | 47 | 73 | 0.0026 | IPR002885 |
| TIGRFAM | TIGR00756 | PPR: pentatricopeptide repeat domain | 76 | 103 | 1.9E-4 | IPR002885 |
| TIGRFAM | TIGR00756 | PPR: pentatricopeptide repeat domain | 302 | 335 | 3.5E-8 | IPR002885 |
| ProSiteProfiles | PS51375 | Pentatricopeptide (PPR) repeat profile. | 401 | 435 | 9.821383 | IPR002885 |
| ProSiteProfiles | PS51375 | Pentatricopeptide (PPR) repeat profile. | 74 | 104 | 8.736214 | IPR002885 |
| ProSiteProfiles | PS51375 | Pentatricopeptide (PPR) repeat profile. | 175 | 209 | 11.191545 | IPR002885 |
| ProSiteProfiles | PS51375 | Pentatricopeptide (PPR) repeat profile. | 300 | 334 | 12.079411 | IPR002885 |
Gene Ontology
Molecular Function:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT2G39620.1 | Pentatricopeptide repeat (PPR) superfamily protein. | 0 |
| RefSeq | XP_017244178.1 | PREDICTED: pentatricopeptide repeat-containing protein At2g39620 [Daucus carota subsp. sativus] | 0 |
| O80647 | Pentatricopeptide repeat-containing protein At2g39620 OS=Arabidopsis thaliana OX=3702 GN=PCMP-E33 PE=3 SV=1 | 0 | |
| TrEMBL | A0A165WHM3 | DYW_deaminase domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_015199 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 1.258944 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 1.101504 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 0.705465 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 0.690777 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 1.059785 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 1.220188 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 0.696828 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 0.852496 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 2.263935 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 1.903992 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 2.185179 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 2.130028 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 1.569699 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 1.15169 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 0.068304 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 0.697029 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 0.05328 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 0.364411 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 0.200092 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 1.055522 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 0.679469 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 0.113651 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 0.179795 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 0.293891 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 0.161546 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 1.248932 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 0.157086 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 0.632765 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 0.340904 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 0 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 0.080393 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 0 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 0.50465 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 0.271669 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 0.486453 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 0.171907 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 0 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 0 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 0.463543 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 0.498966 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 0.165516 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 1.06164 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 0.471793 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 0 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 0 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 0 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 0.742766 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 0.353573 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 0.941305 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 0.591316 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_24434 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah033616 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_2g037410 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg19889, Sbi_jg44652 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg17347 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00024039 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl63698, Sgl68200 |
| Amaranthaceae | Chenopodium album | 2 | gene:ENSEOMG00000021560, gene:ENSEOMG00000050726 |
| Amaranthaceae | Chenopodium quinoa | 1 | CQ.Regalona.r1.2AG0009780 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30175040 |
| Apiaceae | Apium graveolens | 1 | Ag10G01116 |
| Arecaceae | Cocos nucifera | 1 | COCNU_04G000840 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_02.46.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri17G28911 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT2G39620.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10016248m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp4g21880.v2.2 |
| Brassicaceae | Brassica nigra | 1 | BniB08g025470.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq02G0739 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno15g07690 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate02g02680 |
| Plumbaginaceae | Limonium bicolor | 1 | Lb1G05287 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG04.1452, evm.TU.LG05.1977 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_4_RagTag.1706 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-26022 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-7668 |
| Rhizophoraceae | Ceriops zippeliana | 2 | nbisL1-mrna-4515, nbisL1-mrna-4516 |
| Rhizophoraceae | Kandelia candel | 1 | add.evm.TU.utg000008l.357 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-17549 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-9474 |
| Salicaceae | Populus euphratica | 1 | populus_peu06399 |
| Solanaceae | Lycium barbarum | 2 | gene-LOC132613496, gene-LOC132615578 |
| Solanaceae | Solanum chilense | 1 | SOLCI007470700 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107015926 |
| Tamaricaceae | Reaumuria soongarica | 1 | STRG.2306_chr01_- |
| Tamaricaceae | Tamarix chinensis | 1 | TC01G0915 |
| Zosteraceae | Zostera marina | 1 | Zosma06g27790.v3.1 |