Variant report

Variant	rs863006
Chromosome Location	chr1:159177748-159177749
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-AIM2-1	chr1:159177600-159177763	ENSG00000225670.3

Extended variants
information (count: 2 )
Associated
traits (count: 7 )

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

rs_ID	r²[population]
rs12075	0.85[CHB][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.83[MEX][hapmap];0.96[ASN][1000 genomes]
rs863002	0.85[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]

mRNA abundance (count:7)

SNP	Gene	Cis/trans	Tissue	Source
rs863006	CCT3	cis	parietal	SCAN
rs863006	NHLH1	cis	parietal	SCAN
rs863006	APCS	cis	cerebellum	SCAN
rs863006	S100A4	cis	parietal	SCAN
rs863006	ARHGEF11	cis	cerebellum	SCAN
rs863006	NCSTN	cis	parietal	SCAN
rs863006	FCER1A	cis	parietal	SCAN

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:159158800-159177800	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr1:159158800-159188800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr1:159170400-159177800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr1:159175200-159177800	Weak transcription	HUES64 Cell Line	embryonic stem cell
5	chr1:159176200-159178200	Enhancers	Spleen	Spleen
6	chr1:159176600-159179200	Enhancers	Fetal Brain Male	brain
7	chr1:159177400-159177800	Bivalent/Poised TSS	Brain Cingulate Gyrus	brain
8	chr1:159177400-159178200	Enhancers	Rectal Smooth Muscle	rectum
9	chr1:159177400-159178600	Flanking Active TSS	Brain Germinal Matrix	brain
10	chr1:159177600-159177800	Bivalent Enhancer	HUES48 Cell Line	embryonic stem cell
11	chr1:159177600-159177800	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
12	chr1:159177600-159177800	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
13	chr1:159177600-159177800	Bivalent Enhancer	Cortex derived primary cultured neurospheres	brain
14	chr1:159177600-159177800	Enhancers	Brain Angular Gyrus	brain
15	chr1:159177600-159178000	Active TSS	H1 Cell Line	embryonic stem cell
16	chr1:159177600-159178000	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr1:159177600-159178000	Active TSS	GM12878-XiMat	blood
18	chr1:159177600-159178200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
19	chr1:159177600-159178200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr1:159177600-159178200	Bivalent Enhancer	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr1:159177600-159178200	Enhancers	Brain Anterior Caudate	brain
22	chr1:159177600-159178200	Enhancers	Placenta	Placenta
23	chr1:159177600-159178400	Active TSS	iPS-20b Cell Line	embryonic stem cell
24	chr1:159177600-159178400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
25	chr1:159177600-159178400	Flanking Active TSS	Fetal Brain Female	brain

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