Brain tissue expression of RAPGEF5 in pons

PONS - Expression summary

Protein expressionⁱ

No data

RNA expressionⁱ

HPA Brain:	193.7	nTPM
FANTOM5:	384.1	Scaled Tags Per Million

Macaque:	164.4	nTPM
Mouse:	24.3	nTPM
Rat:	29.2	nTPM
Pig:	95.6	nTPM

PONS - SINGLE NUCLEI RNA EXPRESSIONⁱ RNA expression in the single nuclei cluster types identified in this brain region visualized by a UMAP plot (top) and a bar chart (to the right). - UMAP PLOT visualizes the cells in each cluster; where each dot corresponds to a cell. For each individual cell, mouseover reveals read count and which cluster the cell belongs to. Hovering over a cluster name will highlight the corresponding cluster in the bar chart two the right. There are 2 options for color schemes: 1) cell type color, which is based on cell type groups used in the Single cell type part of the Single cell resource and 2) cluster color, which assigns a unique color to each cluster. There are 3 options for cell intensities: 1) Intensity, which color the individual cells according to % of max (log2(read_count+1)/log2(max(read_count)+1)100) in five different bins (<1%,<25%,<50%,<75%,≥75%) 2) Interval, which color the individual cells according to fixed interval of read count (0,1,2-4,5-9,>10) 3) Hexagon, which color the hexagon on average read count of all cells inside the hexagon - The BAR CHART* shows RNA expression (nTPM) in each cluster type. Hovering over the cluster name reveals nTPM value and number of included cells. Hovering over a bar highlights the corresponding cluster in the UMAP plot above. Color-coding can be toggled on the top of the page, between 2 options: 1) cell type color, which is based on cell type groups used in the Single cell type part of the Single cell resource and 2) cluster color, which assigns a unique color to each cluster.

SINGLE NUCLEI BRAIN - PONS, NEURONSⁱ

Cell type color

Cluster color

Colored according to cell type group

Read count filter: 0

Cluster		Cell type
	c-1	Excitatory (VGLUT1/2)
	c-2	Excitatory (VGLUT1) ETV1+ Z...
	c-3	Excitatory (VGLUT1/2)
	c-4	Excitatory (VGLUT1) ETV1+ Z...
	c-5	Excitatory (VGLUT1/2)
	c-6	Excitatory (VGLUT1/2)
	c-7	Excitatory (VGLUT1/2)
	c-8	Inhibitory (GAD1/2) SLC6A5+
	c-9	Excitatory (VGLUT2)
	c-10	Excitatory (VGLUT1/2)
	c-11	Excitatory (VGLUT1/2)
	c-12	Unassigned
	c-13	Inhibitory (GAD1/2) RORB+ K
	c-14	Inhibitory (GAD1/2) SST+
	c-15	Excitatory (VGLUT1) ETV1+ Z...
	c-16	Excitatory (VGLUT2)
	c-17	Excitatory (VGLUT1/2)
	c-18	Inhibitory (GAD1/2)
	c-19	Inhibitory (GAD1) PENK+ SST
	c-20	Excitatory (VGLUT2) FOXP2+
	c-21	Excitatory (VGLUT2) LMX1A+
	c-22	Excitatory (VGLUT2) MEIS2+
	c-23	Inhibitory (GAD1/2) SLC6A5+...
	c-24	Inhibitory (GAD1/2) SLC6A5+...
	c-25	Serotonergic SLC6A4+ SLC18A...
	c-26	Inhibitory (GAD1/2) PVALB+ ...
	c-27	Excitatory (VGLUT2)
	c-28	(VGLUT3) PENK+
	c-29	MEIS2+
	c-30	LMX1A+
	c-31	Inhibitory (GAD1/2) TAC1+
	c-32	Excitatory (VGLUT2) PVALB+
	c-33	Inhibitory (GAD1/2) PVALB+ ...
	c-34	Inhibitory (GAD1/2)
	c-35	Excitatory (VGLUT2) SST+ ME...
	c-36	LC Noradrenergic SLC6A2+ SL...
	c-37	Excitatory (VGLUT2) CRH+ FO...
	c-38	Inhibitory (GAD1/2) PVALB+ ...
	c-39	Excitatory (VGLUT2)
	c-40	Excitatory (VGLUT2) PVALB+
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This data was generated by Siletti K et al. (2023), re-processed by HPA (see methods) and simplified for global overview

SINGLE NUCLEI BRAIN - PONS, NON-NEURONALⁱ

Cell type color

Cluster color

Colored according to cell type group

Read count filter: 0

Cluster		Cell type
	c-1	Oligodendrocytes
	c-2	Oligodendrocytes
	c-3	Oligodendrocyte progenitor ...
	c-4	Oligodendrocytes
	c-5	Oligodendrocytes
	c-6	Oligodendrocytes
	c-7	Microglia
	c-8	Astrocytes
	c-9	Oligodendrocytes
	c-10	Astrocytes (CD44+)
	c-11	Oligodendrocytes
	c-12	Fibroblasts
	c-13	Vascular endothelial cells
	c-14	Pericytes
	c-15	Ependymal cells
	c-16	Lymphocytes
	c-17	Macrophages
	c-18	Microglia (SPP1+ HIF1A+)
	c-19	Bergmann glia
	c-20	Immature oligodendrocytes
	c-21	Oligodendrocyte progenitor ...
	c-22	Vascular smooth muscle cell
	c-23	Monocytes
	c-24	Immature oligodendrocytes
	c-25	Fibroblasts (BNC2+ KCNMA1+ ...
	c-26	Choroid plexus epithelial c...
	c-27	Macrophage Microglia double
	c-28	OPC & lymphocytes doublets
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This data was generated by Siletti K et al. (2023), re-processed by HPA (see methods) and simplified for global overview

PONS - HPA Brain Stereo-seq

PONS - HPA Brain RNA-seq

Max subtype nTPMⁱ Max subtype nTPM is the value for the subtype with the largest average nTPM across the subtype samples.	193.7

Sample id

Sample description

nTPM

Anterior cochlear nucleus, ventral
nTPM: 193.7

2188	Female, age 91, both hemispheres	249.9
2301	Female, age 85, both hemispheres	202.8
2090	Male, age 80, both hemispheres	199.2
1984	Male, age 76, both hemispheres	122.8

Dorsal cochlear nucleus
nTPM: 148.8

2187	Female, age 91, both hemispheres	212.2
2802	Male, age 74, right hemisphere	171.9
2378	Male, age 80, both hemispheres	149.4
2058	Male, age 76, both hemispheres	113.9
2370	Male, age 61, both hemispheres	96.7

Dorsal tegmental nucleus
nTPM: 121.9

2326	Male, age 74, both hemispheres	158.2
2083	Male, age 80, both hemispheres	147.4
1936	Male, age 76, left hemisphere	111.6
2358	Male, age 61, both hemispheres	70.3

Dorsolateral tegmental area
nTPM: 130.9

2751	Female, age 85, both hemispheres	218.3
2654	Male, age 80, both hemispheres	147.5
2337	Male, age 61, both hemispheres	123.0
2360	Male, age 74, both hemispheres	99.2
2141	Male, age 76, both hemispheres	66.3

Kolliker-Fuse nucleus
nTPM: 143.8

2793	Female, age 91, left hemisphere	219.6
2163	Male, age 80, both hemispheres	123.6
2315	Male, age 76, right hemisphere	88.1

Lateral lemniscal nuclei
nTPM: 153.7

2320	Female, age 91, left hemisphere	197.4
2453	Male, age 74, right hemisphere	162.2
2036	Male, age 80, both hemispheres	146.9
2169	Male, age 76, both hemispheres	131.0
2746	Female, age 85, left hemisphere	130.8

Lateral parabrachial nucleus
nTPM: 143.3

2792	Male, age 76, both hemispheres	202.2
2013	Male, age 80, both hemispheres	148.5
2790	Male, age 61, both hemispheres	125.3
2139	Female, age 85, right hemisphere	97.4

Lateral vestibular nucleus
nTPM: 138.2

2311	Male, age 80, both hemispheres	149.6
2184	Male, age 76, both hemispheres	126.9

Locus coeruleus
nTPM: 70.4

2720	Male, age 74, both hemispheres	97.3
2162	Male, age 80, both hemispheres	79.3
2788	Male, age 74, unknown	74.7
2317	Female, age 72, unknown	70.0
2014	Male, age 55, unknown	68.4
2123	Female, age 91, both hemispheres	62.4
1980	Male, age 76, both hemispheres	40.7

Medial parabrachial nucleus
nTPM: 162.5

2170	Female, age 91, both hemispheres	239.9
2463	Female, age 85, right hemisphere	178.1
2854	Male, age 80, both hemispheres	158.3
2786	Male, age 76, both hemispheres	133.7
2156	Male, age 61, both hemispheres	102.6

Medial periolivary nuclei
nTPM: 156.4

2458	Female, age 91, both hemispheres	188.0
2081	Male, age 80, both hemispheres	179.7
2791	Male, age 74, right hemisphere	176.4
2063	Male, age 76, both hemispheres	130.9
2171	Female, age 85, both hemispheres	107.2

Motor facial nucleus
nTPM: 150.7

2365	Male, age 74, right hemisphere	184.4
2126	Male, age 61, both hemispheres	180.2
2697	Female, age 85, both hemispheres	160.7
2795	Female, age 91, both hemispheres	146.5
2327	Male, age 80, both hemispheres	119.4
2062	Male, age 76, both hemispheres	112.9

Motor trigeminal nucleus
nTPM: 150.0

2560	Male, age 74, both hemispheres	193.6
2321	Female, age 91, both hemispheres	186.5
2309	Male, age 76, both hemispheres	146.3
2079	Male, age 80, both hemispheres	126.4
2335	Male, age 61, both hemispheres	97.3

Nuclei of the trapezoid body
nTPM: 138.7

2368	Female, age 91, both hemispheres	178.6
2166	Male, age 80, both hemispheres	163.9
2159	Male, age 61, both hemispheres	133.1
1983	Male, age 76, both hemispheres	117.0
2735	Female, age 85, both hemispheres	100.7

Nucleus raphe magnus
nTPM: 135.0

2459	Female, age 91, both hemispheres	200.6
2455	Male, age 74, both hemispheres	146.7
2328	Male, age 80, both hemispheres	144.5
2051	Male, age 76, both hemispheres	140.7
2160	Male, age 61, both hemispheres	93.4
2172	Female, age 85, both hemispheres	84.3

Paramedian reticular nucleus
nTPM: 167.2

2052	Male, age 76, both hemispheres	255.6
2057	Male, age 80, both hemispheres	164.4
2050	Female, age 85, both hemispheres	151.5
2313	Male, age 61, both hemispheres	97.4

Pedunculopontine tegmental nucleus
nTPM: 117.9

2338	Male, age 61, both hemispheres	130.7
2334	Male, age 80, both hemispheres	120.7
1921	Female, age 85, both hemispheres	102.4

Pontine nuclei
nTPM: 177.0

2454	Male, age 74, left hemisphere	285.1
2319	Female, age 91, both hemispheres	217.6
2109	Female, age 72, unknown	212.6
1863	Male, age 55, unknown	192.3
1968	Male, age 76, left hemisphere	143.8
2115	Male, age 80, left hemisphere	132.2
2727	Male, age 61, right hemisphere	130.0
2787	Female, age 85, both hemispheres	102.4

Pontine raphe nucleus
nTPM: 106.4

2122	Female, age 85, midline	118.0
2853	Male, age 76, midline	94.7

Posteroventral cochlear nucleus
nTPM: 180.7

2135	Female, age 91, both hemispheres	264.8
2341	Male, age 80, both hemispheres	246.3
2070	Male, age 76, both hemispheres	165.1
2371	Male, age 61, both hemispheres	115.0
2752	Female, age 85, both hemispheres	112.4

Principal sensory trigeminal nucleus
nTPM: 144.8

2367	Female, age 91, left hemisphere	230.8
2008	Male, age 80, left hemisphere	129.7
2324	Male, age 76, both hemispheres	115.0
2158	Male, age 61, both hemispheres	103.6

Reticular pontine nucleus, caudal
nTPM: 188.9

2559	Male, age 74, both hemispheres	259.1
2457	Female, age 91, both hemispheres	228.6
2092	Male, age 76, both hemispheres	155.9
2332	Male, age 80, right hemisphere	112.0

Reticular pontine nucleus, oral
nTPM: 184.9

2361	Male, age 74, both hemispheres	257.9
2366	Female, age 91, both hemispheres	211.2
2012	Female, age 85, both hemispheres	159.2
1939	Male, age 80, both hemispheres	152.6
2167	Male, age 76, both hemispheres	143.4

Reticulotegmental nucleus
nTPM: 136.4

2322	Female, age 91, both hemispheres	176.2
2452	Male, age 74, both hemispheres	157.3
2333	Male, age 80, both hemispheres	120.8
2325	Male, age 76, both hemispheres	91.3

Spinal trigeminal nucleus, oral
nTPM: 121.3

2164	Male, age 80, both hemispheres	136.7
1978	Male, age 76, both hemispheres	130.5
2737	Female, age 85, both hemispheres	96.7

Subcoeruleus area
nTPM: 143.4

2369	Female, age 85, left hemisphere	240.9
2089	Male, age 76, left hemisphere	137.9
1958	Male, age 80, both hemispheres	136.6
2451	Male, age 74, both hemispheres	111.9
2323	Female, age 91, left hemisphere	89.6

Superior olive
nTPM: 166.2

2020	Male, age 76, both hemispheres	190.3
2364	Male, age 74, right hemisphere	184.7
2329	Male, age 80, right hemisphere	156.9
2561	Female, age 91, both hemispheres	153.3
1875	Female, age 85, both hemispheres	145.9

Ventral periolivary nuclei
nTPM: 140.5

2023	Male, age 76, both hemispheres	203.7
2165	Male, age 80, both hemispheres	131.3
2794	Female, age 91, left hemisphere	126.2
2130	Female, age 85, both hemispheres	100.9

Ventrolateral tegmental area, A5 NE cell group
nTPM: 154.2

2456	Female, age 91, both hemispheres	199.3
2449	Male, age 74, both hemispheres	160.8
2840	Female, age 85, both hemispheres	149.4
1959	Male, age 76, both hemispheres	147.6
2161	Male, age 80, both hemispheres	139.5
2359	Male, age 61, both hemispheres	128.8

PONS - FANTOM5 CAGEⁱ

Max subtype Scaled Tags Per Millionⁱ Max subtype Scaled Tags Per Million is the value for the subtype with the largest average Scaled Tags Per Million across the subtype samples.	384.1

FANTOM5 sample id

Sample description

Scaled Tags Per Million

Locus coeruleus
Scaled Tags Per Million: 269.5

FF:10165-103B3	76 years, female	275.3
FF:10182-103D2	60 years, female	263.7

Pons
Scaled Tags Per Million: 384.1

FF:10033-101E6

18-54 years, mixed

384.1

PONS - Macaque RNA-seq

Max subtype nTPMⁱ Max subtype nTPM is the value for the subtype with the largest average nTPM across the subtype samples.	164.4

Macaque sample

Sample description

nTPM

Pons
nTPM: 164.4

Samples: 2

Max nTPM: 206.0
Min nTPM: 122.8

Sample A		206.0
Sample B		122.8

PONS - Pig RNA-seqⁱ

Max subtype nTPMⁱ Max subtype nTPM is the value for the subtype with the largest average nTPM across the subtype samples.	95.6

Pig sample

Sample description

nTPM

Pons
nTPM: 95.6

Samples: 3

Max nTPM: 101.8
Min nTPM: 87.0

Sample A	Female	87.0
Sample B	Female	97.9
Sample C	Male	101.8

PONS - Mouse RNA-seqⁱ

Max subtype nTPMⁱ Max subtype nTPM is the value for the subtype with the largest average nTPM across the subtype samples.	24.3

Mouse sample

Sample description

nTPM

Pons
nTPM: 24.3

Samples: 4

Max nTPM: 26.4
Min nTPM: 20.3

Sample A		26.4
Sample B		20.3
Sample C		26.4
Sample D		24.1

PONS - Rat RNA-seq

Max subtype nTPMⁱ Max subtype nTPM is the value for the subtype with the largest average nTPM across the subtype samples.	29.2

Rat sample

Sample description

nTPM

Pons
nTPM: 29.2

Samples: 4

Max nTPM: 30.0
Min nTPM: 27.9

Sample A		30.0
Sample A		27.9
Sample A		29.7
Sample A		29.3