Basic Information
Locus ID:
Ag11G04930
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 |
|---|---|---|---|---|
| chr11 | 203489354 | 203491671 | - | Ag11G04930 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 8.07 | 66,523.46 Da | 27.82 | 87.10 | 0.03 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF01535 | PPR repeat | 97 | 124 | 0.0074 | IPR002885 |
| Pfam | PF01535 | PPR repeat | 194 | 222 | 0.36 | IPR002885 |
| Pfam | PF01535 | PPR repeat | 293 | 322 | 7.4E-6 | IPR002885 |
| Pfam | PF01535 | PPR repeat | 467 | 488 | 0.14 | IPR002885 |
| Pfam | PF01535 | PPR repeat | 394 | 423 | 2.7E-5 | IPR002885 |
| Pfam | PF01535 | PPR repeat | 365 | 387 | 0.024 | IPR002885 |
| Pfam | PF01535 | PPR repeat | 265 | 292 | 0.072 | IPR002885 |
| Pfam | PF13041 | PPR repeat family | 494 | 542 | 1.5E-10 | IPR002885 |
| Gene3D | G3DSA:1.25.40.10 | Tetratricopeptide repeat domain | 28 | 162 | 2.1E-12 | IPR011990 |
| Gene3D | G3DSA:1.25.40.10 | Tetratricopeptide repeat domain | 454 | 576 | 3.3E-21 | IPR011990 |
| Gene3D | G3DSA:1.25.40.10 | Tetratricopeptide repeat domain | 177 | 255 | 2.9E-6 | IPR011990 |
| Gene3D | G3DSA:1.25.40.10 | Tetratricopeptide repeat domain | 329 | 453 | 1.0E-17 | IPR011990 |
| TIGRFAM | TIGR00756 | PPR: pentatricopeptide repeat domain | 293 | 326 | 1.3E-4 | IPR002885 |
| TIGRFAM | TIGR00756 | PPR: pentatricopeptide repeat domain | 394 | 427 | 4.0E-6 | IPR002885 |
| TIGRFAM | TIGR00756 | PPR: pentatricopeptide repeat domain | 96 | 130 | 2.1E-5 | IPR002885 |
| TIGRFAM | TIGR00756 | PPR: pentatricopeptide repeat domain | 498 | 530 | 5.7E-6 | IPR002885 |
| TIGRFAM | TIGR00756 | PPR: pentatricopeptide repeat domain | 532 | 561 | 4.8E-4 | IPR002885 |
| ProSiteProfiles | PS51375 | Pentatricopeptide (PPR) repeat profile. | 392 | 426 | 9.45966 | IPR002885 |
| ProSiteProfiles | PS51375 | Pentatricopeptide (PPR) repeat profile. | 291 | 325 | 9.788499 | IPR002885 |
| ProSiteProfiles | PS51375 | Pentatricopeptide (PPR) repeat profile. | 190 | 224 | 8.527949 | IPR002885 |
| ProSiteProfiles | PS51375 | Pentatricopeptide (PPR) repeat profile. | 530 | 564 | 8.988323 | IPR002885 |
| ProSiteProfiles | PS51375 | Pentatricopeptide (PPR) repeat profile. | 94 | 128 | 9.788499 | IPR002885 |
| ProSiteProfiles | PS51375 | Pentatricopeptide (PPR) repeat profile. | 495 | 529 | 11.169622 | IPR002885 |
Gene Ontology
Molecular Function:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT1G11290.1 | Pentatricopeptide repeat (PPR) superfamily protein. Pentatricopeptide Repeat Protein containing the DYW motif. Required for editing of multiple plastid transcripts. Endonuclease activity. | 0 |
| RefSeq | XP_017234168.1 | PREDICTED: pentatricopeptide repeat-containing protein At4g19191, mitochondrial-like [Daucus carota subsp. sativus] | 0 |
| Q3E6Q1 | Pentatricopeptide repeat-containing protein At1g11290, chloroplastic OS=Arabidopsis thaliana OX=3702 GN=PCMP-H40 PE=2 SV=1 | 0 | |
| TrEMBL | A0A166DVC8 | DYW_deaminase domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_006567 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 0.265386 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 0 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 0 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 0.18014 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 0 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 0.19592 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 0.103831 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 0.281047 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 0.210488 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 0.221224 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 0.447462 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 0.556146 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 0.292607 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 0.142805 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 0.023653 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 0 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 0.136022 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 0 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 0.015057 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 0 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 0 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 0.423243 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 0.308248 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 0.339344 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 0.483222 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 0.214614 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 0.13733 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 0.365677 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 0.107824 | 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 | 0.095191 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 0.104463 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 0 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 0.427885 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 0.306771 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 0.037205 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 0 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 0.055307 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 0.204607 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 0 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 0 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 0.100845 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 0.132935 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 0.510025 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 0.329651 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 0.172103 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 0.074098 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 0.329945 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 0.555062 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 1.03145 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Amaranthaceae | Atriplex hortensis | 1 | Ah009743 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_9g214720 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg12129, Sbi_jg47069 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg21351 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00020368 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl61527, Sgl61549 |
| Amaranthaceae | Chenopodium album | 1 | gene:ENSEOMG00000040006 |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.7BG0003540, CQ.Regalona.r1.9AG0021020 |
| Apiaceae | Apium graveolens | 1 | Ag11G04930 |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq03G0007 |
| Nitrariaceae | Nitraria sibirica | 2 | evm.TU.LG02.1072, evm.TU.LG12.90 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG08.1195, evm.TU.LG22.952 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc03g16620 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_14_RagTag.926 |
| Rhizophoraceae | Carallia pectinifolia | 2 | nbisL1-mrna-16686, nbisL1-mrna-16759 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-10433 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-17232 |
| Rhizophoraceae | Kandelia candel | 1 | add.evm.TU.utg000025l.48 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00012187 |
| Rhizophoraceae | Rhizophora apiculata | 4 | nbisL1-mrna-20187, nbisL1-mrna-20188, nbisL1-mrna-20591 ... |
| Rhizophoraceae | Rhizophora mangle | 4 | nbisL1-mrna-9137, nbisL1-mrna-9139, nbisL1-mrna-9140 ... |
| Tamaricaceae | Tamarix chinensis | 1 | TC06G1063 |
| Zosteraceae | Zostera marina | 3 | Zosma03g32740.v3.1, Zosma03g32750.v3.1, Zosma03g32810.v3.1 |