Variant report

Variant	rs7644975
Chromosome Location	chr3:56405169-56405170
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 45 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs11707219	0.83[EUR][1000 genomes]
rs11710335	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11711109	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11711928	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11713347	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11718333	0.84[EUR][1000 genomes]
rs11718664	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11920229	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11921059	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11924629	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11929325	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13078566	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13083082	0.82[EUR][1000 genomes]
rs13089019	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13094881	0.84[EUR][1000 genomes]
rs34018952	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34158034	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34825657	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34967455	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35835987	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs35866364	0.84[EUR][1000 genomes]
rs35947588	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs35977673	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4076863	0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4246674	0.82[EUR][1000 genomes]
rs4974136	0.82[EUR][1000 genomes]
rs4974138	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4974139	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4974200	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4974201	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4974203	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4974204	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4974205	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4974206	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4974210	0.83[EUR][1000 genomes]
rs4974211	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4974212	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs55952137	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs60814962	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6445787	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6776240	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7610959	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7615409	0.83[EUR][1000 genomes]
rs7628943	0.83[EUR][1000 genomes]
rs7637430	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs7644975	ERC2	cis	cerebellum	SCAN
rs7644975	C3orf51	cis	cerebellum	SCAN
rs7644975	BAP1	cis	parietal	SCAN

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:56390600-56406800	Weak transcription	HUES48 Cell Line	embryonic stem cell
2	chr3:56390800-56410000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr3:56400800-56407200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr3:56401000-56405200	Weak transcription	Brain Anterior Caudate	brain
5	chr3:56401200-56407000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
6	chr3:56401600-56405400	Weak transcription	H1 Cell Line	embryonic stem cell
7	chr3:56401800-56405200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
8	chr3:56401800-56405200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr3:56403800-56406000	Enhancers	Brain Cingulate Gyrus	brain
10	chr3:56403800-56406200	Enhancers	Brain Angular Gyrus	brain
11	chr3:56403800-56406400	Enhancers	Brain Hippocampus Middle	brain
12	chr3:56404200-56406000	Enhancers	Adipose Nuclei	Adipose
13	chr3:56404200-56406000	Enhancers	Brain Inferior Temporal Lobe	brain
14	chr3:56404800-56405200	Weak transcription	Brain Substantia Nigra	brain
15	chr3:56404800-56405800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr3:56404800-56405800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
17	chr3:56405000-56405600	Enhancers	Cortex derived primary cultured neurospheres	brain
18	chr3:56405000-56405600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain

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