Basic Information
Locus ID:
Ag8G01444
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Short Name:
MSH1
Description:
DNA mismatch repair protein
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr8 | 198253715 | 198277149 | - | Ag8G01444 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 6.95 | 127,084.70 Da | 44.54 | 92.49 | -0.14 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd03243 | ABC_MutS_homologs | 754 | 937 | 2.03039E-71 | - |
| Pfam | PF00488 | MutS domain V | 768 | 950 | 5.2E-38 | IPR000432 |
| Pfam | PF01624 | MutS domain I | 133 | 231 | 2.4E-11 | IPR007695 |
| SUPERFAMILY | SSF55271 | DNA repair protein MutS, domain I | 120 | 230 | 6.8E-20 | IPR016151 |
| SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 755 | 950 | 1.08E-31 | IPR027417 |
| SUPERFAMILY | SSF82771 | GIY-YIG endonuclease | 1054 | 1115 | 9.81E-6 | IPR035901 |
| Gene3D | G3DSA:3.40.50.300 | - | 737 | 1033 | 4.6E-61 | IPR027417 |
| Gene3D | G3DSA:3.40.1170.10 | DNA repair protein MutS, domain I | 125 | 229 | 2.6E-17 | IPR016151 |
| SMART | SM00534 | mutATP5 | 764 | 950 | 9.5E-45 | IPR000432 |
| ProSitePatterns | PS00486 | DNA mismatch repair proteins mutS family signature. | 845 | 861 | - | IPR000432 |
Gene Ontology
Biological Process:
Molecular Function:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT3G24320.1 | MUTL protein homolog 1. Promotes re-arrangements of mitochondrial genome. Mutations affects mitochondrial gene expression, and impairs mitochondrial function. Dual targeting of the protein to mitochondria and chloroplasts caused by alternative translation initiation. | 0 |
| RefSeq | XP_017222920.1 | PREDICTED: DNA mismatch repair protein MSH1, mitochondrial [Daucus carota subsp. sativus] | 0 |
| Q84LK0 | DNA mismatch repair protein MSH1, mitochondrial OS=Arabidopsis thaliana OX=3702 GN=MSH1 PE=1 SV=1 | 0 | |
| TrEMBL | A0A2R6S0L6 | DNA mismatch repair protein OS=Actinidia chinensis var. chinensis OX=1590841 GN=CEY00_Acc00325 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 6.230116 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 5.871998 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 3.9615 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 5.665229 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 5.429051 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 6.080578 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 4.155886 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 4.104862 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 14.589415 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 13.652784 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 15.299547 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 14.056826 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 14.284221 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 11.811494 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 3.729771 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 3.505726 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 4.308049 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 4.724263 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 5.130745 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 4.933764 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 6.099735 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 4.278459 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 5.038 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 4.348437 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 4.531583 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 9.257453 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 6.544547 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 7.219793 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 6.183652 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 1.164567 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 2.639717 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 1.886899 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 5.366498 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 4.681767 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 4.955421 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 3.577017 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 0.826539 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 1.395309 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 12.803904 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 8.585608 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 6.257288 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 2.995785 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 2.878889 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 7.769489 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 7.706564 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 3.034224 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 7.446537 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 8.760445 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 8.409081 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 9.882429 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 1 | jg27726 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_21425 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah010418 |
| Amaranthaceae | Beta vulgaris | 2 | BVRB_4g089360, BVRB_9g219000 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg11637, Sbi_jg46762 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg20891 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00005122 |
| Amaranthaceae | Suaeda glauca | 6 | Sgl56345, Sgl56346, Sgl60571, Sgl61179, Sgl61875, Sgl61876 |
| Amaranthaceae | Chenopodium album | 6 | gene:ENSEOMG00000016398, gene:ENSEOMG00000017639 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.7BG0009140, CQ.Regalona.r1.9AG0015380 |
| Apiaceae | Apium graveolens | 1 | Ag8G01444 |
| Arecaceae | Cocos nucifera | 1 | COCNU_07G009240 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103721294 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_10.1864.V1.1 |
| Asteraceae | Flaveria trinervia | 2 | Ftri12G29827, Ftri6G09752 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT3G24320.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10002376m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp3g22130.v2.2 |
| Brassicaceae | Brassica nigra | 1 | BniB01g036840.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq07G1231 |
| Casuarinaceae | Casuarina glauca | 2 | Cgl07G1296, Cgl07G1307 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno14g03240 |
| Dunaliellaceae | Dunaliella salina | 2 | Dusal.0021s00015.v1.0, Dusal.0461s00001.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate03g07310 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG11.685 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00025386 |
| Plumbaginaceae | Limonium bicolor | 7 | Lb3G17568, Lb3G18607, Lb4G26343, Lb6G30570, Lb6G30572 ... |
| Poaceae | Echinochloa crus-galli | 2 | BH09.1691, CH09.1814 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_4AG0311380, gene-QOZ80_4BG0342630 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.2HG0180240.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_045001 |
| Poaceae | Oryza coarctata | 2 | Oco07G010210, Oco08G010020 |
| Poaceae | Oryza sativa | 1 | LOC_Os04g42784.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_06G153400 |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0301958, Pt_Chr0302177 |
| Poaceae | Sporobolus alterniflorus | 2 | Chr23G009240, Chr26G010450 |
| Poaceae | Thinopyrum elongatum | 1 | Tel2E01G630700 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC2AG052470, gene_TRIDC2BG055520 |
| Poaceae | Triticum aestivum | 3 | TraesCS2A02G362100.1, TraesCS2B02G379900.1 ... |
| Poaceae | Zea mays | 1 | Zm00001eb426210_P004 |
| Poaceae | Zoysia japonica | 1 | nbis-gene-37026 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g20013 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG07.1808, evm.TU.LG15.1361 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc06g02180 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_6_RagTag.919 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-15760 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-21119 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-788 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000011l.575 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00007395 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-15188 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-4314 |
| Salicaceae | Populus euphratica | 1 | populus_peu21608 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132609632 |
| Solanaceae | Solanum chilense | 1 | SOLCI000596500 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107031051 |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_10166 |
| Tamaricaceae | Tamarix chinensis | 1 | TC08G2285 |
| Zosteraceae | Zostera marina | 1 | Zosma05g18590.v3.1 |