GSE49485: Hypoxia transcriptome sequencing of rat brain.

• Motif significance table
• Sample table
• Mean activities
• All promoters sorted by FOV

• Activity table
• Activity delta table
• Regulatory interactions
• Motifs sorted by significance
• Expression table
• Download the whole report

Gene Symbol	Gene ID	Gene Info
Zic4 Links NCBI RGD Ensembl	ENSRNOG00000014871	Zic family member 4

Gene	Promoter	Pearson corr. coef.	P-value	Plot
Zic4	rn6_v1_chr8_+_98745310_98745310	0.79	1.1e-01	Click!

Promoter	Log-likelihood	Transcript	Gene	Gene Info
chr19_+_20607507 Show fit	0.50	ENSRNOT00000000011	Cbln1 Links NCBI RGD Ensembl Show fit	cerebellin 1 precursor
chr17_-_9695292 Show fit	0.47	ENSRNOT00000036162	Prr7 Links NCBI RGD Ensembl Show fit	proline rich 7 (synaptic)
chr10_-_40953651 Show fit	0.42	ENSRNOT00000063889	Glra1 Links NCBI RGD Ensembl Show fit	glycine receptor, alpha 1
chr6_+_33885495 Show fit	0.42	ENSRNOT00000086633	Sdc1 Links NCBI RGD Ensembl Show fit	syndecan 1
chr10_-_40953467 Show fit	0.28	ENSRNOT00000092189	Glra1 Links NCBI RGD Ensembl Show fit	glycine receptor, alpha 1
chr1_-_67390141 Show fit	0.27	ENSRNOT00000025808	Sbk1 Links NCBI RGD Ensembl Show fit	SH3 domain binding kinase 1
chr16_-_20890949 Show fit	0.26	ENSRNOT00000081977	Homer3 Links NCBI RGD Ensembl Show fit	homer scaffolding protein 3
chr1_-_209641123 Show fit	0.26	ENSRNOT00000021702	Ebf3 Links NCBI RGD Ensembl Show fit	early B-cell factor 3
chr8_-_68038533 Show fit	0.26	ENSRNOT00000018756	Skor1 Links NCBI RGD Ensembl Show fit	SKI family transcriptional corepressor 1
chr3_+_147585947 Show fit	0.24	ENSRNOT00000006833	Scrt2 Links NCBI RGD Ensembl Show fit	scratch family transcriptional repressor 2
chr3_-_2803574 Show fit	0.23	ENSRNOT00000040995	RGD1560470 Links NCBI RGD Ensembl Show fit	similar to Gene model 996
chr9_+_82120059 Show fit	0.23	ENSRNOT00000057368	Cdk5r2 Links NCBI RGD Ensembl Show fit	cyclin-dependent kinase 5 regulatory subunit 2
chr9_-_79545024 Show fit	0.20	ENSRNOT00000021152	Mreg Links NCBI RGD Ensembl Show fit	melanoregulin
chr1_+_197659187 Show fit	0.19	ENSRNOT00000082228	LOC103690016 Links NCBI RGD Ensembl Show fit	serine/threonine-protein kinase SBK1
chr1_+_266953139 Show fit	0.18	ENSRNOT00000054696	Neurl1 Links NCBI RGD Ensembl Show fit	neuralized E3 ubiquitin protein ligase 1
chr9_-_119653255 Show fit	0.17	ENSRNOT00000056272	Emilin2 Links NCBI RGD Ensembl Show fit	elastin microfibril interfacer 2
chr5_+_135962911 Show fit	0.15	ENSRNOT00000087353	Ptch2 Links NCBI RGD Ensembl Show fit	patched 2
chr13_+_71107465 Show fit	0.12	ENSRNOT00000003239	Rgs8 Links NCBI RGD Ensembl Show fit	regulator of G-protein signaling 8
chr1_+_185356975 Show fit	0.12	ENSRNOT00000086681	Plekha7 Links NCBI RGD Ensembl Show fit	pleckstrin homology domain containing A7
chr6_-_126582034 Show fit	0.10	ENSRNOT00000010656 ENSRNOT00000080829	Itpk1 Links NCBI RGD Ensembl Show fit	inositol-tetrakisphosphate 1-kinase
chr9_+_94980409 Show fit	0.10	ENSRNOT00000035338	Dgkd Links NCBI RGD Ensembl Show fit	diacylglycerol kinase, delta
chr11_+_71872830 Show fit	0.10	ENSRNOT00000050364	Nrros Links NCBI RGD Ensembl Show fit	negative regulator of reactive oxygen species
chr3_-_148428288 Show fit	0.08	ENSRNOT00000072663	Dusp15 Links NCBI RGD Ensembl Show fit	dual specificity phosphatase 15
chr4_-_82160240 Show fit	0.08	ENSRNOT00000038775 ENSRNOT00000058985	Hoxa4 Links NCBI RGD Ensembl Show fit	homeo box A4
chr10_+_48240127 Show fit	0.08	ENSRNOT00000080682	Specc1 Links NCBI RGD Ensembl Show fit	sperm antigen with calponin homology and coiled-coil domains 1
chr1_-_216663720 Show fit	0.08	ENSRNOT00000078944 ENSRNOT00000077409	Cdkn1c Links NCBI RGD Ensembl Show fit	cyclin-dependent kinase inhibitor 1C
chr9_-_16519144 Show fit	0.07	ENSRNOT00000072581	LOC681367 Links NCBI RGD Ensembl Show fit	hypothetical protein LOC681367
chr16_-_20686317 Show fit	0.07	ENSRNOT00000060097	Crlf1 Links NCBI RGD Ensembl Show fit	cytokine receptor-like factor 1
chr3_+_112916217 Show fit	0.07	ENSRNOT00000030065	Tmem62 Links NCBI RGD Ensembl Show fit	transmembrane protein 62
chr1_-_78997869 Show fit	0.07	ENSRNOT00000023490	Hif3a Links NCBI RGD Ensembl Show fit	hypoxia inducible factor 3, alpha subunit
chr13_-_51076165 Show fit	0.07	ENSRNOT00000004602	Adora1 Links NCBI RGD Ensembl Show fit	adenosine A1 receptor
chrX_-_157312028 Show fit	0.06	ENSRNOT00000077979	Atp2b3 Links NCBI RGD Ensembl Show fit	ATPase plasma membrane Ca2+ transporting 3
chr14_-_84170301 Show fit	0.06	ENSRNOT00000080413	Slc35e4 Links NCBI RGD Ensembl Show fit	solute carrier family 35, member E4
chr7_-_144960527 Show fit	0.06	ENSRNOT00000086554	Zfp385a Links NCBI RGD Ensembl Show fit	zinc finger protein 385A
chr10_+_106812739 Show fit	0.06	ENSRNOT00000074225	Syngr2 Links NCBI RGD Ensembl Show fit	synaptogyrin 2
chr1_+_226435979 Show fit	0.06	ENSRNOT00000048704 ENSRNOT00000036232 ENSRNOT00000035576 ENSRNOT00000036180 ENSRNOT00000036168 ENSRNOT00000047964 ENSRNOT00000036283 ENSRNOT00000007429	Syt7 Links NCBI RGD Ensembl Show fit	synaptotagmin 7
chr7_+_116943057 Show fit	0.06	ENSRNOT00000056527	Tigd5 Links NCBI RGD Ensembl Show fit	tigger transposable element derived 5
chr4_-_77747070 Show fit	0.06	ENSRNOT00000009247	Zfp746 Links NCBI RGD Ensembl Show fit	zinc finger protein 746
chr20_-_3822754 Show fit	0.05	ENSRNOT00000000541 ENSRNOT00000077357	Slc39a7 Links NCBI RGD Ensembl Show fit	solute carrier family 39 member 7
chr2_+_187512164 Show fit	0.05	ENSRNOT00000051394	Mef2d Links NCBI RGD Ensembl Show fit	myocyte enhancer factor 2D
chr3_+_110982553 Show fit	0.05	ENSRNOT00000030754	LOC691418 Links NCBI RGD Ensembl Show fit	hypothetical protein LOC691418
chr2_+_95008477 Show fit	0.05	ENSRNOT00000015327	Tpd52 Links NCBI RGD Ensembl Show fit	tumor protein D52
chr7_+_130474279 Show fit	0.05	ENSRNOT00000092388	Shank3 Links NCBI RGD Ensembl Show fit	SH3 and multiple ankyrin repeat domains 3
chr10_-_75270561 Show fit	0.05	ENSRNOT00000012279	Dynll2 Links NCBI RGD Ensembl Show fit	dynein light chain LC8-type 2
chr10_+_48240330 Show fit	0.05	ENSRNOT00000057798	Specc1 Links NCBI RGD Ensembl Show fit	sperm antigen with calponin homology and coiled-coil domains 1
chr7_+_130474508 Show fit	0.05	ENSRNOT00000085191	Shank3 Links NCBI RGD Ensembl Show fit	SH3 and multiple ankyrin repeat domains 3
chr1_-_204605552 Show fit	0.05	ENSRNOT00000022904	Nkx1-2 Links NCBI RGD Ensembl Show fit	NK1 homeobox 2
chr1_-_212549477 Show fit	0.05	ENSRNOT00000024765	Caly Links NCBI RGD Ensembl Show fit	calcyon neuron-specific vesicular protein
chr6_-_6842758 Show fit	0.05	ENSRNOT00000006094	Kcng3 Links NCBI RGD Ensembl Show fit	potassium voltage-gated channel modifier subfamily G member 3
chr10_+_43224269 Show fit	0.04	ENSRNOT00000003473	Sap30l Links NCBI RGD Ensembl Show fit	SAP30-like
chr19_-_43596801 Show fit	0.04	ENSRNOT00000025625	Fa2h Links NCBI RGD Ensembl Show fit	fatty acid 2-hydroxylase
chr9_+_10956056 Show fit	0.04	ENSRNOT00000073930	Plin5 Links NCBI RGD Ensembl Show fit	perilipin 5
chr8_-_36760742 Show fit	0.04	ENSRNOT00000017307	Ddx25 Links NCBI RGD Ensembl Show fit	DEAD-box helicase 25
chr5_-_150323063 Show fit	0.04	ENSRNOT00000014084	Oprd1 Links NCBI RGD Ensembl Show fit	opioid receptor, delta 1
chr10_-_91047177 Show fit	0.04	ENSRNOT00000003986	C1ql1 Links NCBI RGD Ensembl Show fit	complement C1q like 1
chr16_+_59197367 Show fit	0.04	ENSRNOT00000014924	Dlc1 Links NCBI RGD Ensembl Show fit	DLC1 Rho GTPase activating protein
chr7_-_139318455 Show fit	0.03	ENSRNOT00000092029	Hdac7 Links NCBI RGD Ensembl Show fit	histone deacetylase 7
chr3_+_175885894 Show fit	0.03	ENSRNOT00000039780	Ntsr1 Links NCBI RGD Ensembl Show fit	neurotensin receptor 1
chr2_-_211831551 Show fit	0.03	ENSRNOT00000039225 ENSRNOT00000090561	Fam102b Links NCBI RGD Ensembl Show fit	family with sequence similarity 102, member B
chr10_-_46145548 Show fit	0.03	ENSRNOT00000033483	Pld6 Links NCBI RGD Ensembl Show fit	phospholipase D family, member 6
chr1_-_165967069 Show fit	0.03	ENSRNOT00000089359	Arhgef17 Links NCBI RGD Ensembl Show fit	Rho guanine nucleotide exchange factor (GEF) 17
chr6_+_69950500 Show fit	0.03	ENSRNOT00000049500	RGD1559629 Links NCBI RGD Ensembl Show fit	similar to H+ ATP synthase
chr7_+_117963740 Show fit	0.03	ENSRNOT00000075405	LOC108348189 Links NCBI RGD Ensembl Show fit	COMM domain-containing protein 5
chr10_-_105795958 Show fit	0.03	ENSRNOT00000067739	Srsf2 Links NCBI RGD Ensembl Show fit	serine and arginine rich splicing factor 2
chr13_+_110920830 Show fit	0.03	ENSRNOT00000077014 ENSRNOT00000076362	Kcnh1 Links NCBI RGD Ensembl Show fit	potassium voltage-gated channel subfamily H member 1
chr19_+_37600148 Show fit	0.02	ENSRNOT00000023853	Ctcf Links NCBI RGD Ensembl Show fit	CCCTC-binding factor
chr8_+_117246376 Show fit	0.02	ENSRNOT00000074493	Ccdc71 Links NCBI RGD Ensembl Show fit	coiled-coil domain containing 71
chr1_+_216293087 Show fit	0.02	ENSRNOT00000027875 ENSRNOT00000087153	Kcnq1 Links NCBI RGD Ensembl Show fit	potassium voltage-gated channel subfamily Q member 1
chr1_-_199270627 Show fit	0.02	ENSRNOT00000026063	Stx1b Links NCBI RGD Ensembl Show fit	syntaxin 1B
chr3_+_72540538 Show fit	0.02	ENSRNOT00000012379	Aplnr Links NCBI RGD Ensembl Show fit	apelin receptor
chr10_+_80790168 Show fit	0.02	ENSRNOT00000073315 ENSRNOT00000075163	Car10 Links NCBI RGD Ensembl Show fit	carbonic anhydrase 10
chr19_+_44164935 Show fit	0.02	ENSRNOT00000048998	Gabarapl2 Links NCBI RGD Ensembl Show fit	GABA type A receptor associated protein like 2
chr2_+_231962517 Show fit	0.02	ENSRNOT00000014570	Neurog2 Links NCBI RGD Ensembl Show fit	neurogenin 2
chr5_+_154112076 Show fit	0.02	ENSRNOT00000044969	Myom3 Links NCBI RGD Ensembl Show fit	myomesin 3
chr16_+_59988603 Show fit	0.02	ENSRNOT00000015176	Cldn23 Links NCBI RGD Ensembl Show fit	claudin 23
chr10_-_92008082 Show fit	0.02	ENSRNOT00000006361	Nsf Links NCBI RGD Ensembl Show fit	N-ethylmaleimide sensitive factor, vesicle fusing ATPase
chr18_+_3995921 Show fit	0.02	ENSRNOT00000091424	Ttc39c Links NCBI RGD Ensembl Show fit	tetratricopeptide repeat domain 39C
chr16_+_17538855 Show fit	0.02	ENSRNOT00000014772	Tspan14 Links NCBI RGD Ensembl Show fit	tetraspanin 14
chr1_-_65551043 Show fit	0.02	ENSRNOT00000029996	Trim28 Links NCBI RGD Ensembl Show fit	tripartite motif-containing 28
chr3_+_3310954 Show fit	0.02	ENSRNOT00000061773	Kcnt1 Links NCBI RGD Ensembl Show fit	potassium sodium-activated channel subfamily T member 1
chr5_+_159914931 Show fit	0.01	ENSRNOT00000037202	Fam131c Links NCBI RGD Ensembl Show fit	family with sequence similarity 131, member C
chr7_-_75422268 Show fit	0.01	ENSRNOT00000080218	Pabpc1 Links NCBI RGD Ensembl Show fit	poly(A) binding protein, cytoplasmic 1
chr4_+_49369296 Show fit	0.01	ENSRNOT00000007822	Wnt16 Links NCBI RGD Ensembl Show fit	wingless-type MMTV integration site family, member 16
chr19_+_39229754 Show fit	0.01	ENSRNOT00000050612	Vps4a Links NCBI RGD Ensembl Show fit	vacuolar protein sorting 4 homolog A
chr1_+_219348721 Show fit	0.01	ENSRNOT00000025084	Pitpnm1 Links NCBI RGD Ensembl Show fit	phosphatidylinositol transfer protein, membrane-associated 1
chr7_+_144078496 Show fit	0.01	ENSRNOT00000055302	Pcbp2 Links NCBI RGD Ensembl Show fit	poly(rC) binding protein 2
chr1_-_80689171 Show fit	0.01	ENSRNOT00000045574	Bcam Links NCBI RGD Ensembl Show fit	basal cell adhesion molecule (Lutheran blood group)
chr14_+_86101277 Show fit	0.01	ENSRNOT00000018846	Aebp1 Links NCBI RGD Ensembl Show fit	AE binding protein 1
chr8_+_50310405 Show fit	0.01	ENSRNOT00000073507	Sik3 Links NCBI RGD Ensembl Show fit	SIK family kinase 3
chr1_+_154377447 Show fit	0.01	ENSRNOT00000084268 ENSRNOT00000092086 ENSRNOT00000091470 ENSRNOT00000025415	Picalm Links NCBI RGD Ensembl Show fit	phosphatidylinositol binding clathrin assembly protein
chr3_-_148428494 Show fit	0.01	ENSRNOT00000011350	Dusp15 Links NCBI RGD Ensembl Show fit	dual specificity phosphatase 15
chr5_-_28131133 Show fit	0.01	ENSRNOT00000067331	Slc26a7 Links NCBI RGD Ensembl Show fit	solute carrier family 26 member 7
chr2_+_95008311 Show fit	0.01	ENSRNOT00000077270	Tpd52 Links NCBI RGD Ensembl Show fit	tumor protein D52
chr1_-_84491466 Show fit	0.01	ENSRNOT00000034609	Map3k10 Links NCBI RGD Ensembl Show fit	mitogen activated protein kinase kinase kinase 10
chr11_+_75434197 Show fit	0.01	ENSRNOT00000032569	Mb21d2 Links NCBI RGD Ensembl Show fit	Mab-21 domain containing 2
chr10_+_105498728 Show fit	0.01	ENSRNOT00000032163	Sphk1 Links NCBI RGD Ensembl Show fit	sphingosine kinase 1
chr7_+_140788987 Show fit	0.01	ENSRNOT00000086611	Kcnh3 Links NCBI RGD Ensembl Show fit	potassium voltage-gated channel subfamily H member 3
chr5_-_40237591 Show fit	0.01	ENSRNOT00000011393	Fut9 Links NCBI RGD Ensembl Show fit	fucosyltransferase 9
chr12_+_25036605 Show fit	0.01	ENSRNOT00000001996 ENSRNOT00000084427	Limk1 Links NCBI RGD Ensembl Show fit	LIM domain kinase 1
chr7_-_139254149 Show fit	0.01	ENSRNOT00000078644	Rapgef3 Links NCBI RGD Ensembl Show fit	Rap guanine nucleotide exchange factor 3
chr15_-_33766438 Show fit	0.01	ENSRNOT00000033977	Ap1g2 Links NCBI RGD Ensembl Show fit	adaptor-related protein complex 1, gamma 2 subunit
chr7_+_116355911 Show fit	0.01	ENSRNOT00000076182	Ly6e Links NCBI RGD Ensembl Show fit	lymphocyte antigen 6 complex, locus E
chr4_+_175431904 Show fit	0.01	ENSRNOT00000032843	Pde3a Links NCBI RGD Ensembl Show fit	phosphodiesterase 3A
chr7_+_54031316 Show fit	0.00	ENSRNOT00000039096	Bbs10 Links NCBI RGD Ensembl Show fit	Bardet-Biedl syndrome 10
chr13_-_48284990 Show fit	0.00	ENSRNOT00000086928	Srgap2 Links NCBI RGD Ensembl Show fit	SLIT-ROBO Rho GTPase activating protein 2
chr8_+_67295727 Show fit	0.00	ENSRNOT00000020443	Anp32a Links NCBI RGD Ensembl Show fit	acidic nuclear phosphoprotein 32 family member A
chr10_+_6975244 Show fit	0.00	ENSRNOT00000046232	Usp7 Links NCBI RGD Ensembl Show fit	ubiquitin specific peptidase 7
chr6_-_50786967 Show fit	0.00	ENSRNOT00000009566	Cbll1 Links NCBI RGD Ensembl Show fit	Cbl proto-oncogene like 1
chr4_+_34238440 Show fit	0.00	ENSRNOT00000010952	Mios Links NCBI RGD Ensembl Show fit	meiosis regulator for oocyte development
chr16_+_23317953 Show fit	0.00	ENSRNOT00000075287	AABR07024972.1 Links NCBI RGD Ensembl Show fit
chr4_+_132137793 Show fit	0.00	ENSRNOT00000014455	Gpr27 Links NCBI RGD Ensembl Show fit	G protein-coupled receptor 27
chr5_-_74191167 Show fit	0.00	ENSRNOT00000088169	Epb41l4b Links NCBI RGD Ensembl Show fit	erythrocyte membrane protein band 4.1 like 4B
chr7_-_117786872 Show fit	0.00	ENSRNOT00000030517	Lrrc24 Links NCBI RGD Ensembl Show fit	leucine rich repeat containing 24

View svg image
View png image

Gene overrepresentation in biological process category:

Log-likelihood per target	Total log-likelihood	Term	Description
0.1	0.4	GO:1903553	positive regulation of extracellular exosome assembly(GO:1903553)
0.1	0.7	GO:2000344	negative regulation of transmission of nerve impulse(GO:0051970) positive regulation of acrosome reaction(GO:2000344)
0.1	0.2	GO:0021586	pons maturation(GO:0021586)
0.0	0.5	GO:0021707	cerebellar granular layer formation(GO:0021684) cerebellar granule cell differentiation(GO:0021707)
0.0	0.1	GO:0097117	guanylate kinase-associated protein clustering(GO:0097117)
0.0	0.1	GO:0045218	zonula adherens maintenance(GO:0045218)
0.0	0.1	GO:0032242	regulation of nucleoside transport(GO:0032242) negative regulation of neurotrophin production(GO:0032900) negative regulation of circadian sleep/wake cycle, non-REM sleep(GO:0042323) negative regulation of mucus secretion(GO:0070256) negative regulation of long term synaptic depression(GO:1900453)
0.0	0.1	GO:1990926	short-term synaptic potentiation(GO:1990926)
0.0	0.1	GO:1902746	regulation of lens fiber cell differentiation(GO:1902746)
0.0	0.1	GO:0010609	mRNA localization resulting in posttranscriptional regulation of gene expression(GO:0010609) positive regulation of DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator(GO:1902164)
0.0	0.1	GO:2000672	negative regulation of motor neuron apoptotic process(GO:2000672)
0.0	0.0	GO:0035359	negative regulation of peroxisome proliferator activated receptor signaling pathway(GO:0035359)
0.0	0.2	GO:0045741	positive regulation of epidermal growth factor-activated receptor activity(GO:0045741)
0.0	0.0	GO:0089718	amino acid import across plasma membrane(GO:0089718)
0.0	0.0	GO:0007314	oocyte construction(GO:0007308) oocyte axis specification(GO:0007309) oocyte anterior/posterior axis specification(GO:0007314) pole plasm assembly(GO:0007315) maternal determination of anterior/posterior axis, embryo(GO:0008358) P granule organization(GO:0030719)

Gene overrepresentation in cellular component category:

Log-likelihood per target	Total log-likelihood	Term	Description
0.1	0.2	GO:0016533	cyclin-dependent protein kinase 5 holoenzyme complex(GO:0016533)
0.0	0.1	GO:0097058	CRLF-CLCF1 complex(GO:0097058)
0.0	0.6	GO:0060077	inhibitory synapse(GO:0060077)
0.0	0.1	GO:0005915	zonula adherens(GO:0005915)

Gene overrepresentation in molecular function category:

Log-likelihood per target	Total log-likelihood	Term	Description
0.2	0.7	GO:0030977	taurine binding(GO:0030977)
0.0	0.1	GO:0030160	GKAP/Homer scaffold activity(GO:0030160)
0.0	0.1	GO:0032795	heterotrimeric G-protein binding(GO:0032795)
0.0	0.1	GO:0005127	ciliary neurotrophic factor receptor binding(GO:0005127)
0.0	0.0	GO:0044378	non-sequence-specific DNA binding, bending(GO:0044378)
0.0	0.1	GO:0051766	inositol trisphosphate kinase activity(GO:0051766)

Gene overrepresentation in curated gene sets: canonical pathways category:

Log-likelihood per target	Total log-likelihood	Term	Description
0.0	0.4	PID INTEGRIN5 PATHWAY	Beta5 beta6 beta7 and beta8 integrin cell surface interactions

Gene overrepresentation in curated gene sets: REACTOME pathways category:

Log-likelihood per target	Total log-likelihood	Term	Description
0.0	0.4	REACTOME CHYLOMICRON MEDIATED LIPID TRANSPORT	Genes involved in Chylomicron-mediated lipid transport
0.0	0.6	REACTOME LIGAND GATED ION CHANNEL TRANSPORT	Genes involved in Ligand-gated ion channel transport