Basic Information
Locus ID:
nbisL1-mrna-16309
Species & Taxonomic ID:
Ceriops zippeliana & 413951
Genome Assembly:
GCA_037897445.1
Description:
Clathrin is the major protein of the polyhedral coat of coated pits and vesicles
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| 000132F_pilon | 3445367 | 3460116 | + | nbisL1-mrna-16309 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 5.36 | 196,976.73 Da | 42.70 | 97.97 | -0.12 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF00637 | Region in Clathrin and VPS | 994 | 1132 | 1.1E-31 | IPR000547 |
| Pfam | PF00637 | Region in Clathrin and VPS | 1290 | 1432 | 1.2E-27 | IPR000547 |
| Pfam | PF00637 | Region in Clathrin and VPS | 851 | 984 | 5.7E-28 | IPR000547 |
| Pfam | PF01394 | Clathrin propeller repeat | 155 | 197 | 8.6E-10 | IPR022365 |
| Pfam | PF00637 | Region in Clathrin and VPS | 1483 | 1607 | 9.8E-24 | IPR000547 |
| Pfam | PF00637 | Region in Clathrin and VPS | 558 | 691 | 1.0E-21 | IPR000547 |
| Pfam | PF09268 | Clathrin, heavy-chain linker | 344 | 367 | 6.3E-9 | IPR015348 |
| Pfam | PF13838 | Clathrin-H-link | 369 | 434 | 1.3E-27 | - |
| Pfam | PF01394 | Clathrin propeller repeat | 20 | 56 | 6.2E-5 | IPR022365 |
| Pfam | PF00637 | Region in Clathrin and VPS | 1147 | 1282 | 1.0E-26 | IPR000547 |
| Pfam | PF00637 | Region in Clathrin and VPS | 702 | 841 | 2.5E-21 | IPR000547 |
| SUPERFAMILY | SSF48371 | ARM repeat | 1054 | 1196 | 2.07E-26 | IPR016024 |
| SUPERFAMILY | SSF50989 | Clathrin heavy-chain terminal domain | 5 | 343 | 3.79E-130 | IPR016025 |
| SUPERFAMILY | SSF48371 | ARM repeat | 457 | 794 | 1.78E-85 | IPR016024 |
| SUPERFAMILY | SSF48371 | ARM repeat | 345 | 500 | 1.21E-52 | IPR016024 |
| SUPERFAMILY | SSF48371 | ARM repeat | 1197 | 1559 | 6.33E-101 | IPR016024 |
| SUPERFAMILY | SSF48371 | ARM repeat | 903 | 1067 | 9.5E-36 | IPR016024 |
| Gene3D | G3DSA:1.25.40.730 | - | 1570 | 1666 | 5.0E-41 | - |
| Gene3D | G3DSA:1.25.40.10 | Tetratricopeptide repeat domain | 1198 | 1564 | 1.7E-157 | IPR011990 |
| Gene3D | G3DSA:2.130.10.110 | - | 1 | 377 | 9.1E-161 | IPR016025 |
| Gene3D | G3DSA:1.25.40.10 | Tetratricopeptide repeat domain | 1058 | 1197 | 9.5E-26 | IPR011990 |
| Gene3D | G3DSA:1.25.40.10 | Tetratricopeptide repeat domain | 903 | 1057 | 1.1E-7 | IPR011990 |
| SMART | SM00299 | CLH_2 | 1289 | 1435 | 2.1E-41 | IPR000547 |
| SMART | SM00299 | CLH_2 | 848 | 987 | 9.2E-40 | IPR000547 |
| SMART | SM00299 | CLH_2 | 994 | 1139 | 2.7E-44 | IPR000547 |
| SMART | SM00299 | CLH_2 | 552 | 694 | 9.0E-35 | IPR000547 |
| SMART | SM00299 | CLH_2 | 1143 | 1284 | 1.7E-39 | IPR000547 |
| SMART | SM00299 | CLH_2 | 1465 | 1624 | 2.4E-34 | IPR000547 |
| SMART | SM00299 | CLH_2 | 701 | 843 | 1.4E-38 | IPR000547 |
| PIRSF | PIRSF002290 | CHC | 3 | 1714 | 0.0 | IPR016341 |
| ProSiteProfiles | PS50236 | Clathrin heavy-chain (CHCR) repeat profile. | 994 | 1139 | 44.390732 | IPR000547 |
| ProSiteProfiles | PS50236 | Clathrin heavy-chain (CHCR) repeat profile. | 848 | 987 | 35.720337 | IPR000547 |
| ProSiteProfiles | PS50236 | Clathrin heavy-chain (CHCR) repeat profile. | 552 | 698 | 36.360764 | IPR000547 |
| ProSiteProfiles | PS50236 | Clathrin heavy-chain (CHCR) repeat profile. | 1143 | 1284 | 34.735069 | IPR000547 |
| ProSiteProfiles | PS50236 | Clathrin heavy-chain (CHCR) repeat profile. | 701 | 843 | 34.472328 | IPR000547 |
| ProSiteProfiles | PS50236 | Clathrin heavy-chain (CHCR) repeat profile. | 1465 | 1608 | 31.229141 | IPR000547 |
| ProSiteProfiles | PS50236 | Clathrin heavy-chain (CHCR) repeat profile. | 1289 | 1435 | 41.664818 | IPR000547 |
| Coils | Coil | Coil | 1645 | 1672 | - | - |
Gene Ontology
Biological Process:
Molecular Function:
KEGG Pathway
KO Term:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT3G11130.1 | Clathrin, heavy chain. | 0 |
| RefSeq | XP_011003918.1 | PREDICTED: clathrin heavy chain 1-like [Populus euphratica] | 0 |
| Q0WNJ6 | Clathrin heavy chain 1 OS=Arabidopsis thaliana OX=3702 GN=CHC1 PE=1 SV=1 | 0 | |
| TrEMBL | A0A6I9R9I7 | Clathrin heavy chain OS=Elaeis guineensis var. tenera OX=51953 GN=LOC105045851 PE=3 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 | 3 | jg10038, jg14260, jg34119 |
| Aizoaceae | Mesembryanthemum crystallinum | 2 | gene_24312, gene_5770 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah027811 |
| Amaranthaceae | Beta vulgaris | 2 | BVRB_2g023550, BVRB_7g171840 |
| Amaranthaceae | Salicornia bigelovii | 4 | Sbi_jg1532, Sbi_jg21460, Sbi_jg22357, Sbi_jg35014 |
| Amaranthaceae | Salicornia europaea | 2 | Seu_jg16283, Seu_jg3217 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00016473 |
| Amaranthaceae | Suaeda glauca | 4 | Sgl62831, Sgl67446, Sgl72654, Sgl76192 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000017167, gene:ENSEOMG00000036403 ... |
| Amaranthaceae | Chenopodium quinoa | 4 | CQ.Regalona.r1.1BG0020030, CQ.Regalona.r1.2AG0021790 ... |
| Anacardiaceae | Pistacia vera | 3 | pistato.v30061210, pistato.v30065190, pistato.v30177160 |
| Apiaceae | Apium graveolens | 3 | Ag10G01296, Ag8G00007, Ag8G00430 |
| Arecaceae | Cocos nucifera | 2 | COCNU_04G003360, COCNU_12G006920 |
| Arecaceae | Phoenix dactylifera | 2 | gene-LOC103718112, gene-LOC103718217 |
| Asparagaceae | Asparagus officinalis | 2 | AsparagusV1_05.508.V1.1, AsparagusV1_07.439.V1.1 |
| Asteraceae | Flaveria trinervia | 3 | Ftri17G29926, Ftri18G15874, Ftri1G14408 |
| Brassicaceae | Arabidopsis thaliana | 2 | AT3G08530.1, AT3G11130.1 |
| Brassicaceae | Eutrema salsugineum | 3 | Thhalv10005737m.g.v1.0, Thhalv10019884m.g.v1.0 ... |
| Brassicaceae | Schrenkiella parvula | 2 | Sp3g07010.v2.2, Sp3g09440.v2.2 |
| Brassicaceae | Brassica nigra | 5 | BniB01g053920.2N, BniB01g055970.2N, BniB07g025160.2N ... |
| Casuarinaceae | Casuarina equisetifolia | 2 | Ceq02G0109, Ceq08G1851 |
| Casuarinaceae | Casuarina glauca | 2 | Cgl02G0119, Cgl08G1908 |
| Cymodoceaceae | Cymodocea nodosa | 3 | gene.Cymno05g15190, gene.Cymno15g06980, gene.Cymno18g00690 |
| Dunaliellaceae | Dunaliella salina | 1 | Dusal.0114s00011.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 2 | gene.Thate01g27690, gene.Thate01g32470 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 1 | nbisL1-mrna-8217 |
| Nitrariaceae | Nitraria sibirica | 2 | evm.TU.LG02.1892, evm.TU.LG02.2229 |
| Plantaginaceae | Plantago ovata | 2 | Pov_00011784, Pov_00040538 |
| Plumbaginaceae | Limonium bicolor | 2 | Lb3G19231, Lb3G20233 |
| Poaceae | Echinochloa crus-galli | 4 | AH04.22, AH05.100, BH04.29, CH04.29 |
| Poaceae | Eleusine coracana subsp. coracana | 4 | gene-QOZ80_5AG0378510, gene-QOZ80_5BG0425600 ... |
| Poaceae | Hordeum vulgare | 2 | HORVU.MOREX.r3.4HG0354730.1, HORVU.MOREX.r3.5HG0465820.1 |
| Poaceae | Lolium multiflorum | 5 | gene-QYE76_003751, gene-QYE76_027283, gene-QYE76_036738 ... |
| Poaceae | Oryza coarctata | 3 | Oco22G000070, Ocoptg000061lG000180, Ocoptg000463lG000010 |
| Poaceae | Oryza sativa | 2 | LOC_Os11g01380.1, LOC_Os12g01390.1 |
| Poaceae | Paspalum vaginatum | 2 | gene-BS78_05G003400, gene-BS78_08G001600 |
| Poaceae | Puccinellia tenuiflora | 3 | Pt_Chr0103585, Pt_Chr0103631, Pt_Chr0705210 |
| Poaceae | Sporobolus alterniflorus | 7 | Chr04G020700, Chr07G022460, Chr16G007860, Chr17G007090 ... |
| Poaceae | Thinopyrum elongatum | 2 | Tel4E01G211100, Tel5E01G265200 |
| Poaceae | Triticum dicoccoides | 5 | gene_TRIDC3AG073860, gene_TRIDC4AG029250 ... |
| Poaceae | Triticum aestivum | 6 | TraesCS4A02G182300.1, TraesCS4B02G136100.2 ... |
| Poaceae | Zea mays | 4 | Zm00001eb094250_P002, Zm00001eb163250_P001 ... |
| Poaceae | Zoysia japonica | 4 | nbis-gene-23331, nbis-gene-25848, nbis-gene-26945 ... |
| Poaceae | Zoysia macrostachya | 2 | Zma_g18320, Zma_g24589 |
| Portulacaceae | Portulaca oleracea | 6 | evm.TU.LG03.1799, evm.TU.LG05.153, evm.TU.LG14.80 ... |
| Posidoniaceae | Posidonia oceanica | 2 | gene.Posoc01g37080, gene.Posoc07g13940 |
| Rhizophoraceae | Bruguiera sexangula | 4 | evm.TU.Scaffold_11_RagTag.329, evm.TU.Scaffold_12_RagTag.112 ... |
| Rhizophoraceae | Carallia pectinifolia | 3 | nbisL1-mrna-14081, nbisL1-mrna-24686, nbisL1-mrna-30070 |
| Rhizophoraceae | Ceriops tagal | 3 | nbisL1-mrna-15482, nbisL1-mrna-15674, nbisL1-mrna-5993 |
| Rhizophoraceae | Ceriops zippeliana | 2 | nbisL1-mrna-16309, nbisL1-mrna-19418 |
| Rhizophoraceae | Kandelia candel | 3 | evm.TU.utg000005l.155, evm.TU.utg000015l.558 ... |
| Rhizophoraceae | Kandelia obovata | 3 | Maker00010105, Maker00015945, Maker00018225 |
| Rhizophoraceae | Rhizophora apiculata | 3 | nbisL1-mrna-446, nbisL1-mrna-4464, nbisL1-mrna-5494 |
| Rhizophoraceae | Rhizophora mangle | 3 | nbisL1-mrna-11646, nbisL1-mrna-18886, nbisL1-mrna-20843 |
| Salicaceae | Populus euphratica | 4 | populus_peu01746, populus_peu06568, populus_peu20447 ... |
| Solanaceae | Lycium barbarum | 3 | gene-LOC132609050, gene-LOC132637922, gene-LOC132640404 |
| Solanaceae | Solanum chilense | 2 | SOLCI004895900, SOLCI006013500 |
| Solanaceae | Solanum pennellii | 3 | gene-LOC107014039, gene-LOC107020217, gene-LOC107023023 |
| Tamaricaceae | Reaumuria soongarica | 2 | gene_10709, gene_3007 |
| Tamaricaceae | Tamarix chinensis | 2 | TC01G1157, TC11G1229 |
| Zosteraceae | Zostera marina | 3 | Zosma02g07230.v3.1, Zosma02g21680.v3.1, Zosma03g13790.v3.1 |