Co-expression analysis

Gene ID At3g56900
Gene name aladin-related / adracalin-related
Module size 34 genes
NF 0.23
%ile 22.9



Co-expression network

pink confeito: Transcription factor, green bicone: Binding protein, red cone: Enzyme protein, blue sphere: Other protein
large node: VF over 0.50, middle node: over 0.25, small node: below 0.25



Co-expressed genes

Click gene/probe ID to show a list of genes that are co-expressed with the gene.

VF %ile CC Gene ID Repr. ID Gene name Func. O.I. H.G. S.X. Other DB
0.9897.81.00At3g56900824857aladin-related / adracalin-relatedF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MBFOPAO.I.H.G.S.X.
0.3948.40.91At5g01230830268FtsJ-like methyltransferase family proteinF:methyltransferase activity;P:rRNA methylation;C:cellular_component unknown;OBMFAVPO.I.H.G.S.X.
0.3745.00.88At3g56120824778Met-10+ like family proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;AMOFBPO.I.H.G.S.X.
0.3032.10.90At5g23880832453CPSF100 (CLEAVAGE AND POLYADENYLATION SPECIFICITY FACTOR 100)Encodes a protein similar to the 100kD subunit of cleavage and polyadenylation specificity factor (CPSF), the factor responsible for the recognition of the AAUAAA motif during mRNA polyadenylation. The protein interacts with a portion of a nuclear poly(A) polymerase. It is likely to be a part of the mRNA 3'end formation apparatus.O.I.H.G.S.X.
0.2830.30.88At3g52910824457AtGRF4 (GROWTH-REGULATING FACTOR 4)Growth regulating factor encoding transcription activator. One of the nine members of a GRF gene family, containing nuclear targeting domain. Involved in leaf development and expressed in root, shoot and flower.O.I.H.G.S.X.
0.2830.30.88At3g26410822245methyltransferase/ nucleic acid bindingF:methyltransferase activity, nucleic acid binding;P:methylation;C:endomembrane system;MAFOPBO.I.H.G.S.X.
0.2726.20.89At2g46470819256OXA1L (INNER MEMBRANE PROTEIN OXA1-LIKE)F:molecular_function unknown;P:protein import into mitochondrial inner membrane;C:mitochondrion, membrane;BOMFPO.I.H.G.S.X.
0.2624.40.90At4g10760826670MTA (MRNA ADENOSINE METHYLASE)F:S-adenosylmethionine-dependent methyltransferase activity, methyltransferase activity;P:embryonic development ending in seed dormancy, mRNA methylation;C:nuclear speck, chloroplast;MOBPFAVO.I.H.G.S.X.
0.2624.40.88At4g15570827233MAA3 (MAGATAMA 3)Similar to yeast Sen1 (splicing endonuclease 1)helicase protein. Involved in female gametophyte development.O.I.H.G.S.X.
0.2624.40.89At4g26870828794aspartyl-tRNA synthetase, putative / aspartate--tRNA ligase, putativeF:aspartate-tRNA ligase activity, nucleotide binding, aminoacyl-tRNA ligase activity, nucleic acid binding, ATP binding;P:response to cadmium ion, tRNA aminoacylation for protein translation;C:cytoplasm;BOMFAPO.I.H.G.S.X.
0.2420.70.88At4g35910829746unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFPOAO.I.H.G.S.X.
0.2420.70.88At3g62940825469OTU-like cysteine protease family proteinF:cysteine-type peptidase activity;P:biological_process unknown;C:cellular_component unknown;OMFBPVAO.I.H.G.S.X.
0.2319.30.88At1g77470844083replication factor C 36 kDA, putativeF:in 6 functions;P:DNA replication;C:DNA replication factor C complex;BOMFAPVO.I.H.G.S.X.
0.2319.30.88At1g80070844347SUS2 (ABNORMAL SUSPENSOR 2)a genetic locus involved in embryogenesis. Mutations in this locus result in an abnormal suspensor and embryo lethality.O.I.H.G.S.X.
0.2217.50.89At1g04190839442tetratricopeptide repeat (TPR)-containing proteinF:binding;P:biological_process unknown;C:cellular_component unknown;OBMPFAO.I.H.G.S.X.
0.2115.80.90At1g04510839503transducin family protein / WD-40 repeat family proteinF:ubiquitin-protein ligase activity, nucleotide binding;P:response to cadmium ion;C:nucleolus, CUL4 RING ubiquitin ligase complex;MFOBPAO.I.H.G.S.X.
0.2115.80.89At1g52380841668Ran-binding protein 1 domain-containing protein / RanBP1 domain-containing proteinF:molecular_function unknown;P:intracellular transport;C:cytosol, nucleus;MFOPBVO.I.H.G.S.X.
0.2115.80.90At2g03670814895CDC48BCDC48 - like protein AAA-type ATPaseCell. division control protein 48 homolog BO.I.H.G.S.X.
0.2014.40.89At2g28070817351ABC transporter family proteinF:ATPase activity, coupled to transmembrane movement of substances;P:unknown;C:plasma membrane;BOMAFPVO.I.H.G.S.X.
0.2014.40.88At3g13570820559SCL30aencodes an SC35-like splicing factor of 30 kD that is localized to the nuclear specks.O.I.H.G.S.X.
0.2014.40.88At5g26710832718glutamate-tRNA ligase, putative / glutamyl-tRNA synthetase, putatuve / GluRS, putativeF:glutamate-tRNA ligase activity;P:glutamyl-tRNA aminoacylation, translation, tRNA aminoacylation for protein translation;C:cytoplasm;BOMFAPO.I.H.G.S.X.
0.1912.70.90At5g22790832342RER1 (RETICULATA-RELATED 1)F:molecular_function unknown;P:biological_process unknown;C:mitochondrion, plastid, chloroplast inner membrane, chloroplast envelope;MOBPFVAO.I.H.G.S.X.
0.1811.40.88At2g28600817408ATP binding / ATP-dependent helicase/ nucleic acid bindingF:nucleic acid binding, ATP binding, ATP-dependent helicase activity;P:biological_process unknown;C:cellular_component unknown;BOMFPAVO.I.H.G.S.X.
0.1710.20.88At4g11790826785Ran-binding protein 1 domain-containing protein / RanBP1 domain-containing proteinF:molecular_function unknown;P:intracellular transport;C:cellular_component unknown;OMBFPVAO.I.H.G.S.X.
0.1710.20.88At5g42920834304unknown proteinF:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFPOO.I.H.G.S.X.
0.1710.20.88At1g18190838398GC2 (golgin candidate 2)This gene is predicted to encode a protein that functions as a Golgi apparatus structural component known as a golgin in mammals and yeast. A fluorescently-tagged version of GC2 co-localizes with Golgi markers, and this localization appears to be replicated using the C-terminal (508668 aa) portion of the protein.O.I.H.G.S.X.
0.168.80.90At5g20890832213chaperonin, putativeF:unfolded protein binding, protein binding, ATP binding;P:protein folding, cellular protein metabolic process;C:anchored to plasma membrane, cell wall;BOMFPAO.I.H.G.S.X.
0.168.80.90At1g03360839521ATRRP4 (ARABIDOPSIS THALIANA RIBOSOMAL RNA PROCESSING 4)F:RNA binding, exonuclease activity;P:unknown;C:mitochondrion;OMAFPO.I.H.G.S.X.
0.168.80.88At1g03910839371-F:unknown;P:unknown;C:unknown;MOFPBVAO.I.H.G.S.X.
0.157.80.90At5g58640835978selenoprotein-relatedF:selenium binding;P:cell redox homeostasis;C:endoplasmic reticulum, plasma membrane;MPOO.I.H.G.S.X.
0.157.80.88At5g05000830382TOC34 (TRANSLOCON AT THE OUTER ENVELOPE MEMBRANE OF CHLOROPLASTS 34)Outer membrane protein that may function in import of nuclear encoded proteins into the chloroplast.O.I.H.G.S.X.
0.124.90.88At1g61010842393CPSF73-I (CLEAVAGE AND POLYADENYLATION SPECIFICITY FACTOR 73-I)F:protein binding;P:mRNA polyadenylation;C:mRNA cleavage and polyadenylation specificity factor complex, nucleus;BOMAFPVO.I.H.G.S.X.
0.124.90.88At4g26300828736emb1027 (embryo defective 1027)F:nucleotide binding, aminoacyl-tRNA ligase activity, arginine-tRNA ligase activity, ATP binding;P:embryonic development ending in seed dormancy, arginyl-tRNA aminoacylation;C:mitochondrion, chloroplast;OBMAFPVO.I.H.G.S.X.
0.124.90.89At2g30100817561ubiquitin family proteinF:protein binding;P:protein modification process;C:chloroplast;MPBOFAVO.I.H.G.S.X.

Click More genes

Link to AtGenExpress Visualization Tool



Specific experiments for the module

Std2 GX %ile GSM ID Assay name GSE ID Experiment title Link to GEO
25.099.6GSM133117RIKEN-YAMAUCHI1AGSE5687AtGenExpress: Different temperature treatment of seedsLink to GEO
23.999.6GSM133303RIKEN-NAKABAYASHI1AGSE5700AtGenExpress: Effect of ABA during seed imbibitionLink to GEO
20.399.6GSM253651Ler 1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
19.499.6GSM143308Tsu_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
18.599.5GSM253652Ler 2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
17.499.5GSM143306High_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
17.299.5GSM143298Low_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
16.799.5GSM143307Low_Na_seg_pool_tsu_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
16.799.5E-MEXP-807-raw-cel-1173273170
16.699.5GSM253650Ler 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
16.499.5GSM253646Low_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
15.999.5GSM253649Col-0-2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
15.799.5GSM253645High_Mo_seg_pool_Ler_col_F2GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
15.599.5GSM143309Tsu_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
15.299.4GSM253648Col-0-1GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
14.399.4GSM184556Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2GSE7631Cell-specific nitrogen responses in the Arabidopsis rootLink to GEO
14.399.4GSM143310Tsu_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
14.099.4E-MEXP-807-raw-cel-1173273196
13.899.4GSM253647Col-0 3GSE10039Low_Mo_Arabidopsis_mapping_MOT1Link to GEO
12.999.3E-MEXP-807-raw-cel-1173273252
12.699.3GSM143301Ts_genomic_hyb_2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
12.399.3GSM143302Ts_genomic_hyb_1GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
12.299.3GSM143300Ts_genomic_hyb_3GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
12.299.3GSM311296Laser capture microdissected (LCM) general seed coat at the linear-cotyledon stage, biological replicate 2GSE12403Expression data from Arabidopsis seed compartments at the linear-cotyledon stageLink to GEO
11.999.3GSM143299High_Na_seg_pool_ts_col_F2GSE6203Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1Link to GEO
11.799.3GSM205435Col_ leaf_ wildtype_rep02GSE8279Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG MethylationLink to GEO
11.699.3GSM133304RIKEN-NAKABAYASHI1BGSE5700AtGenExpress: Effect of ABA during seed imbibitionLink to GEO
11.299.2GSM290758root - 01% oxygen - 48h - AGSE11558transcript profiling of the adaptive response to decreases in oxygen concentration in the roots of Arabidopsis plantsLink to GEO
9.499.1E-MEXP-807-raw-cel-1173273223

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO
0.1052GO:0006378The enzymatic addition of a sequence of 40-200 adenylyl residues at the 3' end of a eukaryotic mRNA primary transcript.Link to AmiGO
0.0952GO:0046907The directed movement of substances within a cell.Link to AmiGO
0.0582GO:0000398The joining together of exons from one or more primary transcripts of nuclear messenger RNA (mRNA) and the excision of intron sequences, via a spliceosomal mechanism, so that mRNA consisting only of the joined exons is produced.Link to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG
0.074300970Aminoacyl-tRNA biosynthesisLink to KEGG PATHWAY
0.033100860Porphyrin and chlorophyll metabolismLink to KEGG PATHWAY
0.033103060Protein exportLink to KEGG PATHWAY

Inter-species module comparison

Select a plant to compare co-expressed genes between species.
Glycine_max
Hordeum_vulgare
Oryza_sativa
Populus_trichocarpa
Triticum_aestivum
Vitis_vinifera
Zea_mays



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