CoP: Co-expressed Biological Processes

Gene omics information

Query gene ID At5g58060

Gene name YKT61

Organism Arabidopsis thaliana

Co-expressed genes

As this page just shows up to 10 genes to the query, if you wish to have the complete list of co-expressed genes, click Gene/Probe ID.

VF %ile Gene/Probe ID Repr.ID Gene Name Functional Description S.X. H.G. Other DB
0.56 73.0 At5g58060 835918 YKT61 member of YKT6 Gene Family S.X. H.G.
0.84 91.9 At5g39510 833947 SGR4 (SHOOT GRAVITROPSIM 4) Encodes a member of SNARE gene family. Homologous with yeast VTI1 and is involved in vesicle transport. Mutant alleles such as sgr4/zig are defective in the shoots response to gravity resulting in a zigzag growth pattern of the stem. Involved in protein trafficking to lytic vacuoles. Can conditionally substitute VTI12 in protein storage vacuole trafficking when plants are devoid of VTI12. S.X. H.G.
0.73 85.5 At3g54300 824597 ATVAMP727 (VESICLE-ASSOCIATED MEMBRANE PROTEIN 727) Encodes a member of Synaptobrevin -like protein family. VAMP727 is a R-SNARE and interacts with SYP22/VTI11/SYP51. It is required for trafficking of storage proteins to the protein storage vacuoles (PSV) and also for PSV organization and biogenesis. Loss of function mutations have no phenotype but double mutants with SYP22 are embryo lethal. S.X. H.G.
0.73 85.5 At4g12230 826831 esterase/lipase/thioesterase family protein F:catalytic activity;P:biological_process unknown;C:cellular_component unknown;BOMPAFV S.X. H.G.
0.67 81.6 At5g22360 832297 ATVAMP714 (VESICLE-ASSOCIATED MEMBRANE PROTEIN 714) Member of Synaptobrevin-like AtVAMP7C, v-SNARE protein family. S.X. H.G.
0.59 74.7 At4g02080 827368 ATSAR2 (ARABIDOPSIS THALIANA SECRETION-ASSOCIATED RAS SUPER FAMILY 2) A member of ARF-like GTPase family. A thaliana has 21 members, in two subfamilies, ARF and ARF-like (ARL) GTPases. S.X. H.G.
0.57 73.8 At5g53530 835435 VPS26A (VACUOLAR PROTEIN SORTING 26A) Homolog of yeast retromer subunit VPS26. Part of a retromer-like protein complex involved in endosome to lysosome protein transport. S.X. H.G.
0.52 67.4 At3g54840 824649 ARA6 Encodes a novel Rab-like GTP-ase that is localized to the peripheral membrane of the endosome. S.X. H.G.
0.52 67.4 At3g09740 820132 SYP71 (SYNTAXIN OF PLANTS 71) syntaxin of plants 71 (SYP71) S.X. H.G.
0.46 59.8 At2g45980 819206 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P S.X. H.G.
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Specifically expressed experiments

As this page just shows up to 10 assays to the query, if you wish to have the complete list of assays that the query gene/probe was specifically expressed, click here.
Std2 GX %ile GSM ID Assay Name GSE ID Experiment Title
6.4 98.6 GSM184922 Arabidopsis, root cells, protophloem, 140 mM NaCl, replicate 1 GSE7641 Expression analysis of root cell-types after treatment with salt
6.3 98.6 GSM184923 Arabidopsis, root cells, protophloem, 140 mM NaCl, replicate 2 GSE7641 Expression analysis of root cell-types after treatment with salt
6.0 98.5 GSM176878 AWP_AL_Txed_2 GSE7334 Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
5.8 98.4 E-MEXP-739-raw-cel-1099467384
5.7 98.4 E-MEXP-265-raw-cel-414619001
5.5 98.3 GSM133947 Murray_2-3_T4-APH_Rep1_ATH1 GSE5747 Genome-wide cell cycle studies
5.3 98.3 GSM128661 Underwood_1-14_Cor-5x10e7-10h_Rep2_ATH1 GSE5520 Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interaction
5.1 98.2 E-MEXP-265-raw-cel-414617783
5.1 98.2 GSM128676 Underwood_1-29_DC3000-10e8-7h_Rep2_ATH1 GSE5520 Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interaction
5.0 98.1 GSM131216 AtGen_D-26_1-FS_REP2_ATH1 GSE5617 AtGenExpress: Light treatments
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Homologous genes

Paralogous genes

Click Gene ID to show a list of homologous genes.

HF Ev BS Gene ID Repr. ID Gene Name Functional description C.G. S.X. Other DB
0.66 4e-102 371 At5g58180 835930 ATYKT62 member of YKT6 Gene Family C.G. S.X.
0.02 3e-1 36 At5g49180 834977 pectinesterase family protein Encodes a putative pectin methylesterase. The gene is preferentially expressed in floral buds. C.G. S.X.
0.01 3e-1 36 At4g11450 826749 unknown protein F:unknown;P:biological_process unknown;C:chloroplast;PMO C.G. S.X.
0.03 3e-1 36 At3g04200 819575 germin-like protein, putative F:manganese ion binding, nutrient reservoir activity;P:biological_process unknown;C:endomembrane system, apoplast;PFO C.G. S.X.
0.02 3e-1 36 At2g17600 816267 DC1 domain-containing protein F:unknown;P:unknown;C:unknown;POM C.G. S.X.
0.02 1e+0 34 At5g12380 831113 annexin, putative F:calcium-dependent phospholipid binding, calcium ion binding;P:unknown;C:unknown;MPOF C.G. S.X.
0.04 1e+0 34 At4g18823 3769848 - Encodes a defensin-like (DEFL) family protein. C.G. S.X.
0.01 1e+0 34 At4g11440 826748 binding F:binding;P:transport, mitochondrial transport;C:mitochondrial inner membrane, membrane;MFPO C.G. S.X.
0.02 1e+0 34 At3g55350 824701 unknown protein F:molecular_function unknown;P:N-terminal protein myristoylation;C:cellular_component unknown;PMFOB C.G. S.X.
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Orthologous genes

Click Gene ID to show a list of orthologous genes.

HF Ev BS Species Gene ID Repr. ID Gene Name Functional description Ev AGI code Arabidopsis gene name C.G. S.X. Other DB
0.38 2e-24 113 Glycine max Gma.15852.1.S1_at CD411038 - - 3e-23 At5g58060 YKT61 C.G. S.X.
0.26 7e-13 73 Hordeum vulgare Contig8337_at Contig8337 - - 2e-12 At5g58060 YKT61 C.G. S.X.
0.21 3e-15 83 Oryza sativa Os01g0964000 AK073599.1 - VAMP-like protein YKT61 (AtYKT61)(Geranylgeranylated protein 1) (AtGP1) 3e-15 At5g58060 YKT61 C.G. S.X.
0.49 4e-44 178 Populus trichocarpa Ptp.5672.1.S1_at CK087506 hypothetical protein - 5e-44 At5g58060 YKT61 C.G. S.X.
0.22 9e-14 77 Triticum aestivum Ta.20692.1.S1_at CA684765 geranylgeranylated protein ATGP1 - 2e-13 At5g58060 YKT61 C.G. S.X.
0.40 2e-49 194 Vitis vinifera 1616088_at CB979585 - - 1e-48 At5g58060 YKT61 C.G. S.X.
0.17 3e-18 91 Zea mays Zm.14438.1.A1_at CO520860 VAMP-like protein YKT62 - 4e-12 At5g58180 ATYKT62 C.G. S.X.
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Biological processes

Click GO ID to show a list of genes that are associated with the GO ID.

ECC GO ID Process Name
L GO:0006810 The directed movement of substances (such as macromolecules, small molecules, ions) into, out of, within or between cells, or within a multicellular organism.
L GO:0016192 The directed movement of substances into, out of or within a cell by a cellular process that begins with the formation of membrane-bounded vesicles in which the transported substances are enclosed or located in the vesicle membrane. Vesicles are then targeted to, and fuse with, an acceptor membrane.
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Metabolic pathways

Click KaPPA-View ID to show a list of genes that are assigned to the KaPPA-View ID.

KaPPA-View ID Link to Kappa-View Pathway Name

Click KEGG PATHWAY ID to show a list of genes that are assigned to the KEGG PATHWAY ID.

KEGG PATHWAY ID Link to KEGG PATHWAY Pathway Name
04130 SNARE interactions in vesicular transport
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