Basic Information
Locus ID:
Ag3G00792
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Short Name:
MSI1
Description:
msi1, mee70, atmsi1 msi1 (multicopy supressor of ira1)
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr3 | 25622214 | 25626616 | + | Ag3G00792 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 5.01 | 46,475.28 Da | 53.24 | 80.02 | -0.51 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF00400 | WD domain, G-beta repeat | 253 | 290 | 1.5E-6 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 355 | 390 | 0.009 | IPR001680 |
| Pfam | PF12265 | Histone-binding protein RBBP4 or subunit C of CAF1 complex | 19 | 81 | 1.3E-25 | IPR022052 |
| Pfam | PF00400 | WD domain, G-beta repeat | 162 | 195 | 0.2 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 208 | 244 | 0.011 | IPR001680 |
| SUPERFAMILY | SSF50978 | WD40 repeat-like | 104 | 394 | 1.35E-49 | IPR036322 |
| Gene3D | G3DSA:2.130.10.10 | - | 2 | 410 | 1.3E-141 | IPR015943 |
| SMART | SM00320 | WD40_4 | 103 | 142 | 11.0 | IPR001680 |
| SMART | SM00320 | WD40_4 | 294 | 334 | 0.0016 | IPR001680 |
| SMART | SM00320 | WD40_4 | 155 | 195 | 7.9E-4 | IPR001680 |
| SMART | SM00320 | WD40_4 | 351 | 391 | 0.0027 | IPR001680 |
| SMART | SM00320 | WD40_4 | 250 | 290 | 1.0E-7 | IPR001680 |
| SMART | SM00320 | WD40_4 | 204 | 244 | 1.7E-4 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 162 | 197 | 10.842632 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 257 | 292 | 9.177421 | - |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 257 | 292 | 10.942887 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 358 | 392 | 9.03805 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 211 | 246 | 9.40565 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 162 | 197 | 9.09833 | - |
| ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 182 | 196 | - | IPR019775 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 378 | 392 | 4.1E-6 | IPR020472 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 182 | 196 | 4.1E-6 | IPR020472 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 277 | 291 | 4.1E-6 | IPR020472 |
Gene Ontology
Molecular Function:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT5G58230.1 | Transducin/WD40 repeat-like superfamily protein. Encodes a WD-40 repeat containing protein that functions in chromatin assembly as part of the CAF1 and FIE complex. Mutants exhibit parthenogenetic development that includes proliferation of unfertilized endosperm and embryos. In heterozygous plants 50% of embryos abort. Of the aborted embryos the early aborted class are homozygous and the later aborting lass are heterozygotes in which the defective allele is maternally transmitted. Other phenotypes include defects in ovule morphogenesis and organ initiation,as well as increased levels of heterochromatic DNA. MSI1 is needed for the transition to flowering. In Arabidopsis, the three CAF-1 subunits are encoded by FAS1, FAS2 and, most likely, MSI1, respectively. Mutations in FAS1 or FAS2 lead to increased frequency of homologous recombination and T-DNA integration in Arabidopsis. In the ovule, the MSI1 transcripts are accumulated at their highest level before fertilization and gradually decrease after fertilization. MSI is biallelically expressed, the paternall allele is expressed in the endosperm and embryo and is not imprinted. MSI1 forms a complex with RBR1 that is required for activation of the imprinted genes FIS2 and FWA. This activation is mediated by MSI1/RBR1 mediated repression of MET1. | 0 |
| RefSeq | XP_017243867.1 | PREDICTED: WD-40 repeat-containing protein MSI1-like [Daucus carota subsp. sativus] | 0 |
| O22466 | Histone-binding protein MSI1 OS=Solanum lycopersicum OX=4081 GN=MSI1 PE=2 SV=1 | 0 | |
| TrEMBL | A0A165XXS6 | CAF1C_H4-bd domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_013994 PE=3 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 34.629082 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 17.789135 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 13.199292 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 12.598959 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 13.561733 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 9.891995 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 10.29079 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 7.774532 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 38.039696 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 38.569336 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 40.504608 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 42.460556 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 39.189697 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 38.758678 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 11.47388 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 12.785686 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 12.266344 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 16.713417 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 14.149238 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 16.843096 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 14.611976 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 18.97559 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 18.403839 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 19.244579 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 23.436422 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 14.136656 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 17.547512 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 14.611721 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 15.228997 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 4.167192 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 4.929777 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 4.471857 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 8.295063 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 14.961222 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 8.904495 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 4.337876 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 3.303105 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 3.700544 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 19.099693 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 11.834979 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 8.363067 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 24.854876 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 14.901772 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 11.555467 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 11.771568 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 30.276079 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 9.942185 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 41.724316 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 33.725468 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 36.047268 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology