Basic Information
Locus ID:
Ag10G02231
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 |
|---|---|---|---|---|
| chr10 | 220244047 | 220248876 | - | Ag10G02231 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 8.36 | 96,095.63 Da | 38.34 | 93.57 | -0.26 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd18793 | SF2_C_SNF | 687 | 816 | 1.0079E-52 | - |
| Pfam | PF00271 | Helicase conserved C-terminal domain | 689 | 805 | 2.6E-14 | IPR001650 |
| Pfam | PF00176 | SNF2 family N-terminal domain | 195 | 579 | 4.8E-71 | IPR000330 |
| Pfam | PF08797 | HIRAN domain | 26 | 116 | 2.0E-19 | IPR014905 |
| Pfam | PF13920 | Zinc finger, C3HC4 type (RING finger) | 618 | 664 | 4.6E-7 | - |
| SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 176 | 510 | 2.34E-39 | IPR027417 |
| SUPERFAMILY | SSF57850 | RING/U-box | 609 | 673 | 1.43E-14 | - |
| SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 511 | 861 | 4.14E-57 | IPR027417 |
| Gene3D | G3DSA:3.40.50.300 | - | 520 | 863 | 5.2E-65 | IPR027417 |
| Gene3D | G3DSA:3.30.70.2330 | - | 17 | 138 | 6.7E-32 | - |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 599 | 682 | 4.0E-14 | IPR013083 |
| Gene3D | G3DSA:3.40.50.10810 | - | 334 | 511 | 5.0E-43 | IPR038718 |
| Gene3D | G3DSA:3.40.50.10810 | - | 166 | 273 | 1.1E-6 | IPR038718 |
| SMART | SM00910 | HIRAN_2 | 25 | 121 | 1.1E-19 | IPR014905 |
| SMART | SM00184 | ring_2 | 621 | 659 | 0.0076 | IPR001841 |
| SMART | SM00490 | helicmild6 | 720 | 805 | 4.2E-16 | IPR001650 |
| SMART | SM00487 | ultradead3 | 188 | 486 | 3.6E-16 | IPR014001 |
| ProSiteProfiles | PS51192 | Superfamilies 1 and 2 helicase ATP-binding type-1 domain profile. | 348 | 472 | 14.275236 | IPR014001 |
| ProSiteProfiles | PS51194 | Superfamilies 1 and 2 helicase C-terminal domain profile. | 692 | 858 | 15.40368 | IPR001650 |
| ProSiteProfiles | PS50089 | Zinc finger RING-type profile. | 621 | 660 | 11.633604 | IPR001841 |
| ProSitePatterns | PS00518 | Zinc finger RING-type signature. | 636 | 645 | - | IPR017907 |
| Coils | Coil | Coil | 818 | 838 | - | - |
Gene Ontology
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT5G05130.1 | DNA/RNA helicase protein. | 0 |
| RefSeq | XP_017255170.1 | PREDICTED: putative SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A member 3-like 1 [Daucus carota subsp. sativus] | 0 |
| Q9FF61 | Putative SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A member 3-like 1 OS=Arabidopsis thaliana OX=3702 GN=At5g05130 PE=2 SV=1 | 0 | |
| TrEMBL | A0A5B7BKV5 | SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A member 3-like 1 OS=Davidia involucrata OX=16924 GN=Din_037244 PE=3 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 2.225835 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 1.080892 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 1.267824 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 1.911884 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 1.605915 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 2.498729 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 1.964709 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 2.569386 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 4.549408 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 4.581882 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 4.278051 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 6.537563 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 4.174276 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 4.688922 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 0.340546 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 0.421244 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 0.723783 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 1.284808 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 1.048173 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 1.336942 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 1.999663 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 2.809472 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 1.117216 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 1.936713 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 1.575352 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 1.37093 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 0.966139 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 1.52361 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 1.257405 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 0.991387 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 1.607154 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 1.060006 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 3.928161 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 4.233795 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 4.889984 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 1.898269 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 2.150663 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 1.659609 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 3.272501 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 1.123397 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 0.96394 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 2.768032 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 1.623389 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 1.659177 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 2.311742 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 1.686807 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 2.041064 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 4.093168 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 6.055686 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 4.806974 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 1 | jg31387 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_4566 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah022205 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_3g063240 |
| Amaranthaceae | Salicornia bigelovii | 1 | Sbi_jg63716 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg23178 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00012972 |
| Amaranthaceae | Suaeda glauca | 4 | Sgl02298, Sgl02304, Sgl07446, Sgl07450 |
| Amaranthaceae | Chenopodium album | 2 | gene:ENSEOMG00000012316, gene:ENSEOMG00000047017 |
| Amaranthaceae | Chenopodium quinoa | 4 | CQ.Regalona.r1.3AG0023210, CQ.Regalona.r1.3AG0023220 ... |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30189710 |
| Apiaceae | Apium graveolens | 2 | Ag10G02231, Ag4G01452 |
| Arecaceae | Cocos nucifera | 1 | COCNU_01G016480 |
| Arecaceae | Phoenix dactylifera | 2 | gene-LOC103713263, gene-LOC120107110 |
| Asparagaceae | Asparagus officinalis | 2 | AsparagusV1_07.1907.V1.1, AsparagusV1_07.3185.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri11G04952 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT5G05130.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10012664m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp6g37710.v2.2 |
| Brassicaceae | Brassica nigra | 2 | BniB02g055500.2N, BniB03g050740.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq04G0876 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl04G0993 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno05g14450 |
| Dunaliellaceae | Dunaliella salina | 1 | Dusal.0160s00016.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate06g04990 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG01.2647 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00017579 |
| Plumbaginaceae | Limonium bicolor | 2 | Lb1G07303, Lb5G28457 |
| Poaceae | Echinochloa crus-galli | 3 | AH03.3870, BH03.4156, CH07.359 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_7AG0579280, gene-QOZ80_7BG0610510 |
| Poaceae | Hordeum vulgare | 3 | HORVU.MOREX.r3.1HG0044910.1.CDS1 ... |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_039282 |
| Poaceae | Oryza coarctata | 2 | Oco13G014090, Oco14G014910 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_02G369000 |
| Poaceae | Puccinellia tenuiflora | 1 | Pt_Chr0304873 |
| Poaceae | Sporobolus alterniflorus | 3 | Chr24G013780, Chr27G016090, Chr28G012950 |
| Poaceae | Thinopyrum elongatum | 1 | Tel2E01G294300 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC2AG018140, gene_TRIDC2BG021920 |
| Poaceae | Triticum aestivum | 3 | TraesCS2A02G145200.1, TraesCS2B02G170200.1 ... |
| Poaceae | Zea mays | 1 | Zm00001eb329060_P003 |
| Poaceae | Zoysia japonica | 1 | nbis-gene-240 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g6957 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG13.1344, evm.TU.LG21.986 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc01g30290 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_8_RagTag.199 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-10130 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-19292 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-17826 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000018l.868 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00003541 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-3138 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-11402 |
| Salicaceae | Populus euphratica | 4 | populus_peu10804, populus_peu26297, populus_peu26298 ... |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132636037 |
| Solanaceae | Solanum chilense | 1 | SOLCI006432700 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107005588 |
| Tamaricaceae | Reaumuria soongarica | 1 | STRG.21099_chr08_- |
| Tamaricaceae | Tamarix chinensis | 1 | TC12G2000 |
| Zosteraceae | Zostera marina | 1 | Zosma03g19720.v3.1 |