Basic Information
Locus ID:
nbisL1-mrna-18224
Species & Taxonomic ID:
Ceriops zippeliana & 413951
Genome Assembly:
GCA_037897445.1
Description:
Cold shock protein domain
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| 000184F_pilon | 3438966 | 3443018 | + | nbisL1-mrna-18224 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 9.17 | 25,184.42 Da | 46.36 | 53.16 | -0.33 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd04458 | CSP_CDS | 7 | 64 | 8.24724E-28 | IPR002059 |
| Pfam | PF00098 | Zinc knuckle | 129 | 143 | 2.8E-6 | IPR001878 |
| Pfam | PF00313 | 'Cold-shock' DNA-binding domain | 7 | 72 | 1.9E-25 | IPR002059 |
| SUPERFAMILY | SSF57756 | Retrovirus zinc finger-like domains | 123 | 145 | 8.37E-6 | IPR036875 |
| SUPERFAMILY | SSF50249 | Nucleic acid-binding proteins | 5 | 72 | 1.31E-21 | IPR012340 |
| Gene3D | G3DSA:4.10.60.10 | - | 125 | 166 | 1.0E-6 | - |
| Gene3D | G3DSA:2.40.50.140 | - | 1 | 71 | 2.0E-27 | - |
| SMART | SM00357 | csp_8 | 8 | 73 | 1.4E-26 | IPR011129 |
| SMART | SM00343 | c2hcfinal6 | 129 | 145 | 6.6E-4 | IPR001878 |
| ProSiteProfiles | PS50158 | Zinc finger CCHC-type profile. | 130 | 143 | 11.004309 | IPR001878 |
| ProSiteProfiles | PS51857 | Cold-shock (CSD) domain profile. | 6 | 72 | 34.736324 | IPR002059 |
| ProSitePatterns | PS00352 | Cold-shock (CSD) domain signature. | 20 | 39 | - | IPR019844 |
| PRINTS | PR00050 | Cold shock protein signature | 9 | 24 | 4.3E-15 | IPR002059 |
| PRINTS | PR00050 | Cold shock protein signature | 45 | 63 | 4.3E-15 | IPR002059 |
| PRINTS | PR00050 | Cold shock protein signature | 30 | 39 | 4.3E-15 | IPR002059 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 67 | 104 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 72 | 86 | - | - |
Gene Ontology
Molecular Function:
KEGG Pathway
KO Term:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT2G17870.1 | cold shock domain protein 3. Encodes COLD SHOCK DOMAIN PROTEIN 3 (CSP3), involved in the acquisition of freezing tolerance. | 0 |
| RefSeq | XP_002301004.1 | glycine-rich protein 2 [Populus trichocarpa] | 0 |
| P27484 | Glycine-rich protein 2 OS=Nicotiana sylvestris OX=4096 GN=GRP-2 PE=2 SV=1 | 0 | |
| TrEMBL | A0A2P2QMF1 | CSD domain-containing protein OS=Rhizophora mucronata OX=61149 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| No sample metadata found. | |||||||
Network
No network data available for this species.
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 4 | jg1228, jg26359, jg28532, jg30168 |
| Aizoaceae | Mesembryanthemum crystallinum | 3 | gene_1123, gene_24150, gene_25904 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_6g134050 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg12604, Sbi_jg53335 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg8588 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00010426 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl33657, Sgl38969 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000002676, gene:ENSEOMG00000003653 ... |
| Amaranthaceae | Chenopodium quinoa | 3 | CQ.Regalona.r1.6AG0012840, CQ.Regalona.r1.6AG0023210 ... |
| Anacardiaceae | Pistacia vera | 4 | pistato.v30042140, pistato.v30102370, pistato.v30102380 ... |
| Apiaceae | Apium graveolens | 1 | Ag6G02921 |
| Arecaceae | Cocos nucifera | 1 | COCNU_14G012880 |
| Arecaceae | Phoenix dactylifera | 2 | gene-LOC103710195, gene-LOC103712040 |
| Asparagaceae | Asparagus officinalis | 2 | AsparagusV1_07.3558.V1.1, AsparagusV1_07.3559.V1.1 |
| Asteraceae | Flaveria trinervia | 2 | Ftri4G04609, Ftri8G19403 |
| Brassicaceae | Arabidopsis thaliana | 2 | AT5G09570.1, AT5G64400.2 |
| Brassicaceae | Eutrema salsugineum | 3 | Thhalv10005092m.g.v1.0, Thhalv10014959m.g.v1.0 ... |
| Brassicaceae | Schrenkiella parvula | 1 | Sp2g27490.v2.2 |
| Brassicaceae | Brassica nigra | 4 | BniB02g052190.2N, BniB05g066890.2N, BniB06g012610.2N ... |
| Casuarinaceae | Casuarina equisetifolia | 2 | Ceq03G1053, Ceq09G0565 |
| Casuarinaceae | Casuarina glauca | 2 | Cgl03G1137, Cgl09G0591 |
| Cymodoceaceae | Cymodocea nodosa | 2 | gene.Cymno10g07590, gene.Cymno11g03080 |
| Dunaliellaceae | Dunaliella salina | 1 | Dusal.0205s00013.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 4 | gene.Thate03g04830, gene.Thate03g11420, gene.Thate04g00050 ... |
| Nitrariaceae | Nitraria sibirica | 2 | evm.TU.LG05.567, evm.TU.LG06.243 |
| Plantaginaceae | Plantago ovata | 2 | Pov_00002166, Pov_00039733 |
| Plumbaginaceae | Limonium bicolor | 2 | Lb1G05784, Lb7G34539 |
| Poaceae | Echinochloa crus-galli | 4 | AH01.1006, BH01.1148, CH01.1203, CH05.4543 |
| Poaceae | Eleusine coracana subsp. coracana | 3 | gene-QOZ80_3AG0221120, gene-QOZ80_3BG0266360 ... |
| Poaceae | Hordeum vulgare | 2 | HORVU.MOREX.r3.4HG0334800.1, HORVU.MOREX.r3.5HG0420340.1 |
| Poaceae | Lolium multiflorum | 6 | gene-QYE76_000326, gene-QYE76_000328, gene-QYE76_000329 ... |
| Poaceae | Oryza coarctata | 3 | Oco05G020440, Oco06G021200, Oco24G011140 |
| Poaceae | Oryza sativa | 2 | LOC_Os03g48080.1, LOC_Os12g44080.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_01G122400 |
| Poaceae | Puccinellia tenuiflora | 5 | Pt_Chr0104948, Pt_Chr0104955, Pt_Chr0704813, Pt_Chr0704892 ... |
| Poaceae | Sporobolus alterniflorus | 5 | Chr01G008120, Chr04G026000, Chr07G020700, Chr12G013010 ... |
| Poaceae | Thinopyrum elongatum | 2 | Tel4E01G055900, Tel5E01G013100 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC4AG043980, gene_TRIDC4BG004800 |
| Poaceae | Triticum aestivum | 4 | TraesCS4B02G028800.1, TraesCS4D02G026400.1 ... |
| Poaceae | Zea mays | 3 | Zm00001eb053320_P001, Zm00001eb053330_P002 ... |
| Poaceae | Zoysia japonica | 2 | nbis-gene-14668, nbis-gene-15773 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g3051 |
| Portulacaceae | Portulaca oleracea | 4 | evm.TU.LG03.1478, evm.TU.LG05.299, evm.TU.LG12.150 ... |
| Posidoniaceae | Posidonia oceanica | 4 | gene.Posoc03g29020, gene.Posoc04g05910, gene.Posoc04g05930 ... |
| Rhizophoraceae | Bruguiera sexangula | 5 | evm.TU.Scaffold_1_RagTag.1951, evm.TU.Scaffold_2_RagTag.484 ... |
| Rhizophoraceae | Carallia pectinifolia | 2 | nbisL1-mrna-9563, nbisL1-mrna-9685 |
| Rhizophoraceae | Ceriops tagal | 4 | nbisL1-mrna-14912, nbisL1-mrna-2042, nbisL1-mrna-527 ... |
| Rhizophoraceae | Ceriops zippeliana | 3 | nbisL1-mrna-18138, nbisL1-mrna-18224, nbisL1-mrna-9692 |
| Rhizophoraceae | Kandelia candel | 4 | add.evm.TU.utg000018l.237, evm.TU.utg000009l.672 ... |
| Rhizophoraceae | Kandelia obovata | 4 | Maker00002854, Maker00003172, Maker00005263, Maker00017135 |
| Rhizophoraceae | Rhizophora apiculata | 4 | nbisL1-mrna-20572, nbisL1-mrna-2594, nbisL1-mrna-2947 ... |
| Rhizophoraceae | Rhizophora mangle | 5 | nbisL1-mrna-13896, nbisL1-mrna-16559, nbisL1-mrna-18613 ... |
| Salicaceae | Populus euphratica | 2 | populus_peu01699, populus_peu36118 |
| Solanaceae | Lycium barbarum | 2 | gene-LOC132606436, gene-LOC132606437 |
| Solanaceae | Solanum chilense | 1 | SOLCI000828800 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107002754 |
| Tamaricaceae | Reaumuria soongarica | 2 | STRG.8908_chr03_+, gene_16219 |
| Tamaricaceae | Tamarix chinensis | 2 | TC09G0234, TC11G0657 |
| Zosteraceae | Zostera marina | 1 | Zosma03g03260.v3.1 |