Basic Information
Locus ID:
Ag2G02306
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
DNA damage-inducible protein
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr2 | 269493817 | 269504106 | - | Ag2G02306 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 4.86 | 45,028.54 Da | 39.97 | 90.19 | -0.27 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd14309 | UBA_scDdi1_like | 374 | 409 | 6.91416E-11 | - |
| CDD | cd05479 | RP_DDI | 182 | 305 | 5.90516E-77 | IPR019103 |
| CDD | cd01796 | Ubl_Ddi1_like | 1 | 70 | 2.51373E-15 | IPR033882 |
| Pfam | PF09668 | Aspartyl protease | 174 | 297 | 2.7E-55 | IPR019103 |
| Pfam | PF00627 | UBA/TS-N domain | 377 | 408 | 1.5E-7 | IPR015940 |
| Pfam | PF00240 | Ubiquitin family | 3 | 70 | 2.0E-14 | IPR000626 |
| SUPERFAMILY | SSF50630 | Acid proteases | 182 | 298 | 3.41E-25 | IPR021109 |
| SUPERFAMILY | SSF54236 | Ubiquitin-like | 1 | 73 | 2.76E-17 | IPR029071 |
| SUPERFAMILY | SSF46934 | UBA-like | 360 | 411 | 2.41E-10 | IPR009060 |
| Gene3D | G3DSA:1.10.8.10 | - | 340 | 411 | 2.9E-9 | - |
| Gene3D | G3DSA:2.40.70.10 | Acid Proteases | 175 | 322 | 1.2E-44 | IPR021109 |
| Gene3D | G3DSA:3.10.20.90 | - | 1 | 83 | 3.2E-17 | - |
| SMART | SM00165 | uba_6 | 373 | 410 | 6.1E-6 | IPR015940 |
| SMART | SM00213 | ubq_7 | 1 | 72 | 6.0E-13 | IPR000626 |
| ProSiteProfiles | PS50053 | Ubiquitin domain profile. | 1 | 70 | 16.907806 | IPR000626 |
| ProSiteProfiles | PS50030 | Ubiquitin-associated domain (UBA) profile. | 370 | 411 | 12.643282 | IPR015940 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 334 | 368 | - | - |
| Coils | Coil | Coil | 127 | 150 | - | - |
Gene Ontology
Biological Process:
Molecular Function:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT3G13235.3 | ubiquitin family protein. | 0 |
| RefSeq | XP_017252566.1 | PREDICTED: DNA damage-inducible protein 1 [Daucus carota subsp. sativus] | 0 |
| Q1EBV4 | Protein DNA-DAMAGE INDUCIBLE 1 OS=Arabidopsis thaliana OX=3702 GN=DDI1 PE=1 SV=1 | 0 | |
| TrEMBL | A0A164YDG0 | DNA damage-inducible protein 1 OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_017596 PE=3 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 25.610514 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 23.734642 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 23.967342 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 23.802139 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 25.774303 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 16.921585 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 19.128582 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 11.816421 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 59.403229 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 55.457363 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 57.890713 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 52.311588 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 51.967117 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 46.873299 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 59.263191 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 61.63018 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 65.401169 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 69.141663 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 53.250507 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 69.298553 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 72.353371 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 85.69075 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 85.748276 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 85.68325 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 69.746475 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 66.511589 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 64.530403 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 57.800869 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 63.217793 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 10.436131 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 16.48311 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 14.242243 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 17.124601 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 21.708179 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 14.27347 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 16.672558 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 11.486986 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 14.082194 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 34.220299 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 27.988819 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 27.235348 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 100.063484 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 78.377731 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 37.188805 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 42.559391 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 127.288567 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 55.085052 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 63.135334 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 63.700119 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 69.191299 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 1 | jg21648 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_12095 |
| Amaranthaceae | Atriplex hortensis | 2 | Ah009134, Ah034514 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_4g091100 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg18596, Sbi_jg37020 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg4870 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00017272 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl23631, Sgl28831 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000010142, gene:ENSEOMG00000029951 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.2BG0000210, CQ.Regalona.r1.4BG0026680 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30151470 |
| Apiaceae | Apium graveolens | 1 | Ag2G02306 |
| Arecaceae | Cocos nucifera | 1 | scaffold016239G000080 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103710672 |
| Asparagaceae | Asparagus officinalis | 2 | AsparagusV1_01.2141.V1.1, AsparagusV1_05.737.V1.1 |
| Asteraceae | Flaveria trinervia | 2 | Ftri15G01156, Ftri16G30473 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT3G13235.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10020839m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp3g11470.v2.2 |
| Brassicaceae | Brassica nigra | 2 | BniB07g026840.2N, BniB07g055720.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq01G1550 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl01G1712 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno01g04590 |
| Dunaliellaceae | Dunaliella salina | 2 | Dusal.0891s00004.v1.0, Dusal.0891s00005.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate09g19250 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 2 | nbisL1-mrna-1490, nbisL1-mrna-1491 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00037978 |
| Plumbaginaceae | Limonium bicolor | 2 | Lb2G11792, Lb2G11805 |
| Poaceae | Echinochloa crus-galli | 3 | AH07.730, BH07.860, CH07.617 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_2AG0105190, gene-QOZ80_2BG0158640 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.6HG0572580.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_021350 |
| Poaceae | Oryza coarctata | 1 | Oco03G004780 |
| Poaceae | Oryza sativa | 1 | LOC_Os02g10510.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_04G075500 |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0202115, Pt_Chr0202159 |
| Poaceae | Thinopyrum elongatum | 1 | Tel6E01G328000 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC6AG022880, gene_TRIDC6BG028480 |
| Poaceae | Triticum aestivum | 3 | TraesCS6A02G161500.1, TraesCS6B02G189600.1 ... |
| Poaceae | Zea mays | 1 | Zm00001eb205890_P004 |
| Poaceae | Zoysia japonica | 1 | nbis-gene-44068 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g15139 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc03g09090 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_7_RagTag.33 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-19729 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-4035 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-22371 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000028l.18 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00010474 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-7973 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-22558 |
| Salicaceae | Populus euphratica | 3 | populus_peu00037, populus_peu17072, populus_peu17114 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132627734 |
| Solanaceae | Solanum chilense | 1 | SOLCI006742700 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107002395 |
| Tamaricaceae | Reaumuria soongarica | 1 | STRG.24583_chr08_+ |
| Tamaricaceae | Tamarix chinensis | 1 | TC05G2541 |
| Zosteraceae | Zostera marina | 1 | Zosma03g08920.v3.1 |