Basic Information
Locus ID:
gene-LOC107004502
Species & Taxonomic ID:
Solanum pennellii & 28526
Genome Assembly:
GCF_001406875.1
Description:
RNA binding (RRM RBD RNP motifs) family protein
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr11 | 65617477 | 65628953 | + | gene-LOC107004502 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 5.81 | 114,344.36 Da | 53.51 | 61.65 | -0.62 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd16618 | mRING-HC-C4C4_CNOT4 | 9 | 58 | 2.29784E-25 | IPR039515 |
| CDD | cd12438 | RRM_CNOT4 | 102 | 202 | 2.91476E-51 | IPR034261 |
| Pfam | PF14570 | RING/Ubox like zinc-binding domain | 9 | 61 | 4.3E-21 | - |
| Pfam | PF00076 | RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) | 128 | 188 | 4.5E-5 | IPR000504 |
| SUPERFAMILY | SSF54928 | RNA-binding domain, RBD | 101 | 188 | 5.9E-13 | IPR035979 |
| SUPERFAMILY | SSF57850 | RING/U-box | 3 | 66 | 1.49E-13 | - |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 1 | 77 | 7.8E-25 | IPR013083 |
| Gene3D | G3DSA:3.30.70.330 | - | 108 | 190 | 3.1E-25 | IPR012677 |
| SMART | SM00361 | rrm2_1 | 108 | 190 | 7.5E-12 | IPR003954 |
| ProSiteProfiles | PS50089 | Zinc finger RING-type profile. | 9 | 57 | 9.74522 | IPR001841 |
| ProSiteProfiles | PS50102 | Eukaryotic RNA Recognition Motif (RRM) profile. | 107 | 194 | 10.3943 | IPR000504 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 323 | 369 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 276 | 299 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 733 | 770 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 733 | 756 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 276 | 297 | - | - |
Gene Ontology
Molecular Function:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT3G45630.1 | RNA binding (RRM/RBD/RNP motifs) family protein. | 0 |
| RefSeq | XP_015058193.1 | uncharacterized protein LOC107004502 isoform X3 [Solanum pennellii] | 0 |
| Q09818 | Putative general negative regulator of transcription C16C9.04c OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) OX=284812 GN=SPAC16C9.04c PE=3 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| No sample metadata found. | |||||||
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 3 | jg16628, jg37936, jg37937 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_25753 |
| Amaranthaceae | Atriplex hortensis | 2 | Ah037635, Ah037637 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_9g207330 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg2425, Sbi_jg59867 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg24119 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00025989 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl78745, Sgl81214 |
| Amaranthaceae | Chenopodium album | 7 | gene:ENSEOMG00000016030, gene:ENSEOMG00000017359 ... |
| Amaranthaceae | Chenopodium quinoa | 3 | CQ.Regalona.r1.9AG0005470, CQ.Regalona.r1.9BG0016740 ... |
| Anacardiaceae | Pistacia vera | 2 | pistato.v30059360, pistato.v30271870 |
| Apiaceae | Apium graveolens | 6 | Ag10G00540, Ag11G04662, Ag11G04663, Ag2G00670, Ag2G00923 ... |
| Arecaceae | Cocos nucifera | 3 | COCNU_03G013580, COCNU_04G002800, COCNU_12G007040 |
| Arecaceae | Phoenix dactylifera | 4 | gene-LOC103702851, gene-LOC103715965, gene-LOC103716197 ... |
| Asparagaceae | Asparagus officinalis | 3 | AsparagusV1_05.445.V1.1, AsparagusV1_06.1382.V1.1 ... |
| Asteraceae | Flaveria trinervia | 4 | Ftri10G26587, Ftri12G16297, Ftri17G20184, Ftri9G23169 |
| Brassicaceae | Arabidopsis thaliana | 3 | AT2G28540.2, AT3G45630.1, AT5G60170.2 |
| Brassicaceae | Eutrema salsugineum | 3 | Thhalv10012563m.g.v1.0, Thhalv10012567m.g.v1.0 ... |
| Brassicaceae | Schrenkiella parvula | 4 | Sp4g11360.v2.2, Sp4g11370.v2.2, Sp5g15830.v2.2 ... |
| Brassicaceae | Brassica nigra | 7 | BniB01g015360.2N, BniB01g015370.2N, BniB02g039900.2N ... |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq08G2392 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl08G2596 |
| Cymodoceaceae | Cymodocea nodosa | 3 | gene.Cymno18g00440, gene.Cymno18g00470, gene.Cymno18g00480 |
| Hydrocharitaceae | Thalassia testudinum | 2 | gene.Thate08g12630, gene.Thate08g12670 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 1 | nbisL1-mrna-580 |
| Nitrariaceae | Nitraria sibirica | 2 | evm.TU.LG01.1374, evm.TU.LG09.982 |
| Plantaginaceae | Plantago ovata | 2 | Pov_00012739, Pov_00016047 |
| Plumbaginaceae | Limonium bicolor | 3 | Lb0G36780, Lb1G02544, Lb6G30938 |
| Poaceae | Echinochloa crus-galli | 3 | AH08.2136, BH08.2250, CH08.2425 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_5AG0406040, gene-QOZ80_5BG0454130 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.5HG0466830.1 |
| Poaceae | Oryza coarctata | 6 | Ocoptg000041lG000150, Ocoptg000061lG000100 ... |
| Poaceae | Oryza sativa | 1 | LOC_Os12g01190.2 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_05G001600 |
| Poaceae | Puccinellia tenuiflora | 1 | Pt_Chr0705182 |
| Poaceae | Sporobolus alterniflorus | 5 | Chr07G022540, Chr17G014360, Chr19G011160, Chr27G004940 ... |
| Poaceae | Thinopyrum elongatum | 1 | Tel5E01G270200 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC5AG025990, gene_TRIDC5BG027140 |
| Poaceae | Triticum aestivum | 3 | TraesCS5A02G156500.2, TraesCS5B02G154700.3 ... |
| Poaceae | Zea mays | 4 | Zm00001eb094340_P001, Zm00001eb163140_P001 ... |
| Poaceae | Zoysia japonica | 2 | nbis-gene-38390, nbis-gene-40104 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g17517 |
| Portulacaceae | Portulaca oleracea | 4 | evm.TU.LG02.2094, evm.TU.LG06.1000, evm.TU.LG11.260 ... |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc07g14430 |
| Rhizophoraceae | Bruguiera sexangula | 3 | evm.TU.Scaffold_12_RagTag.319, evm.TU.Scaffold_12_RagTag.320 ... |
| Rhizophoraceae | Carallia pectinifolia | 3 | nbisL1-mrna-24477, nbisL1-mrna-30274, nbisL1-mrna-30286 |
| Rhizophoraceae | Ceriops tagal | 2 | nbisL1-mrna-12662, nbisL1-mrna-19718 |
| Rhizophoraceae | Ceriops zippeliana | 3 | nbisL1-mrna-16138, nbisL1-mrna-16139, nbisL1-mrna-19596 |
| Rhizophoraceae | Kandelia candel | 2 | evm.TU.utg000015l.448, evm.TU.utg000027l.379 |
| Rhizophoraceae | Kandelia obovata | 2 | Maker00015216, Maker00017869 |
| Rhizophoraceae | Rhizophora apiculata | 2 | nbisL1-mrna-4367, nbisL1-mrna-5604 |
| Rhizophoraceae | Rhizophora mangle | 2 | nbisL1-mrna-11820, nbisL1-mrna-15040 |
| Salicaceae | Populus euphratica | 6 | populus_peu02677, populus_peu09199, populus_peu11743 ... |
| Solanaceae | Lycium barbarum | 4 | gene-LOC132600816, gene-LOC132605924, gene-LOC132613799 ... |
| Solanaceae | Solanum chilense | 4 | SOLCI001120100, SOLCI003343700, SOLCI003402900 ... |
| Solanaceae | Solanum pennellii | 4 | gene-LOC107004502, gene-LOC107017872, gene-LOC107018096 ... |
| Tamaricaceae | Reaumuria soongarica | 2 | gene_13756, gene_2168 |
| Tamaricaceae | Tamarix chinensis | 2 | TC01G2712, TC03G0051 |
| Zosteraceae | Zostera marina | 2 | Zosma06g27440.v3.1, Zosma06g27460.v3.1 |