Basic Information
Locus ID:
Ag1G01780
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
Zinc finger, C3HC4 type (RING finger)
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr1 | 195554037 | 195560937 | - | Ag1G01780 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 6.28 | 54,598.60 Da | 56.29 | 84.66 | -0.27 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF13920 | Zinc finger, C3HC4 type (RING finger) | 454 | 500 | 1.0E-12 | - |
| Pfam | PF00023 | Ankyrin repeat | 78 | 101 | 4.2E-4 | IPR002110 |
| SUPERFAMILY | SSF48403 | Ankyrin repeat | 9 | 132 | 2.64E-22 | IPR036770 |
| SUPERFAMILY | SSF57850 | RING/U-box | 438 | 500 | 1.04E-9 | - |
| Gene3D | G3DSA:1.25.40.20 | - | 2 | 127 | 1.2E-22 | IPR036770 |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 437 | 506 | 3.4E-15 | IPR013083 |
| SMART | SM00184 | ring_2 | 455 | 493 | 0.0034 | IPR001841 |
| SMART | SM00248 | ANK_2a | 39 | 69 | 0.63 | IPR002110 |
| SMART | SM00248 | ANK_2a | 75 | 104 | 0.21 | IPR002110 |
| ProSiteProfiles | PS50088 | Ankyrin repeat profile. | 75 | 107 | 11.99496 | IPR002110 |
| ProSiteProfiles | PS50089 | Zinc finger RING-type profile. | 455 | 494 | 11.132002 | IPR001841 |
| ProSiteProfiles | PS50297 | Ankyrin repeat region circular profile. | 39 | 69 | 8.905817 | - |
| ProSiteProfiles | PS50297 | Ankyrin repeat region circular profile. | 75 | 101 | 10.789545 | - |
| ProSiteProfiles | PS50088 | Ankyrin repeat profile. | 39 | 72 | 9.53764 | IPR002110 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 368 | 384 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 352 | 384 | - | - |
Gene Ontology
Molecular Function:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT3G23280.1 | XB3 ortholog 5 in Arabidopsis thaliana. | 0 |
| RefSeq | XP_017226298.1 | PREDICTED: putative E3 ubiquitin-protein ligase XBAT35 isoform X1 [Daucus carota subsp. sativus] | 0 |
| Q4FE47 | Putative E3 ubiquitin-protein ligase XBAT35 OS=Arabidopsis thaliana OX=3702 GN=XBAT35 PE=2 SV=1 | 0 | |
| TrEMBL | A0A175YIE2 | RING-type domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_030746 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 25.718149 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 33.327568 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 35.478832 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 32.729496 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 36.962067 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 29.439148 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 34.841793 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 21.136786 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 32.654747 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 35.013783 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 35.396244 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 24.64415 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 28.14814 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 26.179512 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 137.662079 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 111.451881 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 58.333912 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 85.549004 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 46.788342 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 134.006195 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 117.599785 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 49.238937 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 40.023438 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 46.596916 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 53.83239 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 42.741142 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 36.721489 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 39.09314 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 42.33316 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 27.484079 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 19.229891 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 18.582945 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 55.763542 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 29.190313 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 57.511208 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 78.1325 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 46.561199 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 56.916904 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 19.447203 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 33.921032 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 21.024725 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 213.074341 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 162.021164 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 62.084431 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 93.352364 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 167.977417 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 90.899788 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 35.689926 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 35.735069 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 41.450787 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 3 | jg11083, jg12716, jg27772 |
| Aizoaceae | Mesembryanthemum crystallinum | 3 | gene_19292, gene_19293, gene_3028 |
| Amaranthaceae | Atriplex hortensis | 2 | Ah000150, Ah018342 |
| Amaranthaceae | Beta vulgaris | 3 | BVRB_3g048930, BVRB_5g121380, BVRB_5g121390 |
| Amaranthaceae | Salicornia bigelovii | 5 | Sbi_jg14588, Sbi_jg31388, Sbi_jg37834, Sbi_jg57886 ... |
| Amaranthaceae | Salicornia europaea | 3 | Seu_jg10428, Seu_jg25517, Seu_jg28142 |
| Amaranthaceae | Suaeda aralocaspica | 3 | GOSA_00006113, GOSA_00026712, GOSA_00026713 |
| Amaranthaceae | Suaeda glauca | 9 | Sgl00977, Sgl05932, Sgl06036, Sgl06044, Sgl54454, Sgl54455 ... |
| Amaranthaceae | Chenopodium album | 7 | gene:ENSEOMG00000003855, gene:ENSEOMG00000005277 ... |
| Amaranthaceae | Chenopodium quinoa | 5 | CQ.Regalona.r1.3AG0008130, CQ.Regalona.r1.3BG0008260 ... |
| Anacardiaceae | Pistacia vera | 2 | pistato.v30016280, pistato.v30238910 |
| Apiaceae | Apium graveolens | 2 | Ag1G01780, Ag8G01509 |
| Arecaceae | Cocos nucifera | 2 | COCNU_07G000490, COCNU_10G000510 |
| Arecaceae | Phoenix dactylifera | 2 | gene-LOC103703941, gene-LOC103716062 |
| Asparagaceae | Asparagus officinalis | 2 | AsparagusV1_04.105.V1.1, AsparagusV1_04.83.V1.1 |
| Asteraceae | Flaveria trinervia | 2 | Ftri14G23003, Ftri7G19917 |
| Brassicaceae | Arabidopsis thaliana | 2 | AT3G23280.1, AT4G14365.1 |
| Brassicaceae | Eutrema salsugineum | 4 | Thhalv10020731m.g.v1.0, Thhalv10025615m.g.v1.0 ... |
| Brassicaceae | Schrenkiella parvula | 2 | Sp3g20940.v2.2, Sp7g12440.v2.2 |
| Brassicaceae | Brassica nigra | 8 | BniB01g038760.2N, BniB01g038790.2N, BniB04g039220.2N ... |
| Casuarinaceae | Casuarina equisetifolia | 5 | Ceq01G0126, Ceq01G0129, Ceq01G0130, Ceq06G1330, Ceq07G1103 |
| Casuarinaceae | Casuarina glauca | 4 | Cgl01G0113, Cgl06G1397, Cgl07G0383, Cgl07G1168 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno17g01980 |
| Dunaliellaceae | Dunaliella salina | 2 | Dusal.0054s00004.v1.0, Dusal.0334s00003.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 2 | gene.Thate04g01610, gene.Thate08g24870 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 1 | nbisL1-mrna-4180 |
| Nitrariaceae | Nitraria sibirica | 2 | evm.TU.LG04.1346, evm.TU.LG11.798 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00008324 |
| Plumbaginaceae | Limonium bicolor | 3 | Lb1G03074, Lb2G10273, Lb3G19047 |
| Poaceae | Echinochloa crus-galli | 3 | AH03.985, BH03.1138, CH03.1281 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_7AG0565310, gene-QOZ80_7BG0596730 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.1HG0019920.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_041593 |
| Poaceae | Oryza coarctata | 2 | Oco13G006290, Oco14G006850 |
| Poaceae | Oryza sativa | 1 | LOC_Os07g26490.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_02G090100 |
| Poaceae | Puccinellia tenuiflora | 1 | Pt_Chr0304048 |
| Poaceae | Sporobolus alterniflorus | 3 | Chr19G006760, Chr19G006810, Chr27G010160 |
| Poaceae | Thinopyrum elongatum | 1 | Tel1E01G172400 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC1AG012570, gene_TRIDC1BG015390 |
| Poaceae | Triticum aestivum | 3 | TraesCS1A02G088100.2, TraesCS1B02G107100.1 ... |
| Poaceae | Zea mays | 1 | Zm00001eb306280_P002 |
| Poaceae | Zoysia japonica | 4 | nbis-gene-1164, nbis-gene-1165, nbis-gene-43209 ... |
| Poaceae | Zoysia macrostachya | 2 | Zma_g5062, Zma_g6375 |
| Portulacaceae | Portulaca oleracea | 5 | evm.TU.LG01.2924, evm.TU.LG01.2925, evm.TU.LG04.2536 ... |
| Posidoniaceae | Posidonia oceanica | 2 | gene.Posoc06g00180, gene.Posoc10g07580 |
| Rhizophoraceae | Bruguiera sexangula | 3 | evm.TU.Scaffold_6_RagTag.871, evm.TU.Scaffold_9_RagTag.1007 ... |
| Rhizophoraceae | Carallia pectinifolia | 2 | nbisL1-mrna-15808, nbisL1-mrna-21178 |
| Rhizophoraceae | Ceriops tagal | 2 | nbisL1-mrna-17966, nbisL1-mrna-20563 |
| Rhizophoraceae | Ceriops zippeliana | 2 | nbisL1-mrna-18302, nbisL1-mrna-743 |
| Rhizophoraceae | Kandelia candel | 2 | evm.TU.utg000003l.460, evm.TU.utg000011l.536 |
| Rhizophoraceae | Kandelia obovata | 2 | Maker00007463, Maker00009735 |
| Rhizophoraceae | Rhizophora apiculata | 2 | nbisL1-mrna-1447, nbisL1-mrna-15227 |
| Rhizophoraceae | Rhizophora mangle | 2 | nbisL1-mrna-4270, nbisL1-mrna-5041 |
| Salicaceae | Populus euphratica | 6 | populus_peu07529, populus_peu07530, populus_peu15197 ... |
| Solanaceae | Lycium barbarum | 3 | gene-LOC132606519, gene-LOC132611270, gene-LOC132611272 |
| Solanaceae | Solanum chilense | 2 | SOLCI001181000, SOLCI004306200 |
| Solanaceae | Solanum pennellii | 2 | gene-LOC107022031, gene-LOC107030942 |
| Tamaricaceae | Reaumuria soongarica | 3 | MSTRG.16143_chr09_+, STRG.14146_chr08_-, gene_17443 |
| Tamaricaceae | Tamarix chinensis | 5 | TC05G1717, TC06G2195, TC07G2416, TC07G2418, TC07G2419 |
| Zosteraceae | Zostera marina | 1 | Zosma01g38960.v3.1 |