Variant report

Variant	rs9306
Chromosome Location	chr6:163736204-163736205
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:163721622..163724213-chr6:163736108..163737934,2	K562	blood:
2	chr6:163736077..163738782-chr6:163740671..163742976,2	K562	blood:
3	chr6:163733010..163737483-chr6:163739253..163742400,4	MCF-7	breast:

Extended variants
information (count: 11 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs4277989	0.82[EUR][1000 genomes]
rs4555894	0.84[EUR][1000 genomes]
rs6903758	0.95[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs6927207	0.87[EUR][1000 genomes]
rs723985	0.83[EUR][1000 genomes]
rs9347737	0.85[EUR][1000 genomes]
rs9458786	0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv932127	chr6:163000261-163950870	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv1022610	chr6:163591786-163814041	Weak transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv605188	chr6:163697439-163772096	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv534621	chr6:163731741-163950870	Bivalent/Poised TSS Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs9306	PACRG	cis	brain	BrainEAC
rs9306	PACRG	cis	inferior olivary nucleus	BrainEAC
rs9306	PACRG	cis	temporal cortex	BrainEAC
rs9306	SLC22A2	cis	parietal	SCAN

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:163721600-163739400	Weak transcription	Right Ventricle	heart
2	chr6:163722800-163739600	Weak transcription	Right Atrium	heart
3	chr6:163724400-163739400	Weak transcription	Left Ventricle	heart
4	chr6:163728000-163738000	Weak transcription	Fetal Heart	heart
5	chr6:163731600-163742600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr6:163732000-163749600	Weak transcription	Spleen	Spleen
7	chr6:163734000-163741600	Weak transcription	A549	lung
8	chr6:163734400-163736400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
9	chr6:163734400-163737200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr6:163734600-163737200	Enhancers	Brain Angular Gyrus	brain
11	chr6:163735000-163736800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr6:163735000-163736800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr6:163735000-163737200	Enhancers	Fetal Muscle Leg	muscle
14	chr6:163735600-163736400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
15	chr6:163735600-163736600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr6:163735800-163736400	Enhancers	Fetal Brain Male	brain
17	chr6:163735800-163736600	Enhancers	Fetal Brain Female	brain
18	chr6:163736000-163738800	Enhancers	Brain Anterior Caudate	brain
19	chr6:163736000-163739200	Enhancers	Brain Hippocampus Middle	brain
20	chr6:163736000-163739600	Weak transcription	Psoas Muscle	Psoas
21	chr6:163736000-163740400	Enhancers	Brain Cingulate Gyrus	brain
22	chr6:163736200-163736400	Active TSS	Brain Germinal Matrix	brain
23	chr6:163736200-163737000	Weak transcription	Brain Inferior Temporal Lobe	brain
24	chr6:163736200-163737800	Enhancers	Cortex derived primary cultured neurospheres	brain
25	chr6:163736200-163739400	Enhancers	Brain Substantia Nigra	brain
26	chr6:163736200-163745800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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