Basic Information
Locus ID:
Ag11G04353
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
SWI SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A member 3-like
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr11 | 168973344 | 168983990 | - | Ag11G04353 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 7.21 | 117,932.22 Da | 44.72 | 85.82 | -0.29 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd18793 | SF2_C_SNF | 894 | 1021 | 8.09225E-59 | - |
| CDD | cd16449 | RING-HC | 828 | 867 | 7.4791E-14 | - |
| CDD | cd18008 | DEXDc_SHPRH-like | 386 | 694 | 9.54312E-101 | - |
| Pfam | PF13920 | Zinc finger, C3HC4 type (RING finger) | 825 | 873 | 9.8E-10 | - |
| Pfam | PF00176 | SNF2 family N-terminal domain | 389 | 773 | 3.0E-84 | IPR000330 |
| Pfam | PF08797 | HIRAN domain | 157 | 261 | 6.5E-14 | IPR014905 |
| Pfam | PF00271 | Helicase conserved C-terminal domain | 898 | 1010 | 2.7E-16 | IPR001650 |
| SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 707 | 1049 | 1.09E-58 | IPR027417 |
| SUPERFAMILY | SSF57850 | RING/U-box | 814 | 874 | 5.65E-16 | - |
| SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 374 | 694 | 2.17E-52 | IPR027417 |
| Gene3D | G3DSA:3.40.50.300 | - | 710 | 1058 | 1.3E-68 | IPR027417 |
| Gene3D | G3DSA:3.40.50.10810 | - | 443 | 705 | 3.3E-54 | IPR038718 |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 794 | 891 | 1.3E-16 | IPR013083 |
| SMART | SM00487 | ultradead3 | 382 | 678 | 8.1E-31 | IPR014001 |
| SMART | SM00910 | HIRAN_2 | 156 | 265 | 1.2E-15 | IPR014905 |
| SMART | SM00490 | helicmild6 | 927 | 1010 | 1.1E-17 | IPR001650 |
| SMART | SM00184 | ring_2 | 828 | 867 | 8.9E-9 | IPR001841 |
| ProSiteProfiles | PS50089 | Zinc finger RING-type profile. | 828 | 868 | 12.784338 | IPR001841 |
| ProSiteProfiles | PS51192 | Superfamilies 1 and 2 helicase ATP-binding type-1 domain profile. | 444 | 656 | 19.160545 | IPR014001 |
| ProSiteProfiles | PS51194 | Superfamilies 1 and 2 helicase C-terminal domain profile. | 898 | 1058 | 14.99039 | IPR001650 |
| ProSitePatterns | PS00518 | Zinc finger RING-type signature. | 843 | 852 | - | IPR017907 |
Gene Ontology
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT5G22750.1 | DNA/RNA helicase protein. DNA repair gene. gamma-radiation hypersensitive (RAD5) involved in stable transformation and T-DNA transfer | 0 |
| RefSeq | XP_017236672.1 | PREDICTED: putative SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A member 3-like 2 [Daucus carota subsp. sativus] | 0 |
| Q9FNI6 | DNA repair protein RAD5A OS=Arabidopsis thaliana OX=3702 GN=RAD5A PE=1 SV=1 | 0 | |
| TrEMBL | A0A166DIM4 | SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A member 3-like 2 OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_006143 PE=3 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 4.982467 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 5.476166 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 3.174967 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 3.679834 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 3.817594 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 3.023845 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 4.093363 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 4.502869 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 12.230332 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 11.590407 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 12.480361 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 13.58039 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 10.8347 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 9.17484 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 1.991501 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 3.100325 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 2.03078 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 6.059699 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 3.604876 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 4.734464 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 5.7142 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 5.675241 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 4.98223 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 4.212576 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 5.315241 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 5.633419 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 4.692356 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 5.030698 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 6.177554 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 0.610192 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 0.657079 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 0.432501 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 2.223843 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 2.136967 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 1.18843 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 1.389189 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 0.584258 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 0.553693 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 3.361867 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 1.468516 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 1.618347 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 12.596309 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 8.165509 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 9.349415 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 9.323042 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 7.590885 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 8.431003 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 8.517977 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 8.174147 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 7.249014 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 2 | jg12680, jg37578 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_26046 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah011488 |
| Amaranthaceae | Beta vulgaris | 2 | BVRB_2g027880, BVRB_9g210900 |
| Amaranthaceae | Salicornia bigelovii | 4 | Sbi_jg11904, Sbi_jg29552, Sbi_jg46848, Sbi_jg46849 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg21145 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00009472 |
| Amaranthaceae | Suaeda glauca | 4 | Sgl80320, Sgl80324, Sgl82779, Sgl82787 |
| Amaranthaceae | Chenopodium album | 2 | gene:ENSEOMG00000017001, gene:ENSEOMG00000039893 |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.9AG0010630, CQ.Regalona.r1.9BG0011800 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30057260 |
| Apiaceae | Apium graveolens | 2 | Ag11G04353, Ag8G01493 |
| Arecaceae | Cocos nucifera | 2 | COCNU_02G009490, COCNU_07G010310 |
| Arecaceae | Phoenix dactylifera | 2 | gene-LOC103723832, gene-LOC120103925 |
| Asparagaceae | Asparagus officinalis | 3 | AsparagusV1_03.1582.V1.1, AsparagusV1_04.1812.V1.1 ... |
| Asteraceae | Flaveria trinervia | 2 | Ftri2G27081, Ftri7G30610 |
| Brassicaceae | Arabidopsis thaliana | 2 | AT5G22750.1, AT5G43530.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10012547m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp6g22670.v2.2 |
| Brassicaceae | Brassica nigra | 2 | BniB02g060930.2N, BniB08g011360.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq05G1716 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl05G1718 |
| Cymodoceaceae | Cymodocea nodosa | 2 | gene.Cymno08g08900, gene.Cymno10g09730 |
| Hydrocharitaceae | Thalassia testudinum | 2 | gene.Thate02g16530, gene.Thate08g15910 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG09.773 |
| Plantaginaceae | Plantago ovata | 2 | Pov_00015868, Pov_00025474 |
| Plumbaginaceae | Limonium bicolor | 4 | Lb2G10487, Lb3G19588, Lb3G19592, Lb3G19593 |
| Poaceae | Echinochloa crus-galli | 6 | AH07.2015, AH09.343, BH07.1980, BH09.417, CH07.1835 ... |
| Poaceae | Eleusine coracana subsp. coracana | 5 | gene-QOZ80_2AG0132610, gene-QOZ80_2BG0188000 ... |
| Poaceae | Hordeum vulgare | 2 | HORVU.MOREX.r3.2HG0103780.1, HORVU.MOREX.r3.6HG0559070.1 |
| Poaceae | Lolium multiflorum | 2 | gene-QYE76_022658, gene-QYE76_032802 |
| Poaceae | Oryza coarctata | 3 | Oco03G011410, Oco04G011820, Oco08G001430 |
| Poaceae | Paspalum vaginatum | 2 | gene-BS78_04G149100, gene-BS78_06G039700 |
| Poaceae | Puccinellia tenuiflora | 3 | Pt_Chr0200888, Pt_Chr0402389, Pt_Chr0402391 |
| Poaceae | Sporobolus alterniflorus | 7 | Chr06G010750, Chr09G015400, Chr13G011320, Chr15G012340 ... |
| Poaceae | Thinopyrum elongatum | 5 | Tel2E01G161800, Tel2E01G482200, Tel2E01G482400 ... |
| Poaceae | Triticum dicoccoides | 4 | gene_TRIDC2AG008140, gene_TRIDC2BG009670 ... |
| Poaceae | Triticum aestivum | 6 | TraesCS2A02G072700.1, TraesCS2B02G086700.1 ... |
| Poaceae | Zea mays | 6 | Zm00001eb176980_P001, Zm00001eb181290_P001 ... |
| Poaceae | Zoysia japonica | 2 | nbis-gene-20844, nbis-gene-32198 |
| Poaceae | Zoysia macrostachya | 2 | Zma_g13607, Zma_g20980 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG07.1570, evm.TU.LG15.1558 |
| Posidoniaceae | Posidonia oceanica | 2 | gene.Posoc05g23090, gene.Posoc06g09790 |
| Rhizophoraceae | Bruguiera sexangula | 3 | evm.TU.Scaffold_13_RagTag.450, evm.TU.Scaffold_3_RagTag.1255 ... |
| Rhizophoraceae | Carallia pectinifolia | 2 | nbisL1-mrna-1579, nbisL1-mrna-30673 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-3072 |
| Rhizophoraceae | Ceriops zippeliana | 2 | nbisL1-mrna-22079, nbisL1-mrna-2512 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000015l.255 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00015843 |
| Rhizophoraceae | Rhizophora apiculata | 3 | nbisL1-mrna-4142, nbisL1-mrna-6225, nbisL1-mrna-6226 |
| Rhizophoraceae | Rhizophora mangle | 2 | nbisL1-mrna-1952, nbisL1-mrna-22181 |
| Salicaceae | Populus euphratica | 3 | populus_peu08553, populus_peu21518, populus_peu33950 |
| Solanaceae | Lycium barbarum | 2 | gene-LOC132600517, gene-LOC132617999 |
| Solanaceae | Solanum chilense | 1 | SOLCI004834700 |
| Solanaceae | Solanum pennellii | 2 | gene-LOC107002900, gene-LOC107012600 |
| Tamaricaceae | Reaumuria soongarica | 2 | gene_4212, gene_9526 |
| Tamaricaceae | Tamarix chinensis | 1 | TC03G1862 |
| Zosteraceae | Zostera marina | 1 | Zosma05g30940.v3.1 |