EMBO/SourceData huggingface dataset:
Figure legend: "G. ERK7 overexpression in the fat body results in reduced TAG levels, while kinase-dead (K54R) and activation loop phosphorylation-deficient (T190A/Y192F) mutants of ERK7 do not influence the TAG storage (N=4 replicates of ≥10 larvae/replicate for each genotype)."
NCBI gene IDs:
"ERK7: 31877"
Figure legend: "H- ERK7 expressing, GFP-marked, fat body clone (H, marked by yellow dotted line; scale bar: 50 µm) visualized by LipidTOX staining (N=11 for control and 4 for ERK7 overexpression)."
NCBI gene IDs:
"ERK7: 31877"
Figure legend: "ERK7 expressing, fat body clone contains less (I) and smaller (J) lipid droplets than control cells (N=11 for control and 4 for ERK7 overexpression)."
NCBI gene IDs:
"ERK7: 31877"
Figure legend: "K. qRT-PCR based expression analysis of ERK7 from fat bodies of w1118 larvae upon 6 h starvation. Expression of RP49 was used for normalization (N=3 replicates of 10 fat bodies/replicate for each genotype)."
NCBI gene IDs:
"RP49: 
ERK7: 31877"
Figure legend: "A. Fatty acid composition of total lipids in CG>control and CG>ERK7 larvae, measured by gas chromatography (N=3 replicates of 15 larvae/replicate for each genotype)."
NCBI gene IDs:
"ERK7: 31877"
Figure legend: "C. Amount of glucose-derived [13C]-labeled carbons incorporated into the TAG pool of control and CG>ERK7 fat bodies (N=3 replicates of 15 fat bodies/replicate for each genotype and diet)."
NCBI gene IDs:
"ERK7: 31877"
Figure legend: "D. Ectopic ERK7 expression in the fat body results in elevated hemolymph glucose levels (N=3 replicates of 15 larvae/replicate for each genotype). E. Circulating glucose levels are decreased in ERK71 mutants (N=4 replicates of 15 larvae/replicate for each genotype). "
NCBI gene IDs:
"ERK7: 31877"
Figure legend: "A. Four-way plot (t-statistics) presenting the ERK7-dependent fasting-responsive genes (adj.p.val &lt; 0.05). Dark blue indicates significant in both comparisons; dark turquoise, significant in one comparison; light turquoise, not significant."
NCBI gene IDs:
"ERK7: 31877"
Figure legend: "E, F. Expression analysis of Seipin, Agpat3, ATPCL, fabp, Lip4 and CG34448 by qRT-PCR. RP49 was used for normalization (N=3 replicates of ≥10 larvae/replicate for each genotype)."
NCBI gene IDs:
"RP49: 
Agpat3: 39820
ATPCL: 36760
CG34448: 5740554
fabp: 3772232
Lip4: 34450
Seipin: 31245"
Figure legend: "A. Weight of control and ERK71 mutant larvae at 72h after egg deposition (AED) (N=4 replicates of 12 larvae/replicate for each genotype)."
NCBI gene IDs:
"ERK7: 31877"
Figure legend: "B. Pupariation kinetics of control and ERK71 mutants (N=4 replicates of 30 larvae/replicate for each genotype). p&lt;0.0001, analyzed by Log-rank test."
NCBI gene IDs:
"ERK7: 31877"
Figure legend: "C. ERK71 mutants fail to suppress growth upon 24 h of starvation (N≥4 replicates of 15 larvae/replicate for each genotype)."
NCBI gene IDs:
"ERK7: 31877"
Figure legend: "D. ERK71 mutant larvae (N=4 replicates of 24 larvae/replicate for each genotype, p&lt;0.01 analyzed by Log-rank test) are sensitive to nutrient deprivation."
NCBI gene IDs:
"ERK7: 31877"
Figure legend: "Fat body specific knockdown of ERK7 by RNAi (BDSC 56939) leads to a moderately accelerated pupariation rate (E, p&lt;0.001 analyzed by Log-rank test, N=8 replicates of 30 larvae/replicate for each genotype)"
NCBI gene IDs:
"ERK7: 31877"
Figure legend: "F. Fat body specific knockdown of ERK7 by RNAi (BDSC 56939) leads to an increase in larval weight at 72h AED (F, N=5 replicates of 15 larvae/replicate for each genotype)."
NCBI gene IDs:
"ERK7: 31877"
Figure legend: "G. A representative image showing that fat body-specific overexpression of ERK7 by the CG-GAL4 driver (CG>ERK7) impairs larval growth. Scale bar: 0.5 mm."
NCBI gene IDs:
"ERK7: 31877
GAL4: 855828"
Figure legend: "H. Ectopic expression of ERK7 leads to delayed pupariation (p&lt;0.0001, analyzed by Log-rank test), while kinase-dead (K54R) and activation loop phosphorylation-deficient (T190A/Y192F) mutants of ERK7 do not influence pupariation rate (N=4 replicates of 30 larvae/replicate for each genotype)."
NCBI gene IDs:
"ERK7: 31877"
Figure legend: "I. In contrast to ERK7 wt, kinase-dead (K54R) and activation loop phosphorylation-deficient (T190A/Y192F) mutants of ERK7 do not influence the pupal volume (N=4 replicates of 10 pupae/replicate for each genotype)."
NCBI gene IDs:
"ERK7: 31877"
Figure legend: "A. Representative immunofluorescent images of control and ERK71 mutant fat bodies with DAPI staining to visualize nucleus. Scale bar: 30 µm. B, C. ERK71 mutant fat bodies display increased nuclear area (B, N&gt;160 cells, obtained from 5 independent fat bodies) and increased nucleolar/nuclear area ratio (C, N&gt;80 cells for nucleolus/nucleus ratio, obtained from 5 independent fat bodies), when compared to control fat bodies."
NCBI gene IDs:
"ERK7: 31877"
Figure legend: "D-F. ERK7 expressing fat body clones (D, marked by GFP, scale bar: 20 µm) display reduced nuclear area (E) and reduced nucleolar/nuclear area ratio (F), when compared to control cells. Nuclei were visualized by DAPI staining, nucleoli were visualized by anti-Fibrillarin antibodies (N=10)."
NCBI gene IDs:
"ERK7: 31877"
Figure legend: "G, H. Expression analysis of Pol I (G) and Pol III (H) target RNAs by qRT-PCR. Expression of CDK7 was used for normalization (N=3 replicates of 10 fat bodies/replicate for each genotype)."
NCBI gene IDs:
"CDK7: 31441
Pol III: 39941
Pol I: 36617"
Figure legend: "B. Representative immunofluorescent images of PWP1 localization in fat bodies of ERK71 mutant and control third instar larvae. Scale bar: 20 µm. C. PWP1 localization displays increased nucleolar/nuclear ratio in ERK71 mutant fat bodies compared to control (N=20 cells from 5 independent fat bodies per genotype). "
NCBI gene IDs:
"ERK7: 31877"
Figure legend: "D. Representative immunofluorescent images of PWP1 localization in fat bodies of third instar larvae. ERK7 overexpression (GFP marked clones) alters the subcellular localization of PWP1. Scale bar: 30 µm. E. PWP1 localization displays reduced nuclear/cytoplasmic ratio in ERK7 overexpressing clones, compared to control cells (N=10 cells from at least 8 different fat bodies per genotype). "
NCBI gene IDs:
"ERK7: 31877"
Figure legend: "F. Fat body specific depletion of PWP1 by RNAi leads to decreased TAG levels (N=4 replicates of ≥10 larvae/replicate for each genotype)."
NCBI gene IDs:
"PWP1: 36150"
Figure legend: "G. Representative immunofluorescent images of fat bodies in a genetic epistasis experiment using ERK7 and PWP1 fat body (CG-GAL4) knockdown with LipidTOX staining and DAPI to visualize lipid droplets and nucleus, respectively. Scale bar: 50 µm. H, I. Fat body specific knockdown of PWP1 suppresses increased lipid droplet number (H; N>30 cells per genotype) and increased nuclear area (I; N>45 cells per genotype) caused by ERK7 knockdown (BDSC 56939). "
NCBI gene IDs:
"ERK7: 31877
GAL4: 855828
PWP1: 36150"
Figure legend: "A, B. Expression of sugarbabe is downregulated in fat bodies upon knockdown of PWP1 (A) and ectopic expression of ERK7 (B) (N=3 replicates of 10 fat bodies/replicate for each genotype)."
NCBI gene IDs:
"ERK7: 31877
PWP1: 36150
sugarbabe: 36424"
Figure legend: "C. ERK71 mutants fail to maximally downregulate sugarbabe expression upon fasting (N=4 replicates of 10 larvae/replicate for each genotype)."
NCBI gene IDs:
"ERK7: 31877
sugarbabe: 36424"
Figure legend: "D. Representative immunofluorescent images of fat bodies in a genetic epistasis experiment using ERK71 and sug mutants (sug17Δ/Df(2R)Exel7123) with LipidTOX and DAPI staining to visualize lipid droplets and nucleus, respectively. Scale bar: 50 µm. E. sug mutant (sug17Δ/Df(2R)Exel7123) suppresses increased lipid droplet number observed in ERK71 mutants (N>20). "
NCBI gene IDs:
"ERK7: 31877
sug: 36424"
Figure legend: "F. Ectopic sugarbabe expression in the fat body partially rescues TAG levels in the CG>ERK7 larvae (N=4 replicates of ≥10 larvae/replicate for each genotype)."
NCBI gene IDs:
"ERK7: 31877
sugarbabe: 36424"
Figure legend: "G. sug mutant (sug17Δ/Df(2R)Exel7123) suppresses increased nuclear size phenotype of ERK71 mutant fat body cells (N ≥25 cells per genotype)."
NCBI gene IDs:
"ERK7: 31877
sug: 36424"
Figure legend: "Ectopic Sugarbabe expression in the fat body partially restores the pupariation rate (H) (p&lt;0.001 for the rescue, analyzed by Log-rank test, N=4 replicates of 30 larvae/replicate for each genotype) of CG>ERK7 larvae"
NCBI gene IDs:
"ERK7: 31877
Sugarbabe: 36424"
Figure legend: "I. Ectopic Sugarbabe expression in the fat body partially restores the pupal volume of CG>ERK7 larvae (I) (N=4 replicates of 10 pupae/replicate for each genotype)."
NCBI gene IDs:
"ERK7: 31877
Sugarbabe: 36424"
Figure legend: "J. Addition of 20% sucrose improves the growth rate and survival of CG>ERK7 larvae. Pupariation kinetics of CG>ERK7 larvae on 20% yeast or 20% yeast + 20% sucrose diet (p&lt;0.0001 for the rescue, analyzed by Log-rank test, N=4 replicates of 30 larvae/replicate for each genotype and diet)."
NCBI gene IDs:
"ERK7: 31877"
Figure legend: "D. Table showing the type of movement found for wild-type, mutant 2, mutant 5, and mutant 13 in a modified single-molecule assay with and without ATP. Classification of type of movement is based on two repetitions of different dynein preparations."
NCBI gene IDs:
"dynein: 853928"
Figure legend: "E. Microtubule stimulated ATPase activity of wild-type (grey), mutant 2 (red), mutant 5 (orange), and mutant 13 (purple). F. Bar plot of basal ATPase activity of wild-type (grey), mutant 2 (red), mutant 5 (orange), and mutant 13 (purple). Data information: Error bars show standard deviation of three repetitions of different dynein preparations."
NCBI gene IDs:
"dynein: 853928"
Figure legend: "E and F, Naïve WT CD4+CD62Lhi T cells were cultured under Th17  polarizing conditions. On day 3, cells were transfected with control or siRNA targeting Batf, rested overnight, used for total RNA isolation to assess gene expression (E), or restimulated with anti-CD3  for 24 h to measure cytokine production by ELISA  (F). Data information: , mean ± s.e.m. of 3-5 independent experiments (*p&lt;0.05; two-sided t-test or one-way ANOVA followed by Tukey's test). RQ, relative quantification."
NCBI gene IDs:
"Batf: 53314"
Figure legend: "Naïve CD4+CD62Lhi T cells  from IL-17a  reporter mice  (Il17aeGFP) were cultured under Th17    polarizing conditions. On day 5,  eGFP+/IL-17a+ cells were sorted and cultured for two additional rounds in the presence of anti-CD3  alone (TCR(R3)) or Th17   polarizing cytokines (Th17(R3)) (G) Data information: Data are representative of 3-5 independent experiments"
NCBI gene IDs:
"eGFP: 
IL-17a: 16171
Il17a: 16171"
Figure legend: "WT and Batf  KO mice  were orally infected by gavage with 2x109 cfu/ml of Citrobacter rodentium (Cr) expressing GFP  quantification of the signal (O) at the indicated time points. Data information: mean ± s.e.m. of n=5-6 mice  (O) (*p&lt;0.05; two-sided t-test or one-way ANOVA followed by Tukey's test)."
NCBI gene IDs:
"Batf: 53314"
Figure legend: "WT and Batf  KO mice were orally infected by gavage with 2x109 cfu/ml of Citrobacter rodentium  (Cr) expressing GFP Cr  infected WT and Batf  KO were sacrificed on day 4 and day 10. Cells were isolated from the colon, re-stimulated with PMA  and ionomycin, and stained  intracellularly for  flow cytometric analysis of cytokine production  and Foxp3 expression  presented as density plots (P). Data are gated on viable CD4+TCRβ+. Data information: Data are representative of two independent experiments"
NCBI gene IDs:
"GFP: 
Batf: 53314"
Figure legend: "Naïve WT and Batf  KO CD4+CD62Lhi T cells  were cultured under Th17  polarizing conditions for 5 days. ChIP-seq for transcription factor (Batf) and histone modifications (H3K4me3, H3K27me3, and H3K27ac) was performed using day 5 WT and Batf  KO Th17  cells (A Data information: Data are representative of two independent experiments with similar results (A,"
NCBI gene IDs:
"Batf: 53314"
Figure legend: "J, Naïve WT-2BiT and Batf  KO-2BiT CD4+CD62Lhi T cells  were cultured under Th17  polarizing conditions. IL-2-Thy1.1 production comparing WT-2BiT and Batf  KO-2BiT cells was measured by  flow cytometry at the indicated  time points and frequencies of positive cells determined. Data information: Data are representative of or mean ± s.e.m. of 3-5 independent experiments (*p&lt;0.05; two-sided t-test)."
NCBI gene IDs:
"Batf: 53314"
Figure legend: "ChIP-seq  for Stat3  and Stat5  was performed after 1 h of IL-6 and IL-2 stimulation, respectively, using WT and Batf  KO cells that were cultured under Th17  polarizing conditions for 5 days. Histograms show Batf, Stat3, and Stat5 binding  occupied around ±1 kb of peak centers of co-bound Stat3-Stat5  sites that were annotated near Th1, Th17, or Treg-specific genes (C). Data information: Data are mean ± s.e.m. representative of two independent experiments with similar results (c (*p&lt;0.05; two-sided t-test)."
NCBI gene IDs:
"Batf: 53314"
Figure legend: "D, ChIP-seq  for Stat3  and Stat5  was performed after 1 h of IL-6 and  IL-2 stimulation, respectively, using WT and Batf  KO cells that were cultured under Th17  polarizing conditions for 5 days. Tracks show Batf, Stat5, and Stat3 ChIP-seq data compared between WT and Batf  KO Th17  in the indicated gene loci (WT, grey; Batf  KO, red). Red arrows indicate differential Stat5 binding  comparing WT and Batf  KO cells (D). Data information: Data are mean ± s.e.m. representative of two independent experiments with similar results d), or (*p&lt;0.05; two-sided t-test)."
NCBI gene IDs:
"Batf: 53314"
Figure legend: "B, Naïve WT and Batf  KO CD4+CD62Lhi T cells were cultured under Th17  polarizing conditions for 5 days. The kinetics of Ets1  and Runx1 gene expression was assessed by RT-PCR  in the indicated time points (data normalized to naïve WT cells). Data information: Data are mean ± s.e.m. of 3 independent experiments (B) (*p&lt;0.05; two-sided t-test). RQ, relative quantification."
NCBI gene IDs:
"Batf: 53314
Ets1: 23871
Runx1: 12394"
Figure legend: "Tracks show Ets1  and Runx1 ChIP-seq data from WT and Batf  KO Th17-polarized cells at the indicated gene loci (D; WT, grey; Batf  KO, red). Arrows indicate differential Ets1  and Runx1 binding  with (red) or without (blue) the presence of Batf binding  comparing WT and Batf  KO cells. Ets1  (E) or Runx1  (F) peaks from WT Th1, Treg, or both (Th1-Treg) were integrated with enriched Ets1  or Runx1  peaks in Batf  KO compared to WT Th17  cells (Fig. 4C) to separate peaks into unique and overlapping clusters."
NCBI gene IDs:
"Batf: 53314"
Figure legend: "Naïve WT and Batf  KO CD4+CD62Lhi T cells cultured under Th17-polarizing conditions were treated with or without 1 uM Stat5  inhibitor. On day 5, cells were harvested and used for RNA extraction to assess  gene expression (A; data were normalized to WT DMSO; Foxp3, unstimulated; Il17a  and Ifng, 6 h 2 ug/ml anti-CD3  restimulation) Data information: Data are mean ± s.e.m. of 4 independent experiments. (*p&lt;0.05; two-sided t-test or one-way ANOVA followed by Tukey's test). a.u., arbitrary unit."
NCBI gene IDs:
"Batf: 53314
Foxp3: 20371
Ifng: 15978
Il17a: 16171"
Figure legend: "Naïve WT and Batf  KO CD4+CD62Lhi T cells cultured under Th17-polarizing conditions were treated with or without 1 uM Stat5  inhibitor. restimulated with 2 ug/ml anti-CD3  for 24 h to assess  cytokine production  by ELISA (B). Data information: Data are mean ± s.e.m. of 4 independent experiments. (*p&lt;0.05; two-sided t-test or one-way ANOVA followed by Tukey's test). a.u., arbitrary unit."
NCBI gene IDs:
"Batf: 53314"
Figure legend: "Naïve WT and Batf  KO CD4+CD62Lhi T cells cultured under Th17-polarizing conditions were treated with or without 1 uM Stat5  inhibitor. WT and Batf  KO Th17-polarized cells were collected on day 5 of culture and used to performed ChIP using antibodies to Stat5, Batf, Ets1, Runx1, Stat3  and p300  (C). Data information: Data are mean ± s.e.m. of 4 independent experiments. (*p&lt;0.05; two-sided t-test or one-way ANOVA followed by Tukey's test). a.u., arbitrary unit."
NCBI gene IDs:
"Batf: 53314"
Figure legend: "Naïve CD4+CD62Lhi T cells from  IL-17a reporter mice  (Il17aeGFP) were cultured under Th17  polarizing conditions. On day 5,  eGFP+/IL-17a+ cells were sorted (Th17(R1)) and cultured for two additional rounds in the presence of anti-CD3  alone (TCR(R3)) or Th17  polarizing cytokines (Th17(R3)). Ets1,Runx1, and Stat5 binding  at the indicated genomic regions by ChIP-qPCR  (C). Data information: Data are mean ± s.e.m. of 3 independent experiments. (*p&lt;0.05; **p&lt;0.01; one-way ANOVA followed by Tukey's test). "
NCBI gene IDs:
"eGFP: 
IL-17a: 16171
Il17a: 16171"
Figure legend: "Detection of NRPB2WT-FLAG, NRPB2P979S-FLAG and NRPB2Y732F-FLAG protein by western blotting in NRPB2WT-FLAG Col-0, NRPB2P979S-FLAG Col-0 and NRPB2Y732F-FLAG Col-0 plants. Untagged NRPB2 (Col-0) was used as a negative control. Histone H3 was used as an internal control and total protein level detected by stain-free blot was used as a loading control. Quantification was done by normalizing to the loading control and anti-H3 blot based on 3 independent replicates."
NCBI gene IDs:
"FLAG: 
NRPB2: 828259"
Figure legend: "Transmission rate of nrpb2-2 allele in nrpb2-2 +/- line (n=197) and nrpb2- +/- lines combined with homozygous NRPB2P979S-FLAG +/+ (n=280), NRPB2Y732F-FLAG +/+ (n=240) and NRPB2WT-FLAG +/+ (n=210), respectively. Fisher´s exact test was used as a statistic test, three asterisks denote p&lt;0.001 between samples and n.s. stands for not significant."
NCBI gene IDs:
"FLAG: 
nrpb2: 828259
NRPB2: 828259"
Figure legend: "Image of homozygous mutant nrpb2-2 fully complemented by NRPB2WT-FLAG (top, NRPB2WT +/+ nrpb2-2 -/-) and partially complemented by NRPB2Y732F-FLAG (bottom, NRPB2WT +/+ nrpb2-2 -/-). Plants were grown for 4 weeks in soil. Scale bars represent 1 cm."
NCBI gene IDs:
"FLAG: 
NRPB2: 828259
nrpb2: 828259"
Figure legend: "Schematic drawing of the experimental design to investigate RNAPII transcription speed in vivo. In brief, Arabidopsis seedlings of NRPB2WT-FLAG Col-0 and NRPB2Y732F-FLAG Col-0 were grown on MS media for 12 days and then were transferred to MS liquid media for 2 days. Flagellin peptides (flagellin 22) were added into media and treated samples were collected in a 0 minute (no treatment), 2 minutes and 4 minutes time course. The nascent RNA was isolated and used for reverse transcription and qPCR analyses to reveal RNAPII accumulation at different region in genes. See Methods for technical details."
NCBI gene IDs:
"FLAG: 
NRPB2: 828259"
Figure legend: "Nascent RNA profile of AT5G41750. Nascent RNA RT-qPCR assay measuring RNAPII signal at 3 positions (dark red bars: probe 1, 2 and 3) on the gene upon flagellin 22 treatment in a 0 minute, 2 minutes, 3 minutes and 4 minutes time course. Nascent RNA signal values were normalized to reference gene ACT2. Error bars represent SEM from 3 independent replicates. The statistical significance of differences between NRPB2Y732F and NRPB2WT at the same time point were assessed by the two-sided Student's t-test. n.s. denotes not significant; * denotes p&lt;0.05 and ** denotes p&lt;0.01. Scale bar (black) represent 0.5 kb."
NCBI gene IDs:
"ACT2: 
AT5G41750: 834178
NRPB2: 828259"
Figure legend: "Nascent RNA profile of AT4G19520. Nascent RNA RT-qPCR assay measuring RNAPII signal at 3 positions (dark red bars: probe 1, 2 and 3) on the gene upon flagellin 22 treatment in a 0 minute, 2 minutes, 3 minutes and 4 minutes time course. Nascent RNA signal values were normalized to reference gene ACT2. Error bars represent SEM from 3 independent replicates. The statistical significance of differences between NRPB2Y732F and NRPB2WT at the same time point were assessed by a two-sided Student's t-test. n.s. denotes not significant; * denotes p&lt;0.05 and ** denotes p&lt;0.01. Scale bar (black) represents 0.5 kb."
NCBI gene IDs:
"ACT2: 
AT4G19520: 827694
NRPB2: 828259"
Figure legend: "plaNET-seq signal of RNAPII in the promoter proximal region of AT1G70600 in NRPB2WT +/+ nrpb2-2 -/- (NRPB2WT, blue) and NRPB2Y732F +/+ nrpb2-2 -/- (NRPB2Y732F ,red). Arrows indicate the RNAPII signal at the region of promoter-proximal stalling."
NCBI gene IDs:
"AT1G70600: 843397
NRPB2: 828259
nrpb2: 828259"
Figure legend: "Metagene profile of plaNET-seq mean signal of RNAPII in a 1 Kb window centered at the +1 nucleosome in Arabidopsis genes (n=25474) in NRPB2WT +/+ nrpb2-2 -/- (NRPB2WT, blue) and NRPB2Y732F +/+ nrpb2-2 -/- (NRPB2Y732F ,red). The significance of differences of plaNET-seq signal in the region from -25 bins to +25 bins around +1 nucleosome between NRPB2WT and NRPB2Y732F were assessed by a two-sided Mann-Whitney U-test, p=5.20e-10."
NCBI gene IDs:
"NRPB2: 828259
nrpb2: 828259"
Figure legend: "RNAPII stalling index calculated for all the genes with plaNET-Seq FPKM ≥ 10 in NRPB2WT +/+ nrpb2-2 -/- (NRPB2WT, blue) and NRPB2Y732F +/+ nrpb2-2 -/- (NRPB2Y732F ,red) (n=6596). Medians of the stalling index are 1.891 and 1.222 for NRPB2WT and NRPB2Y732F, respectively. *** denotes p-value &lt;0.001 by Wilcoxon signed-rank test. The solid horizontal lines and box limits represent medians, lower and upper quartiles of data values in each group. The upper and lower whiskers extend to the largest or smallest value, respectively, no further than 1.5 * IQR from the relevant quartile."
NCBI gene IDs:
"NRPB2: 828259
nrpb2: 828259"
Figure legend: "Metagene profile of plaNET-seq mean signal over whole genes (length from 0.5 Kb to 5 Kb, scaled to 500 bins, n=27042) in NRPB2WT +/+ nrpb2-2 -/- (NRPB2WT, blue) and NRPB2Y732F +/+ nrpb2-2 -/- (NRPB2Y732F ,red)."
NCBI gene IDs:
"NRPB2: 828259
nrpb2: 828259"
Figure legend: "Metagene profile of plaNET-seq mean signal of RNAPII in exons (length from 50 bp to 300 bp, scaled to 100 bins, n=73925) in NRPB2WT +/+ nrpb2-2 -/- (NRPB2WT, blue) and NRPB2Y732F +/+ nrpb2-2 -/- (NRPB2Y732F ,red). Pink dashed line rectangle illustrates the amplitude of differences between the minimum and the maximum of RNAPII signal across the exons. A two-sided Mann-Whitney U-test was used to assess the plaNET-seq signal of NRPB2WT (blue) and NRPB2Y732F (red) in exons, p&lt;1e-16. Metagene profile of plaNET-seq mean signal of RNAPII in introns (50 bp to 300 bp, scaled to 100 bins, n=102260) in NRPB2WT +/+ nrpb2-2 -/- (NRPB2WT, blue) and NRPB2Y732F +/+ nrpb2-2 -/- (NRPB2Y732F ,red). A two-sided Mann-Whitney U-test was used to assess the plaNET-seq signal of NRPB2WT (blue) and NRPB2Y732F (red) in introns, p&lt;1e-16."
NCBI gene IDs:
"NRPB2: 828259
nrpb2: 828259"
Figure legend: "Bar charts showing the fractions of 3' and 5' splicing intermediate reads from plaNET-seq in NRPB2WT +/+ nrpb2-2 -/- (NRPB2WT, blue) and NRPB2Y732F +/+ nrpb2-2 -/- (NRPB2Y732F ,red)."
NCBI gene IDs:
"NRPB2: 828259
nrpb2: 828259"
Figure legend: "Genome browser snapshots illustrating enhanced intron splicing in NRPB2Y732F +/+ nrpb2-2 -/- (NRPB2Y732F, red) compared to NRPB2WT +/+ nrpb2-2 -/- (NRPB2WT ,blue). Scale bars denote 0.5 Kb."
NCBI gene IDs:
"NRPB2: 828259
nrpb2: 828259"
Figure legend: "The fraction of RNA-seq intronic reads calculated for all genes (n=24912) in NRPB2WT +/+ nrpb2-2 -/- and NRPB2Y732F +/+ nrpb2-2 -/-. Two-sided Mann-Whitney U test: **** denotes p-value&lt;2.2e-16. The solid horizontal lines and box limits represent medians, lower and upper quartiles of data values in each group. The upper and lower whiskers extend to the largest or smallest value, respectively, no further than 1.5 * IQR from the relevant quartile."
NCBI gene IDs:
"NRPB2: 828259
nrpb2: 828259"