Variant report

Variant	rs2817674
Chromosome Location	chr10:98790153-98790154
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 7 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs41284248	0.99[ASN][1000 genomes]
rs7922865	0.84[MEX][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532232	chr10:98360775-99141797	Enhancers Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
2	nsv1052931	chr10:98676192-98862301	Weak transcription Bivalent Enhancer ZNF genes & repeats Strong transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv1042398	chr10:98691406-98851346	Enhancers Strong transcription Weak transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
4	esv2758236	chr10:98789963-98962472	Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Genic enhancers Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	esv2759777	chr10:98789963-98962472	Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs2817674	PDLIM1	cis	parietal	SCAN
rs2817674	LOXL4	cis	cerebellum	SCAN
rs2817674	CEP55	cis	cerebellum	SCAN
rs2817674	CNNM1	cis	parietal	SCAN
rs2817674	ZNF518A	cis	parietal	SCAN

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:98777600-98791000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr10:98778000-98797200	Strong transcription	Fetal Thymus	thymus
3	chr10:98778800-98794400	Weak transcription	Thymus	Thymus
4	chr10:98781200-98790400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr10:98781200-98790600	Weak transcription	H1 Cell Line	embryonic stem cell
6	chr10:98781200-98791800	Weak transcription	HUES48 Cell Line	embryonic stem cell
7	chr10:98781200-98792800	Weak transcription	Fetal Brain Male	brain
8	chr10:98781200-98794200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr10:98781200-98797000	Weak transcription	Gastric	stomach
10	chr10:98782000-98792400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr10:98784200-98797000	Weak transcription	Pancreas	Pancrea
12	chr10:98784200-98797400	Weak transcription	Esophagus	oesophagus
13	chr10:98785200-98792200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr10:98785600-98797200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
15	chr10:98785800-98797000	Weak transcription	Brain Angular Gyrus	brain
16	chr10:98785800-98797000	Weak transcription	Brain Inferior Temporal Lobe	brain
17	chr10:98785800-98797000	Weak transcription	Brain Substantia Nigra	brain
18	chr10:98787400-98797400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
19	chr10:98788200-98797000	Weak transcription	Lung	lung
20	chr10:98788400-98792000	Strong transcription	Brain Germinal Matrix	brain
21	chr10:98789600-98790600	Strong transcription	Brain Anterior Caudate	brain
22	chr10:98789600-98791600	Strong transcription	Fetal Brain Female	brain

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