Basic Information
Locus ID:
nbisL1-mrna-28516
Species & Taxonomic ID:
Carallia pectinifolia & 98586
Genome Assembly:
GCA_037832335.1
Description:
cleavage stimulation factor
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr11 | 36410270 | 36415017 | - | nbisL1-mrna-28516 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 6.97 | 48,214.80 Da | 33.84 | 82.19 | -0.24 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd00200 | WD40 | 122 | 435 | 2.47852E-48 | - |
| Pfam | PF00400 | WD domain, G-beta repeat | 179 | 214 | 3.6E-6 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 278 | 304 | 0.18 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 230 | 251 | 0.12 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 309 | 346 | 0.0031 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 123 | 157 | 2.5E-6 | IPR001680 |
| SUPERFAMILY | SSF50978 | WD40 repeat-like | 118 | 435 | 1.41E-57 | IPR036322 |
| Gene3D | G3DSA:2.130.10.10 | - | 107 | 437 | 2.0E-57 | IPR015943 |
| SMART | SM00320 | WD40_4 | 220 | 258 | 6.0 | IPR001680 |
| SMART | SM00320 | WD40_4 | 395 | 435 | 2.8 | IPR001680 |
| SMART | SM00320 | WD40_4 | 175 | 214 | 2.7E-7 | IPR001680 |
| SMART | SM00320 | WD40_4 | 119 | 158 | 5.1E-6 | IPR001680 |
| SMART | SM00320 | WD40_4 | 261 | 304 | 0.0054 | IPR001680 |
| SMART | SM00320 | WD40_4 | 307 | 347 | 0.0014 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 126 | 167 | 11.44416 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 182 | 223 | 11.577833 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 315 | 356 | 10.408196 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 182 | 216 | 9.151057 | - |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 272 | 313 | 11.009724 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 126 | 160 | 9.230148 | - |
| ProSiteProfiles | PS50896 | LIS1 homology (LisH) motif profile. | 16 | 48 | 7.652002 | IPR006594 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 272 | 304 | 9.09833 | - |
| ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 334 | 348 | - | IPR019775 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 334 | 348 | 8.9E-5 | IPR020472 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 291 | 305 | 8.9E-5 | IPR020472 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 201 | 215 | 8.9E-5 | IPR020472 |
Gene Ontology
Molecular Function:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT5G60940.1 | Transducin/WD40 repeat-like superfamily protein. | 0 |
| RefSeq | XP_027123472.1 | cleavage stimulation factor subunit 50 isoform X1 [Coffea arabica] | 0 |
| Q8L4J2 | Cleavage stimulation factor subunit 50 OS=Arabidopsis thaliana OX=3702 GN=CSTF50 PE=1 SV=1 | 0 | |
| TrEMBL | A0A2P2LA08 | Cleavage stimulation factor 50 kDa subunit 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 | 1 | jg25683 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_13874 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah001252 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg30972, Sbi_jg58304 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg25910 |
| Amaranthaceae | Suaeda aralocaspica | 4 | GOSA_00004775, GOSA_00013999, GOSA_00019137, GOSA_00019941 |
| Amaranthaceae | Suaeda glauca | 1 | Sgl54854 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000005534, gene:ENSEOMG00000022554 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.5AG0019140, CQ.Regalona.r1.5BG0020410 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30145240 |
| Apiaceae | Apium graveolens | 1 | Ag4G00625 |
| Arecaceae | Cocos nucifera | 1 | COCNU_14G011330 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103704490 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_06.1972.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri16G05043 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT5G60940.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10004278m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp2g24250.v2.2 |
| Brassicaceae | Brassica nigra | 1 | BniB02g076160.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq01G1758 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl01G1912 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno09g05900 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate09g06050 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG10.523 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00033117 |
| Plumbaginaceae | Limonium bicolor | 2 | Lb4G25951, Lb4G25953 |
| Poaceae | Echinochloa crus-galli | 3 | BH01.693, CH01.675, Contig309.51 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_3AG0215620, gene-QOZ80_3BG0260720 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.5HG0511430.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_061780 |
| Poaceae | Oryza coarctata | 2 | Oco05G023920, Oco06G024800 |
| Poaceae | Oryza sativa | 1 | LOC_Os03g54770.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_01G077000 |
| Poaceae | Sporobolus alterniflorus | 2 | Chr04G028830, Chr07G027830 |
| Poaceae | Thinopyrum elongatum | 1 | Tel5E01G623600 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC5AG057120, gene_TRIDC5BG061260 |
| Poaceae | Triticum aestivum | 3 | TraesCS5A02G392400.1, TraesCS5B02G397200.1 ... |
| Poaceae | Zea mays | 1 | Zm00001eb057630_P001 |
| Poaceae | Zoysia japonica | 1 | nbis-gene-16202 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g2768 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG02.80, evm.TU.LG09.1310 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc04g10630 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_4_RagTag.830 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-28516 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-20911 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-1551 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000008l.535 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00000539 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-14371 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-19317 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132603520 |
| Solanaceae | Solanum chilense | 2 | SOLCI004692800, SOLCI004693100 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107007424 |
| Tamaricaceae | Reaumuria soongarica | 1 | STRG.14691_chr08_- |
| Tamaricaceae | Tamarix chinensis | 1 | TC05G0828 |
| Zosteraceae | Zostera marina | 1 | Zosma03g05190.v3.1 |