Basic Information
Locus ID:
Ag4G01600
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
Pentatricopeptide repeat-containing protein At3g09650
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr4 | 219741204 | 219743717 | + | Ag4G01600 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 8.92 | 82,342.76 Da | 32.88 | 87.97 | -0.28 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF13041 | PPR repeat family | 479 | 527 | 4.9E-13 | IPR002885 |
| Pfam | PF13041 | PPR repeat family | 219 | 267 | 5.1E-13 | IPR002885 |
| Pfam | PF13041 | PPR repeat family | 551 | 596 | 5.7E-10 | IPR002885 |
| Pfam | PF01535 | PPR repeat | 373 | 398 | 0.033 | IPR002885 |
| Pfam | PF13041 | PPR repeat family | 407 | 455 | 9.9E-14 | IPR002885 |
| Gene3D | G3DSA:1.25.40.10 | Tetratricopeptide repeat domain | 361 | 496 | 7.8E-32 | IPR011990 |
| Gene3D | G3DSA:1.25.40.10 | Tetratricopeptide repeat domain | 147 | 347 | 1.8E-31 | IPR011990 |
| Gene3D | G3DSA:1.25.40.10 | Tetratricopeptide repeat domain | 497 | 720 | 3.1E-39 | IPR011990 |
| TIGRFAM | TIGR00756 | PPR: pentatricopeptide repeat domain | 445 | 470 | 1.0E-4 | IPR002885 |
| TIGRFAM | TIGR00756 | PPR: pentatricopeptide repeat domain | 223 | 256 | 1.4E-7 | IPR002885 |
| TIGRFAM | TIGR00756 | PPR: pentatricopeptide repeat domain | 373 | 398 | 7.6E-4 | IPR002885 |
| TIGRFAM | TIGR00756 | PPR: pentatricopeptide repeat domain | 410 | 437 | 2.8E-4 | IPR002885 |
| TIGRFAM | TIGR00756 | PPR: pentatricopeptide repeat domain | 553 | 587 | 4.9E-9 | IPR002885 |
| TIGRFAM | TIGR00756 | PPR: pentatricopeptide repeat domain | 482 | 515 | 2.5E-7 | IPR002885 |
| ProSiteProfiles | PS51375 | Pentatricopeptide (PPR) repeat profile. | 551 | 585 | 13.603031 | IPR002885 |
| ProSiteProfiles | PS51375 | Pentatricopeptide (PPR) repeat profile. | 255 | 289 | 8.95544 | IPR002885 |
| ProSiteProfiles | PS51375 | Pentatricopeptide (PPR) repeat profile. | 443 | 477 | 9.218511 | IPR002885 |
| ProSiteProfiles | PS51375 | Pentatricopeptide (PPR) repeat profile. | 220 | 254 | 10.961357 | IPR002885 |
| ProSiteProfiles | PS51375 | Pentatricopeptide (PPR) repeat profile. | 480 | 514 | 11.377887 | IPR002885 |
| ProSiteProfiles | PS51375 | Pentatricopeptide (PPR) repeat profile. | 515 | 545 | 8.780059 | IPR002885 |
| ProSiteProfiles | PS51375 | Pentatricopeptide (PPR) repeat profile. | 408 | 442 | 11.180584 | IPR002885 |
| ProSiteProfiles | PS51375 | Pentatricopeptide (PPR) repeat profile. | 370 | 400 | 8.527949 | IPR002885 |
Gene Ontology
Molecular Function:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT3G09650.1 | Tetratricopeptide repeat (TPR)-like superfamily protein. RNA binding protein involved in the processing of chloroplast psbB-psbT-psbH-petB-petD transcript unit. | 0 |
| RefSeq | XP_017230564.1 | PREDICTED: pentatricopeptide repeat-containing protein At3g09650, chloroplastic-like [Daucus carota subsp. sativus] | 0 |
| Q9SF38 | Pentatricopeptide repeat-containing protein At3g09650, chloroplastic OS=Arabidopsis thaliana OX=3702 GN=HCF152 PE=2 SV=1 | 0 | |
| TrEMBL | A0A162B824 | Pentatricopeptide repeat-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_003849 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 29.631798 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 21.984793 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 17.184452 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 18.892626 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 19.657421 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 21.045212 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 18.437878 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 14.684712 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 21.220842 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 19.262812 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 22.394934 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 21.175133 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 23.006611 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 17.030132 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 2.055442 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 4.217531 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 3.834738 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 7.383698 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 11.746184 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 7.735286 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 9.577215 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 6.506451 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 4.092922 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 6.408112 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 5.052328 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 10.706788 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 7.1937 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 13.899676 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 7.296959 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 33.52507 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 61.368912 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 43.592773 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 49.149635 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 21.748951 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 46.427662 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 40.711819 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 29.117659 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 30.647253 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 13.810799 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 22.762796 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 48.422421 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 7.623068 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 5.887333 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 12.354131 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 8.475235 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 10.356254 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 7.485825 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 14.493679 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 15.436765 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 17.592564 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 1 | jg14930 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_14177 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah030219 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg27582, Sbi_jg32939 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg7719 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00012164 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl71543, Sgl75119 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000004487, gene:ENSEOMG00000035057 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.7AG0017710, CQ.Regalona.r1.7BG0019230 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30271930 |
| Apiaceae | Apium graveolens | 1 | Ag4G01600 |
| Arecaceae | Cocos nucifera | 1 | COCNU_04G002890 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103702861 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_02.228.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri17G29753 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT3G09650.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10020113m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp3g07980.v2.2 |
| Brassicaceae | Brassica nigra | 1 | BniB01g055220.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq08G1279 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl08G1307 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno05g15790 |
| Dunaliellaceae | Dunaliella salina | 1 | Dusal.0779s00006.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate01g33050 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG01.1379 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00006352 |
| Plumbaginaceae | Limonium bicolor | 1 | Lb2G08536 |
| Poaceae | Echinochloa crus-galli | 2 | CH01.3982, CH02.3616 |
| Poaceae | Eleusine coracana subsp. coracana | 1 | gene-QOZ80_9BG0695360 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.5HG0466520.1.CDS1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_003812 |
| Poaceae | Oryza coarctata | 1 | Oco01G021030 |
| Poaceae | Oryza sativa | 2 | LOC_Os11g01210.1, LOC_Os12g01210.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_03G241400 |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0103646, Pt_Chr0705186 |
| Poaceae | Sporobolus alterniflorus | 1 | Chr07G022510 |
| Poaceae | Thinopyrum elongatum | 1 | Tel5E01G268900 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC5AG025900, gene_TRIDC5BG027020 |
| Poaceae | Triticum aestivum | 3 | TraesCS5A02G155800.1, TraesCS5B02G154011.1 ... |
| Poaceae | Zea mays | 1 | Zm00001eb156000_P001 |
| Poaceae | Zoysia japonica | 2 | nbis-gene-40101, nbis-gene-54547 |
| Poaceae | Zoysia macrostachya | 2 | Zma_g17516, Zma_g25436 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG16.1116, evm.TU.LG20.1439 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc01g36010 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_2_RagTag.841 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-4358 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-18783 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-9957 |
| Rhizophoraceae | Kandelia candel | 1 | add.evm.TU.utg000009l.326 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-21859 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-5890 |
| Salicaceae | Populus euphratica | 1 | populus_peu25797 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132630102 |
| Solanaceae | Solanum chilense | 1 | SOLCI000383600 |
| Solanaceae | Solanum pennellii | 2 | gene-LOC107031406, gene-LOC107031500 |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_6768 |
| Tamaricaceae | Tamarix chinensis | 1 | TC07G0644 |
| Zosteraceae | Zostera marina | 1 | Zosma01g18650.v3.1 |