Basic Information
Locus ID:
nbisL1-mrna-21088
Species & Taxonomic ID:
Ceriops zippeliana & 413951
Genome Assembly:
GCA_037897445.1
Description:
U4 U6 small nuclear ribonucleoprotein
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| 000235F_pilon | 107713 | 110891 | + | nbisL1-mrna-21088 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 5.13 | 60,454.30 Da | 57.11 | 80.31 | -0.41 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd00200 | WD40 | 307 | 545 | 4.64416E-67 | - |
| Pfam | PF00400 | WD domain, G-beta repeat | 378 | 416 | 9.3E-6 | IPR001680 |
| Pfam | PF08799 | pre-mRNA processing factor 4 (PRP4) like | 168 | 194 | 8.6E-11 | IPR014906 |
| Pfam | PF00400 | WD domain, G-beta repeat | 427 | 458 | 0.0051 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 340 | 375 | 1.7E-4 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 308 | 333 | 0.23 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 503 | 540 | 4.3E-7 | IPR001680 |
| SUPERFAMILY | SSF50978 | WD40 repeat-like | 301 | 545 | 8.14E-70 | IPR036322 |
| SUPERFAMILY | SSF158230 | PRP4-like | 146 | 201 | 8.5E-15 | IPR036285 |
| Gene3D | G3DSA:2.130.10.10 | - | 302 | 385 | 1.1E-21 | IPR015943 |
| Gene3D | G3DSA:2.130.10.10 | - | 386 | 549 | 2.4E-47 | IPR015943 |
| Gene3D | G3DSA:4.10.280.110 | - | 139 | 223 | 3.6E-14 | IPR036285 |
| SMART | SM00320 | WD40_4 | 461 | 498 | 0.82 | IPR001680 |
| SMART | SM00320 | WD40_4 | 419 | 458 | 6.0E-6 | IPR001680 |
| SMART | SM00320 | WD40_4 | 501 | 540 | 4.4E-9 | IPR001680 |
| SMART | SM00500 | pr04_2 | 163 | 216 | 9.5E-15 | IPR014906 |
| SMART | SM00320 | WD40_4 | 292 | 333 | 0.0094 | IPR001680 |
| SMART | SM00320 | WD40_4 | 336 | 375 | 1.4E-8 | IPR001680 |
| SMART | SM00320 | WD40_4 | 377 | 416 | 1.1E-8 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 426 | 467 | 13.382416 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 384 | 425 | 13.816853 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 426 | 462 | 10.785595 | - |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 508 | 545 | 11.128319 | - |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 384 | 420 | 11.181047 | - |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 465 | 507 | 9.071468 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 508 | 549 | 14.151034 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 343 | 375 | 13.014815 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 343 | 375 | 10.811958 | - |
| ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 403 | 417 | - | IPR019775 |
| ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 445 | 459 | - | IPR019775 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 27 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 109 | 132 | - | - |
Gene Ontology
Molecular Function:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT2G41500.1 | WD-40 repeat family protein / small nuclear ribonucleoprotein Prp4p-related. Encodes LACHESIS (LIS), a protein with seven WD40 repeats. LIS is homologous to the yeast splicing factor PRP4 which is associated with the U4/U6 complex of the spliceosome. LIS is involved in a mechanism that prevents accessory cells from adopting gametic cell fate: lis mutant forms supernumerary egg cells. | 0 |
| RefSeq | XP_004236572.1 | U4/U6 small nuclear ribonucleoprotein PRP4-like protein [Solanum lycopersicum] | 0 |
| O22212 | U4/U6 small nuclear ribonucleoprotein PRP4-like protein OS=Arabidopsis thaliana OX=3702 GN=LIS PE=2 SV=1 | 0 | |
| TrEMBL | A0A2P2MEZ1 | Uncharacterized protein MANES_09G015900 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 | jg4297 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_4616 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah022013 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_3g062190 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg59422, Sbi_jg63224 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg23667 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00020750 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl02801, Sgl07928 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000015868, gene:ENSEOMG00000031830 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.3AG0021940, CQ.Regalona.r1.3BG0022730 |
| Anacardiaceae | Pistacia vera | 2 | pistato.v30185870, pistato.v30185920 |
| Apiaceae | Apium graveolens | 1 | Ag3G00776 |
| Arecaceae | Cocos nucifera | 2 | COCNU_04G008580, COCNU_04G008590 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103697000 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_07.1547.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri11G20849 |
| Brassicaceae | Arabidopsis thaliana | 2 | AT2G05720.1, AT2G41500.1 |
| Brassicaceae | Eutrema salsugineum | 2 | Thhalv10000860m.g.v1.0, Thhalv10016457m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp4g23770.v2.2 |
| Brassicaceae | Brassica nigra | 2 | BniB01g004030.2N, BniB06g000680.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq04G0988 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl04G1119 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno10g04910 |
| Dunaliellaceae | Dunaliella salina | 1 | Dusal.0142s00002.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate02g01260 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG01.2511 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00024221 |
| Plumbaginaceae | Limonium bicolor | 4 | Lb2G09059, Lb2G09065, Lb3G21066, Lb4G23346 |
| Poaceae | Echinochloa crus-galli | 3 | AH01.3617, BH01.3965, CH01.4233 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_3AG0248450, gene-QOZ80_3BG0279810 |
| Poaceae | Hordeum vulgare | 2 | HORVU.MOREX.r3.2HG0127160.1.CDS1 ... |
| Poaceae | Lolium multiflorum | 2 | gene-QYE76_003868, gene-QYE76_067869 |
| Poaceae | Oryza coarctata | 2 | Oco05G013690, Oco06G012690 |
| Poaceae | Oryza sativa | 1 | LOC_Os03g23935.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_01G352500 |
| Poaceae | Sporobolus alterniflorus | 4 | Chr01G034800, Chr04G011460, Chr07G010890, Chr12G004840 |
| Poaceae | Thinopyrum elongatum | 2 | Tel2E01G344100, Tel4E01G250400 |
| Poaceae | Triticum dicoccoides | 4 | gene_TRIDC2AG022360, gene_TRIDC2BG025830 ... |
| Poaceae | Triticum aestivum | 6 | TraesCS2A02G175200.1, TraesCS2B02G201600.1.cds1 ... |
| Poaceae | Zea mays | 2 | Zm00001eb017050_P005, Zm00001eb344450_P001 |
| Poaceae | Zoysia japonica | 1 | nbis-gene-3317 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g3655 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG07.432, evm.TU.LG15.511 |
| Posidoniaceae | Posidonia oceanica | 2 | gene.Posoc06g21700, gene.Posoc07g10130 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_1_RagTag.1126 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-6486 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-16593 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-21088 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000016l.830 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00016797 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-11016 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-13329 |
| Salicaceae | Populus euphratica | 2 | populus_peu10900, populus_peu26220 |
| Solanaceae | Lycium barbarum | 2 | gene-LOC132612576, gene-LOC132613932 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107017856 |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_5107 |
| Tamaricaceae | Tamarix chinensis | 1 | TC06G2514 |
| Zosteraceae | Zostera marina | 1 | Zosma05g18040.v3.1 |