Basic Information
Locus ID:
Ag4G00826
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
RING/Ubox like zinc-binding domain
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr4 | 79814800 | 79817405 | - | Ag4G00826 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 6.61 | 35,052.92 Da | 71.91 | 69.07 | -0.73 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd16618 | mRING-HC-C4C4_CNOT4 | 239 | 282 | 1.05494E-20 | IPR039515 |
| Pfam | PF14570 | RING/Ubox like zinc-binding domain | 239 | 285 | 2.3E-17 | - |
| SUPERFAMILY | SSF57850 | RING/U-box | 235 | 286 | 4.86E-13 | - |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 231 | 292 | 5.2E-17 | IPR013083 |
| ProSiteProfiles | PS50089 | Zinc finger RING-type profile. | 239 | 281 | 9.877997 | IPR001841 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 145 | 177 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 152 | 175 | - | - |
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT3G48070.1 | RING/U-box superfamily protein. | 0 |
| RefSeq | XP_017241491.1 | PREDICTED: uncharacterized protein LOC108214170 [Daucus carota subsp. sativus] | 0 |
| TrEMBL | A0A166B6W7 | RING-type domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_011184 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 11.242126 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 12.806662 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 12.185026 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 10.574667 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 11.289538 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 16.621475 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 15.556376 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 15.05656 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 11.792641 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 10.335705 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 13.289095 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 17.716101 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 11.964886 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 13.58458 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 8.719089 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 7.092157 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 9.037058 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 6.524983 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 8.703707 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 8.615804 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 7.419537 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 7.973924 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 8.452313 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 7.506522 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 7.654003 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 7.938978 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 8.259702 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 9.102334 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 8.138491 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 18.15584 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 12.889227 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 9.773031 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 14.281646 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 31.936031 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 11.854609 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 17.778475 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 19.141653 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 15.831496 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 28.854475 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 13.524482 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 14.441086 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 10.607911 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 16.112932 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 21.936121 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 22.76598 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 10.793376 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 21.919292 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 15.122268 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 27.651659 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 32.566921 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 3 | jg13069, jg18673, jg25811 |
| Aizoaceae | Mesembryanthemum crystallinum | 2 | gene_13728, gene_16578 |
| Amaranthaceae | Atriplex hortensis | 5 | Ah001082, Ah007669, Ah032411, Ah035419, Ah036565 |
| Amaranthaceae | Beta vulgaris | 2 | BVRB_2g026030, BVRB_5g116020 |
| Amaranthaceae | Salicornia bigelovii | 4 | Sbi_jg24662, Sbi_jg30449, Sbi_jg58797, Sbi_jg8520 |
| Amaranthaceae | Salicornia europaea | 2 | Seu_jg20072, Seu_jg28668 |
| Amaranthaceae | Suaeda aralocaspica | 2 | GOSA_00015018, GOSA_00016287 |
| Amaranthaceae | Suaeda glauca | 4 | Sgl51090, Sgl56396, Sgl62609, Sgl67156 |
| Amaranthaceae | Chenopodium album | 6 | gene:ENSEOMG00000007972, gene:ENSEOMG00000017821 ... |
| Amaranthaceae | Chenopodium quinoa | 4 | CQ.Regalona.r1.1BG0018130, CQ.Regalona.r1.2AG0019930 ... |
| Anacardiaceae | Pistacia vera | 2 | pistato.v30021860, pistato.v30138500 |
| Apiaceae | Apium graveolens | 7 | Ag10G00132, Ag4G00318, Ag4G00826, Ag5G00649, Ag5G00650 ... |
| Arecaceae | Cocos nucifera | 2 | COCNU_01G009960, contig69653048G000010 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103713857 |
| Asparagaceae | Asparagus officinalis | 2 | AsparagusV1_01.178.V1.1, AsparagusV1_05.3170.V1.1 |
| Asteraceae | Flaveria trinervia | 4 | Ftri16G00889, Ftri18G08513, Ftri1G05278, Ftri2G22365 |
| Brassicaceae | Arabidopsis thaliana | 3 | AT1G74870.1, AT3G48070.2, AT5G62910.1 |
| Brassicaceae | Eutrema salsugineum | 3 | Thhalv10004568m.g.v1.0, Thhalv10010506m.g.v1.0 ... |
| Brassicaceae | Schrenkiella parvula | 3 | Sp2g26050.v2.2, Sp5g13940.v2.2, Sp5g30000.v2.2 |
| Brassicaceae | Brassica nigra | 6 | BniB03g053260.2N, BniB04g002020.2N, BniB05g052510.2N ... |
| Casuarinaceae | Casuarina equisetifolia | 2 | Ceq02G1773, Ceq04G1859 |
| Casuarinaceae | Casuarina glauca | 2 | Cgl02G1831, Cgl04G2036 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno05g01890 |
| Dunaliellaceae | Dunaliella salina | 1 | Dusal.1227s00001.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 2 | gene.Thate01g26120, gene.Thate04g08820 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 2 | nbisL1-mrna-10804, nbisL1-mrna-10805 |
| Nitrariaceae | Nitraria sibirica | 2 | evm.TU.LG05.451, evm.TU.LG10.826 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00028904 |
| Plumbaginaceae | Limonium bicolor | 5 | Lb1G02757, Lb4G26207, Lb5G27825, Lb6G29745, Lb6G29752 |
| Poaceae | Echinochloa crus-galli | 3 | AH09.1267, BH09.1379, CH09.1485 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_4AG0314640, gene-QOZ80_4BG0345690 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.2HG0173710.1 |
| Poaceae | Lolium multiflorum | 2 | gene-QYE76_023226, gene-QYE76_044421 |
| Poaceae | Oryza coarctata | 4 | Oco03G013650, Oco04G012710, Oco07G007830, Oco08G007730 |
| Poaceae | Oryza sativa | 2 | LOC_Os02g37030.1, LOC_Os04g38970.2 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_06G124600 |
| Poaceae | Puccinellia tenuiflora | 3 | Pt_Chr0204337, Pt_Chr0302430, Pt_Chr0302459 |
| Poaceae | Sporobolus alterniflorus | 4 | Chr23G011390, Chr25G008490, Chr26G008160, Chr30G008350 |
| Poaceae | Thinopyrum elongatum | 1 | Tel2E01G571800 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC2AG047860, gene_TRIDC2BG050360 |
| Poaceae | Triticum aestivum | 3 | TraesCS2A02G336300.1, TraesCS2B02G345600.1 ... |
| Poaceae | Zea mays | 1 | Zm00001eb080490_P002 |
| Poaceae | Zoysia japonica | 2 | nbis-gene-53727, nbis-gene-7479 |
| Poaceae | Zoysia macrostachya | 2 | Zma_g19857, Zma_g21413 |
| Portulacaceae | Portulaca oleracea | 6 | evm.TU.LG01.2552, evm.TU.LG02.874, evm.TU.LG05.861 ... |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc01g04220 |
| Rhizophoraceae | Bruguiera sexangula | 2 | evm.TU.Scaffold_11_RagTag.965, evm.TU.Scaffold_4_RagTag.519 |
| Rhizophoraceae | Carallia pectinifolia | 2 | nbisL1-mrna-14648, nbisL1-mrna-28846 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-20369 |
| Rhizophoraceae | Ceriops zippeliana | 2 | nbisL1-mrna-12536, nbisL1-mrna-1816 |
| Rhizophoraceae | Kandelia candel | 2 | evm.TU.utg000008l.334, evm.TU.utg000010l.76 |
| Rhizophoraceae | Kandelia obovata | 2 | Maker00000855, Maker00008599 |
| Rhizophoraceae | Rhizophora apiculata | 2 | nbisL1-mrna-14572, nbisL1-mrna-782 |
| Rhizophoraceae | Rhizophora mangle | 2 | nbisL1-mrna-1502, nbisL1-mrna-8608 |
| Salicaceae | Populus euphratica | 3 | populus_peu28570, populus_peu29992, populus_peu30034 |
| Solanaceae | Lycium barbarum | 2 | gene-LOC132601210, gene-LOC132632717 |
| Solanaceae | Solanum chilense | 2 | SOLCI003430400, SOLCI007002200 |
| Solanaceae | Solanum pennellii | 2 | gene-LOC107014856, gene-LOC107021080 |
| Tamaricaceae | Reaumuria soongarica | 3 | MSTRG.14372_chr08_+, STRG.15455_chr06_-, gene_11786 |
| Tamaricaceae | Tamarix chinensis | 3 | TC05G0047, TC05G1778, TC09G1485 |
| Zosteraceae | Zostera marina | 2 | Zosma01g25600.v3.1, Zosma02g25050.v3.1 |