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PRJNA438478: RNAseq of wild type zebrafish germline
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Results for irx5a+irx5b_irx3a+irx3b
Z-value: 0.60
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Transcription factors associated with irx5a+irx5b_irx3a+irx3b
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| irx3b | dr11_v1_chr25_-_36492779_36492779 | -0.83 | 1.9e-05 | Click! |
| irx5a | dr11_v1_chr7_-_35708450_35708450 | -0.60 | 9.0e-03 | Click! |
| irx3a | dr11_v1_chr7_+_36035432_36035432 | -0.29 | 2.5e-01 | Click! |
| irx5b | dr11_v1_chr25_+_36152215_36152215 | 0.07 | 7.8e-01 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| chr23_-_44574059 Show fit | 2.27 |
ENSDART00000123007
|
si:ch73-160p18.3 |
|
| chr10_-_22912255 Show fit | 1.37 |
ENSDART00000131992
|
si:ch1073-143l10.2 |
|
| chr15_-_35126332 Show fit | 1.27 |
ENSDART00000007636
|
zgc:55413 |
|
| chr6_+_33076839 Show fit | 1.20 |
ENSDART00000073755
ENSDART00000122242 |
protein O-linked mannose N-acetylglucosaminyltransferase 1 (beta 1,2-) |
|
| chr2_+_205763 Show fit | 1.18 |
ENSDART00000160164
ENSDART00000101071 |
zgc:113293 |
|
| chr9_+_426392 Show fit | 1.11 |
ENSDART00000172515
|
basic leucine zipper and W2 domains 1b |
|
| chr12_+_20693743 Show fit | 0.97 |
ENSDART00000153023
ENSDART00000153370 |
ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 1, tandem duplicate 2 |
|
| chr1_-_23293261 Show fit | 0.97 |
ENSDART00000122648
|
UDP-glucose 6-dehydrogenase |
|
| chr16_-_47381519 Show fit | 0.94 |
ENSDART00000032188
ENSDART00000150136 |
si:dkey-256h2.1 |
|
| chr5_+_66170479 Show fit | 0.94 |
ENSDART00000172117
|
glycine dehydrogenase (decarboxylating) |
Network of associatons between targets according to the STRING database.
First level regulatory network of irx5a+irx5b_irx3a+irx3b
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 1.5 | GO:0007030 | Golgi organization(GO:0007030) |
| 0.3 | 1.4 | GO:0039689 | viral genome replication(GO:0019079) negative stranded viral RNA replication(GO:0039689) viral RNA genome replication(GO:0039694) RNA replication(GO:0039703) multi-organism biosynthetic process(GO:0044034) |
| 0.2 | 1.2 | GO:0016266 | O-glycan processing(GO:0016266) |
| 0.0 | 1.2 | GO:0030166 | proteoglycan biosynthetic process(GO:0030166) |
| 0.1 | 1.1 | GO:0015693 | magnesium ion transport(GO:0015693) |
| 0.2 | 1.0 | GO:0061668 | mitochondrial ribosome assembly(GO:0061668) |
| 0.1 | 1.0 | GO:0006348 | chromatin silencing at telomere(GO:0006348) |
| 0.0 | 1.0 | GO:0015701 | bicarbonate transport(GO:0015701) |
| 0.0 | 1.0 | GO:0045010 | actin nucleation(GO:0045010) |
| 0.2 | 0.9 | GO:0006546 | glycine catabolic process(GO:0006546) glycine decarboxylation via glycine cleavage system(GO:0019464) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 3.0 | GO:0005730 | nucleolus(GO:0005730) |
| 0.0 | 1.7 | GO:0030139 | endocytic vesicle(GO:0030139) |
| 0.0 | 1.4 | GO:0000421 | autophagosome membrane(GO:0000421) |
| 0.0 | 1.4 | GO:0005884 | actin filament(GO:0005884) |
| 0.0 | 1.3 | GO:0033116 | endoplasmic reticulum-Golgi intermediate compartment membrane(GO:0033116) |
| 0.0 | 1.0 | GO:0090544 | BAF-type complex(GO:0090544) |
| 0.0 | 1.0 | GO:0031228 | integral component of Golgi membrane(GO:0030173) intrinsic component of Golgi membrane(GO:0031228) |
| 0.3 | 0.9 | GO:0005960 | glycine cleavage complex(GO:0005960) |
| 0.2 | 0.9 | GO:0031298 | replication fork protection complex(GO:0031298) |
| 0.1 | 0.8 | GO:0031261 | DNA replication preinitiation complex(GO:0031261) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 1.7 | GO:0003688 | DNA replication origin binding(GO:0003688) |
| 0.0 | 1.7 | GO:0003724 | RNA helicase activity(GO:0003724) |
| 0.0 | 1.4 | GO:0000049 | tRNA binding(GO:0000049) |
| 0.1 | 1.1 | GO:0035198 | miRNA binding(GO:0035198) |
| 0.1 | 1.1 | GO:0046975 | histone methyltransferase activity (H3-K36 specific)(GO:0046975) |
| 0.1 | 1.1 | GO:0015095 | magnesium ion transmembrane transporter activity(GO:0015095) |
| 0.0 | 1.1 | GO:0008375 | acetylglucosaminyltransferase activity(GO:0008375) |
| 0.0 | 1.1 | GO:0004386 | helicase activity(GO:0004386) |
| 0.2 | 1.0 | GO:0003979 | UDP-glucose 6-dehydrogenase activity(GO:0003979) |
| 0.0 | 1.0 | GO:0005452 | inorganic anion exchanger activity(GO:0005452) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 1.5 | PID DNA PK PATHWAY | DNA-PK pathway in nonhomologous end joining |
| 0.0 | 1.2 | PID PRL SIGNALING EVENTS PATHWAY | Signaling events mediated by PRL |
| 0.0 | 1.2 | PID MYC ACTIV PATHWAY | Validated targets of C-MYC transcriptional activation |
| 0.0 | 1.1 | PID IL12 2PATHWAY | IL12-mediated signaling events |
| 0.0 | 0.7 | PID AURORA A PATHWAY | Aurora A signaling |
| 0.0 | 0.6 | PID ERBB2 ERBB3 PATHWAY | ErbB2/ErbB3 signaling events |
| 0.0 | 0.5 | ST G ALPHA S PATHWAY | G alpha s Pathway |
| 0.0 | 0.5 | PID RANBP2 PATHWAY | Sumoylation by RanBP2 regulates transcriptional repression |
| 0.0 | 0.5 | PID RET PATHWAY | Signaling events regulated by Ret tyrosine kinase |
| 0.0 | 0.4 | PID ARF6 PATHWAY | Arf6 signaling events |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 2.0 | REACTOME ACTIVATION OF THE PRE REPLICATIVE COMPLEX | Genes involved in Activation of the pre-replicative complex |
| 0.1 | 1.3 | REACTOME A TETRASACCHARIDE LINKER SEQUENCE IS REQUIRED FOR GAG SYNTHESIS | Genes involved in A tetrasaccharide linker sequence is required for GAG synthesis |
| 0.2 | 0.9 | REACTOME INTEGRATION OF PROVIRUS | Genes involved in Integration of provirus |
| 0.1 | 0.9 | REACTOME METABOLISM OF POLYAMINES | Genes involved in Metabolism of polyamines |
| 0.0 | 0.8 | REACTOME MITOCHONDRIAL PROTEIN IMPORT | Genes involved in Mitochondrial Protein Import |
| 0.0 | 0.8 | REACTOME PPARA ACTIVATES GENE EXPRESSION | Genes involved in PPARA Activates Gene Expression |
| 0.1 | 0.7 | REACTOME ACTIVATION OF BH3 ONLY PROTEINS | Genes involved in Activation of BH3-only proteins |
| 0.0 | 0.7 | REACTOME IRON UPTAKE AND TRANSPORT | Genes involved in Iron uptake and transport |
| 0.0 | 0.7 | REACTOME RIP MEDIATED NFKB ACTIVATION VIA DAI | Genes involved in RIP-mediated NFkB activation via DAI |
| 0.0 | 0.7 | REACTOME SMOOTH MUSCLE CONTRACTION | Genes involved in Smooth Muscle Contraction |