Basic Information
Locus ID:
Ag3G01780
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
heterogeneous nuclear ribonucleoprotein
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr3 | 145876693 | 145878651 | - | Ag3G01780 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 9.20 | 23,766.76 Da | 55.30 | 67.98 | -0.57 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd12254 | RRM_hnRNPH_ESRPs_RBM12_like | 4 | 73 | 2.46431E-25 | - |
| CDD | cd12254 | RRM_hnRNPH_ESRPs_RBM12_like | 120 | 192 | 2.79601E-26 | - |
| Pfam | PF00076 | RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) | 6 | 68 | 5.4E-6 | IPR000504 |
| Pfam | PF00076 | RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) | 123 | 189 | 1.6E-9 | IPR000504 |
| SUPERFAMILY | SSF54928 | RNA-binding domain, RBD | 118 | 205 | 1.63E-20 | IPR035979 |
| SUPERFAMILY | SSF54928 | RNA-binding domain, RBD | 4 | 82 | 1.75E-17 | IPR035979 |
| Gene3D | G3DSA:3.30.70.330 | - | 103 | 208 | 7.5E-30 | IPR012677 |
| Gene3D | G3DSA:3.30.70.330 | - | 2 | 93 | 1.8E-24 | IPR012677 |
| SMART | SM00360 | rrm1_1 | 120 | 192 | 1.5E-8 | IPR000504 |
| SMART | SM00360 | rrm1_1 | 4 | 73 | 4.7E-5 | IPR000504 |
| ProSiteProfiles | PS50102 | Eukaryotic RNA Recognition Motif (RRM) profile. | 119 | 196 | 9.609751 | IPR000504 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 91 | 114 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 92 | 114 | - | - |
Gene Ontology
Molecular Function:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT5G66010.1 | RNA-binding (RRM/RBD/RNP motifs) family protein. | 0 |
| RefSeq | XP_017243485.1 | PREDICTED: heterogeneous nuclear ribonucleoprotein H [Daucus carota subsp. sativus] | 0 |
| Q9Z2X1 | Heterogeneous nuclear ribonucleoprotein F OS=Mus musculus OX=10090 GN=Hnrnpf PE=1 SV=3 | 0 | |
| TrEMBL | A0A165XN23 | RRM domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_014312 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 48.340805 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 34.701363 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 35.036816 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 33.149422 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 32.707657 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 42.419212 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 34.564659 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 38.66103 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 66.854126 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 63.399509 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 67.330429 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 74.921448 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 73.353233 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 75.573853 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 46.192192 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 41.638897 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 51.957817 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 44.050179 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 48.931213 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 34.209949 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 37.898758 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 56.39613 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 57.879711 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 52.138218 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 58.301266 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 45.807171 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 46.449177 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 42.126183 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 45.335571 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 77.687004 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 81.22686 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 73.760422 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 79.559425 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 65.226044 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 67.258133 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 66.097504 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 73.86628 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 76.705788 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 30.075056 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 30.235479 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 32.598587 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 61.556107 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 66.224274 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 92.926819 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 95.621933 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 52.768581 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 82.550926 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 83.884064 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 97.355095 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 91.323273 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 4 | jg19930, jg30933, jg35561, jg8559 |
| Aizoaceae | Mesembryanthemum crystallinum | 2 | gene_11634, gene_13365 |
| Amaranthaceae | Atriplex hortensis | 2 | Ah004988, Ah026877 |
| Amaranthaceae | Beta vulgaris | 2 | BVRB_4g072690, BVRB_6g130800 |
| Amaranthaceae | Salicornia bigelovii | 4 | Sbi_jg13674, Sbi_jg17996, Sbi_jg52227, Sbi_jg62621 |
| Amaranthaceae | Salicornia europaea | 2 | Seu_jg1208, Seu_jg9618 |
| Amaranthaceae | Suaeda aralocaspica | 2 | GOSA_00014420, GOSA_00017643 |
| Amaranthaceae | Suaeda glauca | 4 | Sgl23850, Sgl29021, Sgl33226, Sgl38834 |
| Amaranthaceae | Chenopodium album | 6 | gene:ENSEOMG00000002790, gene:ENSEOMG00000003814 ... |
| Amaranthaceae | Chenopodium quinoa | 4 | CQ.Regalona.r1.4AG0001490, CQ.Regalona.r1.4BG0001600 ... |
| Anacardiaceae | Pistacia vera | 2 | pistato.v30053060, pistato.v30212160 |
| Apiaceae | Apium graveolens | 2 | Ag3G01780, Ag9G01445 |
| Arecaceae | Cocos nucifera | 4 | COCNU_06G014570, COCNU_09G005410, COCNU_14G012190 ... |
| Arecaceae | Phoenix dactylifera | 5 | gene-LOC103701104, gene-LOC103703680, gene-LOC103704569 ... |
| Asparagaceae | Asparagus officinalis | 2 | AsparagusV1_01.1051.V1.1, AsparagusV1_07.3730.V1.1 |
| Asteraceae | Flaveria trinervia | 3 | Ftri16G19395, Ftri17G00270, Ftri6G33629 |
| Brassicaceae | Arabidopsis thaliana | 2 | AT3G20890.1, AT5G66010.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10021270m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 2 | Sp2g30680.v2.2, Sp3g18920.v2.2 |
| Brassicaceae | Brassica nigra | 2 | BniB01g042780.2N, BniB07g031560.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq05G1903 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl05G1904 |
| Cymodoceaceae | Cymodocea nodosa | 2 | gene.Cymno01g02780, gene.Cymno12g02910 |
| Dunaliellaceae | Dunaliella salina | 2 | Dusal.1139s00002.v1.0, Dusal.1266s00001.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 2 | gene.Thate02g12960, gene.Thate08g03200 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 1 | nbisL1-mrna-8736 |
| Nitrariaceae | Nitraria sibirica | 2 | evm.TU.LG02.2873, evm.TU.LG09.230 |
| Plantaginaceae | Plantago ovata | 2 | Pov_00017108, Pov_00020330 |
| Plumbaginaceae | Limonium bicolor | 3 | Lb3G21209, Lb6G30274, Lb6G30275 |
| Poaceae | Echinochloa crus-galli | 1 | BH05.1422 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_5AG0361750, gene-QOZ80_5BG0410150 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.6HG0544100.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_019510 |
| Poaceae | Oryza coarctata | 2 | Oco03G026380, Oco04G026780 |
| Poaceae | Oryza sativa | 3 | LOC_Os02g58600.1, LOC_Os11g03890.1, LOC_Os12g03710.1 |
| Poaceae | Paspalum vaginatum | 2 | gene-BS78_09G043100, gene-BS78_09G250300 |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0200984, Pt_Chr0201000 |
| Poaceae | Sporobolus alterniflorus | 4 | Chr01G016170, Chr12G020570, Chr18G016380, Chr22G000380 |
| Poaceae | Thinopyrum elongatum | 1 | Tel6E01G092500 |
| Poaceae | Triticum dicoccoides | 1 | gene_TRIDC6AG004300 |
| Poaceae | Triticum aestivum | 3 | TraesCS6A02G035800.1, TraesCS6B02G050200.1 ... |
| Poaceae | Zea mays | 4 | Zm00001eb297160_P002, Zm00001eb323990_P004 ... |
| Poaceae | Zoysia japonica | 2 | nbis-gene-13569, nbis-gene-24743 |
| Poaceae | Zoysia macrostachya | 4 | Zma_g27446, Zma_g27447, Zma_g28886, Zma_g28887 |
| Portulacaceae | Portulaca oleracea | 4 | evm.TU.LG07.1585, evm.TU.LG15.1675, evm.TU.LG18.1762 ... |
| Posidoniaceae | Posidonia oceanica | 2 | gene.Posoc03g05460, gene.Posoc09g06410 |
| Rhizophoraceae | Bruguiera sexangula | 2 | evm.TU.Scaffold_12_RagTag.25, evm.TU.Scaffold_6_RagTag.2193 |
| Rhizophoraceae | Carallia pectinifolia | 2 | nbisL1-mrna-16947, nbisL1-mrna-24776 |
| Rhizophoraceae | Ceriops tagal | 2 | nbisL1-mrna-12884, nbisL1-mrna-5966 |
| Rhizophoraceae | Ceriops zippeliana | 2 | nbisL1-mrna-11646, nbisL1-mrna-19344 |
| Rhizophoraceae | Kandelia candel | 2 | evm.TU.utg000011l.1344, evm.TU.utg000027l.555 |
| Rhizophoraceae | Kandelia obovata | 2 | Maker00007688, Maker00017989 |
| Rhizophoraceae | Rhizophora apiculata | 2 | nbisL1-mrna-23119, nbisL1-mrna-5440 |
| Rhizophoraceae | Rhizophora mangle | 2 | nbisL1-mrna-11570, nbisL1-mrna-23692 |
| Salicaceae | Populus euphratica | 3 | populus_peu01932, populus_peu14025, populus_peu35875 |
| Solanaceae | Lycium barbarum | 2 | gene-LOC132623343, gene-LOC132643580 |
| Solanaceae | Solanum chilense | 3 | SOLCI000081000, SOLCI003502800, SOLCI007267900 |
| Solanaceae | Solanum pennellii | 3 | gene-LOC107004838, gene-LOC107011669, gene-LOC107015497 |
| Tamaricaceae | Reaumuria soongarica | 3 | STRG.25149_chr10_+, STRG.28634_chr04_+, gene_5549 |
| Tamaricaceae | Tamarix chinensis | 3 | TC02G2074, TC02G3691, TC04G0899 |
| Zosteraceae | Zostera marina | 1 | Zosma01g19890.v3.1 |