Basic Information
Locus ID:
Ag5G02278
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 |
|---|---|---|---|---|
| chr5 | 269364143 | 269365681 | - | Ag5G02278 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 8.17 | 58,914.77 Da | 36.77 | 89.73 | -0.22 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF13812 | Pentatricopeptide repeat domain | 285 | 344 | 1.8E-9 | IPR002885 |
| Pfam | PF01535 | PPR repeat | 196 | 222 | 0.086 | IPR002885 |
| Pfam | PF01535 | PPR repeat | 128 | 152 | 0.66 | IPR002885 |
| Pfam | PF13041 | PPR repeat family | 226 | 275 | 1.3E-10 | IPR002885 |
| Pfam | PF13812 | Pentatricopeptide repeat domain | 359 | 415 | 0.0012 | IPR002885 |
| Pfam | PF12854 | PPR repeat | 437 | 467 | 1.4E-6 | IPR002885 |
| Gene3D | G3DSA:1.25.40.10 | Tetratricopeptide repeat domain | 400 | 511 | 3.4E-18 | IPR011990 |
| Gene3D | G3DSA:1.25.40.10 | Tetratricopeptide repeat domain | 277 | 399 | 5.7E-30 | IPR011990 |
| Gene3D | G3DSA:1.25.40.10 | Tetratricopeptide repeat domain | 222 | 276 | 2.8E-12 | IPR011990 |
| Gene3D | G3DSA:1.25.40.10 | Tetratricopeptide repeat domain | 70 | 221 | 1.6E-22 | IPR011990 |
| TIGRFAM | TIGR00756 | PPR: pentatricopeptide repeat domain | 299 | 332 | 2.8E-8 | IPR002885 |
| TIGRFAM | TIGR00756 | PPR: pentatricopeptide repeat domain | 264 | 298 | 1.1E-6 | IPR002885 |
| TIGRFAM | TIGR00756 | PPR: pentatricopeptide repeat domain | 336 | 368 | 0.003 | IPR002885 |
| TIGRFAM | TIGR00756 | PPR: pentatricopeptide repeat domain | 443 | 474 | 1.1E-5 | IPR002885 |
| TIGRFAM | TIGR00756 | PPR: pentatricopeptide repeat domain | 229 | 261 | 1.9E-5 | IPR002885 |
| ProSiteProfiles | PS51375 | Pentatricopeptide (PPR) repeat profile. | 193 | 223 | 8.582755 | IPR002885 |
| ProSiteProfiles | PS51375 | Pentatricopeptide (PPR) repeat profile. | 440 | 474 | 11.180584 | IPR002885 |
| ProSiteProfiles | PS51375 | Pentatricopeptide (PPR) repeat profile. | 227 | 261 | 12.254791 | IPR002885 |
| ProSiteProfiles | PS51375 | Pentatricopeptide (PPR) repeat profile. | 262 | 296 | 9.722731 | IPR002885 |
| ProSiteProfiles | PS51375 | Pentatricopeptide (PPR) repeat profile. | 332 | 367 | 10.818861 | IPR002885 |
| ProSiteProfiles | PS51375 | Pentatricopeptide (PPR) repeat profile. | 297 | 331 | 11.125777 | IPR002885 |
Gene Ontology
Molecular Function:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT3G04130.1 | Tetratricopeptide repeat (TPR)-like superfamily protein. | 0 |
| RefSeq | XP_017218831.1 | PREDICTED: pentatricopeptide repeat-containing protein At3g04130, mitochondrial-like [Daucus carota subsp. sativus] | 0 |
| Q9M8W9 | Pentatricopeptide repeat-containing protein At3g04130, mitochondrial OS=Arabidopsis thaliana OX=3702 GN=At3g04130 PE=2 SV=2 | 0 | |
| TrEMBL | A0A164T1Y6 | Pentatricopeptide repeat-containing protein At3g04130, mitochondrial OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_024082 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 5.655377 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 3.213216 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 2.042751 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 2.458931 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 2.544538 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 3.080935 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 2.198958 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 2.271584 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 5.399429 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 6.398008 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 6.462938 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 6.233424 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 6.451632 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 4.581942 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 0.794979 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 0.880324 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 0.421411 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 1.692181 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 1.625658 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 1.462424 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 1.322543 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 0.825879 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 1.180998 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 1.487156 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 1.186704 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 1.672716 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 1.410202 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 1.878084 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 1.492425 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 0.117289 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 0.358457 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 0.222779 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 0.414557 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 0.418176 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 1.264015 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 0.230928 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 0.049661 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 0.128916 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 1.023323 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 0.739223 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 0.359242 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 0.974578 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 1.091278 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 3.912119 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 2.648224 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 1.243206 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 2.731336 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 2.352116 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 3.715864 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 2.209884 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 2 | jg5752, jg9557 |
| Aizoaceae | Mesembryanthemum crystallinum | 2 | gene_3540, gene_5373 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_6g151540 |
| Amaranthaceae | Salicornia bigelovii | 4 | Sbi_jg26547, Sbi_jg34020, Sbi_jg42730, Sbi_jg45355 |
| Amaranthaceae | Salicornia europaea | 2 | Seu_jg11218, Seu_jg15074 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00002583 |
| Amaranthaceae | Suaeda glauca | 4 | Sgl35089, Sgl40474, Sgl73833, Sgl77335 |
| Amaranthaceae | Chenopodium album | 4 | gene:ENSEOMG00000002884, gene:ENSEOMG00000006357 ... |
| Amaranthaceae | Chenopodium quinoa | 3 | CQ.Regalona.r1.6AG0003540, CQ.Regalona.r1.6BG0003500 ... |
| Anacardiaceae | Pistacia vera | 2 | pistato.v30228080, pistato.v30236350 |
| Apiaceae | Apium graveolens | 2 | Ag1G01844, Ag5G02278 |
| Arecaceae | Cocos nucifera | 3 | COCNU_03G001310, COCNU_03G001330, COCNU_04G007320 |
| Arecaceae | Phoenix dactylifera | 2 | gene-LOC103718091, gene-LOC103718684 |
| Asparagaceae | Asparagus officinalis | 2 | AsparagusV1_03.2689.V1.1, AsparagusV1_08.1881.V1.1 |
| Asteraceae | Flaveria trinervia | 2 | Ftri15G22017, Ftri9G15803 |
| Brassicaceae | Arabidopsis thaliana | 2 | AT3G04130.1, AT3G22670.1 |
| Brassicaceae | Eutrema salsugineum | 2 | Thhalv10020419m.g.v1.0, Thhalv10020548m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 2 | Sp3g03100.v2.2, Sp3g20430.v2.2 |
| Brassicaceae | Brassica nigra | 4 | BniB01g059340.2N, BniB03g024780.2N, BniB07g032460.2N ... |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq07G1278 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl07G1351 |
| Cymodoceaceae | Cymodocea nodosa | 2 | gene.Cymno05g03570, gene.Cymno09g09580 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate03g04160 |
| Nitrariaceae | Nitraria sibirica | 2 | evm.TU.LG03.712, evm.TU.LG11.999 |
| Plantaginaceae | Plantago ovata | 2 | Pov_00021764, Pov_00022238 |
| Plumbaginaceae | Limonium bicolor | 2 | Lb1G00954, Lb1G08048 |
| Poaceae | Echinochloa crus-galli | 4 | BH01.2664, BH01.761, CH01.757, Contig309.108 |
| Poaceae | Eleusine coracana subsp. coracana | 4 | gene-QOZ80_2AG0136490, gene-QOZ80_2BG0192130 ... |
| Poaceae | Hordeum vulgare | 2 | HORVU.MOREX.r3.5HG0510080.1.CDS1 ... |
| Poaceae | Lolium multiflorum | 2 | gene-QYE76_023481, gene-QYE76_061911 |
| Poaceae | Oryza coarctata | 3 | Oco03G014520, Oco04G014970, Oco06G024280 |
| Poaceae | Oryza sativa | 1 | LOC_Os02g38950.1 |
| Poaceae | Paspalum vaginatum | 2 | gene-BS78_01G083600, gene-BS78_04G186700 |
| Poaceae | Sporobolus alterniflorus | 4 | Chr01G005430, Chr09G012410, Chr12G037810, Chr13G008330 |
| Poaceae | Thinopyrum elongatum | 1 | Tel6E01G415700 |
| Poaceae | Triticum dicoccoides | 4 | gene_TRIDC5AG056230, gene_TRIDC5BG060280 ... |
| Poaceae | Triticum aestivum | 6 | TraesCS5A02G384400.1.cds1, TraesCS5B02G389200.1.cds1 ... |
| Poaceae | Zea mays | 2 | Zm00001eb057030_P001, Zm00001eb246390_P001 |
| Poaceae | Zoysia japonica | 1 | nbis-gene-23463 |
| Poaceae | Zoysia macrostachya | 2 | Zma_g13832, Zma_g494 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG02.2560, evm.TU.LG13.94 |
| Posidoniaceae | Posidonia oceanica | 3 | gene.Posoc01g07610, gene.Posoc04g01610, gene.Posoc05g00670 |
| Rhizophoraceae | Bruguiera sexangula | 2 | evm.TU.Scaffold_17_RagTag.159, evm.TU.Scaffold_6_RagTag.775 |
| Rhizophoraceae | Carallia pectinifolia | 2 | nbisL1-mrna-15921, nbisL1-mrna-23199 |
| Rhizophoraceae | Ceriops tagal | 2 | nbisL1-mrna-16773, nbisL1-mrna-9301 |
| Rhizophoraceae | Ceriops zippeliana | 2 | nbisL1-mrna-14672, nbisL1-mrna-649 |
| Rhizophoraceae | Kandelia candel | 2 | add.evm.TU.utg000011l.190, add.evm.TU.utg000013l.29 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00006512 |
| Rhizophoraceae | Rhizophora apiculata | 2 | nbisL1-mrna-19530, nbisL1-mrna-22921 |
| Rhizophoraceae | Rhizophora mangle | 2 | nbisL1-mrna-15954, nbisL1-mrna-3499 |
| Salicaceae | Populus euphratica | 5 | populus_peu07647, populus_peu21418, populus_peu21419 ... |
| Solanaceae | Lycium barbarum | 2 | gene-LOC132609668, gene-LOC132641233 |
| Solanaceae | Solanum chilense | 2 | SOLCI004820900, SOLCI007024500 |
| Solanaceae | Solanum pennellii | 2 | gene-LOC107020744, gene-LOC107031368 |
| Tamaricaceae | Reaumuria soongarica | 2 | STRG.19726_chr07_+, gene_15533 |
| Tamaricaceae | Tamarix chinensis | 2 | TC04G0518, TC09G0412 |
| Zosteraceae | Zostera marina | 3 | Zosma01g34550.v3.1, Zosma01g40775.v3.1, Zosma04g00720.v3.1 |