Basic Information
Locus ID:
Ag6G01347
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
RNA-binding protein with multiple splicing
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr6 | 64680254 | 64685531 | - | Ag6G01347 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 6.09 | 35,346.76 Da | 62.30 | 65.71 | -0.37 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd12245 | RRM_scw1_like | 222 | 299 | 1.10756E-42 | - |
| CDD | cd12420 | RRM_RBPMS_like | 48 | 121 | 6.37096E-34 | - |
| Pfam | PF00076 | RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) | 226 | 287 | 1.0E-9 | IPR000504 |
| SUPERFAMILY | SSF54928 | RNA-binding domain, RBD | 46 | 286 | 1.92E-18 | IPR035979 |
| Gene3D | G3DSA:3.30.70.330 | - | 42 | 129 | 4.2E-17 | IPR012677 |
| Gene3D | G3DSA:3.30.70.330 | - | 211 | 299 | 1.0E-19 | IPR012677 |
| SMART | SM00360 | rrm1_1 | 49 | 119 | 0.15 | IPR000504 |
| SMART | SM00360 | rrm1_1 | 225 | 297 | 1.1E-7 | IPR000504 |
| ProSiteProfiles | PS50102 | Eukaryotic RNA Recognition Motif (RRM) profile. | 224 | 301 | 11.178847 | IPR000504 |
Gene Ontology
Molecular Function:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT3G21215.3 | - | 0 |
| RefSeq | XP_017236212.1 | PREDICTED: U1 small nuclear ribonucleoprotein A [Daucus carota subsp. sativus] | 0 |
| Q6DH13 | RNA-binding protein, mRNA-processing factor 2a OS=Danio rerio OX=7955 GN=rbpms2a PE=1 SV=1 | 0 | |
| TrEMBL | A0A068TPB3 | RRM domain-containing protein OS=Coffea canephora OX=49390 GN=GSCOC_T00021656001 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 35.981777 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 25.932844 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 22.683477 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 21.238508 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 23.907192 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 24.43939 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 20.87463 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 17.674673 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 32.43792 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 34.040081 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 34.335369 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 30.417467 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 35.175182 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 30.584423 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 17.523888 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 18.043087 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 23.889278 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 22.647741 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 20.084253 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 17.853477 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 19.679291 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 23.97604 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 25.795729 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 24.317434 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 25.1803 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 25.428024 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 25.372681 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 22.927368 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 26.57354 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 39.946564 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 43.446926 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 38.083431 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 60.476311 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 34.695576 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 57.898731 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 35.73148 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 42.582367 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 43.922523 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 28.049843 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 18.168728 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 19.201004 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 12.92291 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 20.696157 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 39.956921 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 32.615475 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 16.34421 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 28.095385 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 41.247578 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 43.067646 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 41.994106 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 2 | jg17954, jg27341 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_9574 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah016035 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_8g188970 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg25749, Sbi_jg9573 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg19064 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00027946 |
| Amaranthaceae | Suaeda glauca | 3 | Sgl43985, Sgl48752, Sgl48754 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000011034, gene:ENSEOMG00000034982 ... |
| Amaranthaceae | Chenopodium quinoa | 1 | CQ.Regalona.r1.8AG0010670 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30130930 |
| Apiaceae | Apium graveolens | 1 | Ag6G01347 |
| Arecaceae | Cocos nucifera | 1 | COCNU_01G008800 |
| Arecaceae | Phoenix dactylifera | 2 | gene-LOC103701696, gene-LOC103707110 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_05.2528.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri1G08309 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT3G21215.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10021034m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp3g19210.v2.2 |
| Brassicaceae | Brassica nigra | 2 | BniB01g042300.2N, BniB07g050030.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq02G0990 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl02G1037 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno01g07690 |
| Dunaliellaceae | Dunaliella salina | 4 | Dusal.0230s00008.v1.0, Dusal.0635s00008.v1.0 ... |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate04g10930 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 1 | nbisL1-mrna-5338 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG01.646 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00028881 |
| Plumbaginaceae | Limonium bicolor | 1 | Lb3G18242 |
| Poaceae | Echinochloa crus-galli | 4 | AH08.1097, AH08.876, BH08.888, CH08.1023 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_8AG0624070, gene-QOZ80_8BG0649410 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.7HG0696340.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_032333 |
| Poaceae | Oryza coarctata | 2 | Oco15G005020, Oco16G004740 |
| Poaceae | Oryza sativa | 1 | LOC_Os08g15080.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_07G099400 |
| Poaceae | Puccinellia tenuiflora | 1 | Pt_Chr0402828 |
| Poaceae | Sporobolus alterniflorus | 2 | Chr16G003370, Chr17G003100 |
| Poaceae | Thinopyrum elongatum | 1 | Tel7E01G497400 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC7AG040240, gene_TRIDC7BG029710 |
| Poaceae | Triticum aestivum | 3 | TraesCS7A02G287800.1, TraesCS7B02G182400.1 ... |
| Poaceae | Zea mays | 3 | Zm00001eb143470_P001, Zm00001eb170900_P001 ... |
| Poaceae | Zoysia japonica | 2 | nbis-gene-44688, nbis-gene-48346 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g22705 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc03g14020 |
| Rhizophoraceae | Bruguiera sexangula | 2 | evm.TU.Scaffold_1_RagTag.1097, evm.TU.Scaffold_2_RagTag.1210 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-6515 |
| Rhizophoraceae | Ceriops tagal | 2 | nbisL1-mrna-12497, nbisL1-mrna-17278 |
| Rhizophoraceae | Ceriops zippeliana | 2 | nbisL1-mrna-18782, nbisL1-mrna-21113 |
| Rhizophoraceae | Kandelia candel | 2 | evm.TU.utg000009l.495, evm.TU.utg000016l.851 |
| Rhizophoraceae | Kandelia obovata | 2 | Maker00006063, Maker00016323 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-11036 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-13304 |
| Salicaceae | Populus euphratica | 2 | populus_peu05992, populus_peu19855 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132633578 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107014875 |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_16764 |
| Tamaricaceae | Tamarix chinensis | 1 | TC10G2551 |
| Zosteraceae | Zostera marina | 1 | Zosma03g06130.v3.1 |