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GSE130291:vernalization in Arabidopsis thaliana
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Results for AT1G49010
Z-value: 3.84
Transcription factors associated with AT1G49010
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
|
AT1G49010
|
AT1G49010 | Duplicated homeodomain-like superfamily protein |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| AT1G49010 | arTal_v1_Chr1_+_18132545_18132545 | 0.94 | 7.7e-07 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| arTal_v1_Chr2_-_17710433_17710433 Show fit | 5.62 |
AT2G42530.1
|
cold regulated 15b |
|
| arTal_v1_Chr2_+_538250_538250 Show fit | 4.93 |
AT2G02120.1
|
Scorpion toxin-like knottin superfamily protein |
|
| arTal_v1_Chr5_+_20151163_20151163 Show fit | 4.54 |
AT5G49640.1
|
hypothetical protein |
|
| arTal_v1_Chr3_-_2699257_2699257 Show fit | 4.39 |
AT3G08860.2
|
PYRIMIDINE 4 |
|
| arTal_v1_Chr3_-_2699420_2699420 Show fit | 4.30 |
AT3G08860.1
|
PYRIMIDINE 4 |
|
| arTal_v1_Chr2_-_6493512_6493512 Show fit | 4.16 |
AT2G15020.1
|
hypothetical protein |
|
| arTal_v1_Chr5_-_21992812_21992814 Show fit | 3.96 |
AT5G54190.2
AT5G54190.1 |
protochlorophyllide oxidoreductase A |
|
| arTal_v1_Chr1_+_6763765_6763915 Show fit | 3.85 |
AT1G19530.1
AT1G19530.2 |
DNA polymerase epsilon catalytic subunit A |
|
| arTal_v1_Chr1_+_18546086_18546165 Show fit | 3.85 |
AT1G50050.2
AT1G50050.1 |
CAP (Cysteine-rich secretory proteins, Antigen 5, and Pathogenesis-related 1 protein) superfamily protein |
|
| arTal_v1_Chr4_-_7406994_7406994 Show fit | 3.82 |
AT4G12480.1
|
Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin superfamily protein |
Network of associatons between targets according to the STRING database.
First level regulatory network of AT1G49010
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.4 | 19.4 | GO:0015995 | chlorophyll biosynthetic process(GO:0015995) |
| 0.2 | 17.4 | GO:0009658 | chloroplast organization(GO:0009658) |
| 0.1 | 16.0 | GO:0043043 | translation(GO:0006412) peptide biosynthetic process(GO:0043043) |
| 0.4 | 14.9 | GO:0072596 | protein targeting to chloroplast(GO:0045036) establishment of protein localization to chloroplast(GO:0072596) |
| 0.3 | 14.2 | GO:0009911 | positive regulation of flower development(GO:0009911) |
| 0.8 | 12.8 | GO:1901259 | chloroplast rRNA processing(GO:1901259) |
| 0.3 | 12.3 | GO:0043562 | cellular response to nitrogen levels(GO:0043562) |
| 0.1 | 11.8 | GO:0000398 | mRNA splicing, via spliceosome(GO:0000398) |
| 0.0 | 11.3 | GO:0016567 | protein ubiquitination(GO:0016567) |
| 1.9 | 11.1 | GO:0055129 | L-proline biosynthetic process(GO:0055129) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 209.4 | GO:0005829 | cytosol(GO:0005829) |
| 0.0 | 170.3 | GO:0005634 | nucleus(GO:0005634) |
| 0.1 | 159.5 | GO:0009536 | plastid(GO:0009536) |
| 0.2 | 61.9 | GO:0042651 | thylakoid membrane(GO:0042651) |
| 0.1 | 45.5 | GO:0009941 | chloroplast envelope(GO:0009941) |
| 0.1 | 41.9 | GO:0009570 | chloroplast stroma(GO:0009570) |
| 0.4 | 26.2 | GO:0009707 | chloroplast outer membrane(GO:0009707) |
| 0.2 | 24.8 | GO:0000790 | nuclear chromatin(GO:0000790) |
| 0.3 | 16.9 | GO:0031969 | chloroplast membrane(GO:0031969) |
| 0.2 | 16.5 | GO:0009534 | chloroplast thylakoid(GO:0009534) plastid thylakoid(GO:0031976) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 87.5 | GO:0001071 | nucleic acid binding transcription factor activity(GO:0001071) transcription factor activity, sequence-specific DNA binding(GO:0003700) |
| 0.2 | 31.1 | GO:0043531 | ADP binding(GO:0043531) |
| 0.2 | 30.5 | GO:0000978 | RNA polymerase II core promoter proximal region sequence-specific DNA binding(GO:0000978) |
| 0.1 | 28.3 | GO:0042802 | identical protein binding(GO:0042802) |
| 0.0 | 23.2 | GO:0003723 | RNA binding(GO:0003723) |
| 0.1 | 23.1 | GO:0004842 | ubiquitin-protein transferase activity(GO:0004842) |
| 0.1 | 21.4 | GO:0004674 | protein serine/threonine kinase activity(GO:0004674) |
| 0.6 | 20.9 | GO:0050135 | NAD(P)+ nucleosidase activity(GO:0050135) |
| 0.3 | 20.9 | GO:0003724 | RNA helicase activity(GO:0003724) |
| 0.2 | 16.0 | GO:0051015 | actin filament binding(GO:0051015) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 1.0 | 5.1 | PID CIRCADIAN PATHWAY | Circadian rhythm pathway |
| 0.2 | 2.2 | PID NOTCH PATHWAY | Notch signaling pathway |
| 0.4 | 2.1 | ST DIFFERENTIATION PATHWAY IN PC12 CELLS | Differentiation Pathway in PC12 Cells; this is a specific case of PAC1 Receptor Pathway. |
| 0.4 | 1.4 | PID S1P S1P1 PATHWAY | S1P1 pathway |
| 0.1 | 1.4 | PID P53 DOWNSTREAM PATHWAY | Direct p53 effectors |
| 0.3 | 1.3 | PID VEGF VEGFR PATHWAY | VEGF and VEGFR signaling network |
| 0.1 | 1.3 | PID ERBB1 DOWNSTREAM PATHWAY | ErbB1 downstream signaling |
| 0.2 | 1.2 | PID AP1 PATHWAY | AP-1 transcription factor network |
| 0.3 | 1.0 | PID ENDOTHELIN PATHWAY | Endothelins |
| 0.2 | 1.0 | PID BARD1 PATHWAY | BARD1 signaling events |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.2 | 5.6 | REACTOME NONSENSE MEDIATED DECAY ENHANCED BY THE EXON JUNCTION COMPLEX | Genes involved in Nonsense Mediated Decay Enhanced by the Exon Junction Complex |
| 1.1 | 4.2 | REACTOME BMAL1 CLOCK NPAS2 ACTIVATES CIRCADIAN EXPRESSION | Genes involved in BMAL1:CLOCK/NPAS2 Activates Circadian Expression |
| 0.9 | 3.5 | REACTOME LOSS OF NLP FROM MITOTIC CENTROSOMES | Genes involved in Loss of Nlp from mitotic centrosomes |
| 0.4 | 3.4 | REACTOME METABOLISM OF AMINO ACIDS AND DERIVATIVES | Genes involved in Metabolism of amino acids and derivatives |
| 0.5 | 2.5 | REACTOME SLC MEDIATED TRANSMEMBRANE TRANSPORT | Genes involved in SLC-mediated transmembrane transport |
| 0.2 | 2.4 | REACTOME PPARA ACTIVATES GENE EXPRESSION | Genes involved in PPARA Activates Gene Expression |
| 0.5 | 1.9 | REACTOME SIGNALLING TO ERKS | Genes involved in Signalling to ERKs |
| 0.6 | 1.8 | REACTOME NRAGE SIGNALS DEATH THROUGH JNK | Genes involved in NRAGE signals death through JNK |
| 0.4 | 1.7 | REACTOME FORMATION OF THE TERNARY COMPLEX AND SUBSEQUENTLY THE 43S COMPLEX | Genes involved in Formation of the ternary complex, and subsequently, the 43S complex |
| 0.4 | 1.6 | REACTOME FANCONI ANEMIA PATHWAY | Genes involved in Fanconi Anemia pathway |