Variant report

Variant	rs10771078
Chromosome Location	chr12:8964708-8964709
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 14 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs10161484	0.84[CEU][hapmap];0.91[CHB][hapmap];0.94[CHD][hapmap];0.81[GIH][hapmap];0.88[JPT][hapmap];1.00[MEX][hapmap];0.85[TSI][hapmap];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10771079	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10842310	0.82[EUR][1000 genomes]
rs10842334	0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10842335	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11047362	0.91[EUR][1000 genomes]
rs12296768	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2058456	0.83[YRI][hapmap]
rs2098246	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2377590	0.88[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs2377593	0.83[CEU][hapmap];0.83[MEX][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv34096	chr12:8927520-8968810	Genic enhancers Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	esv3379065	chr12:8957268-8965075	Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	n/a	n/a	inside rSNPs	diseases
3	esv3330446	chr12:8964460-8966708	Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs10771078	CLEC2B	cis	cerebellum	SCAN
rs10771078	GNB3	cis	parietal	SCAN
rs10771078	AICDA	cis	cerebellum	SCAN

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:8960000-8972000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr12:8961400-8966600	Weak transcription	Primary neutrophils fromperipheralblood	blood
3	chr12:8961400-8969200	Weak transcription	Primary monocytes fromperipheralblood	blood
4	chr12:8963000-8966400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr12:8963000-8970200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr12:8963200-8965600	Weak transcription	H1 Cell Line	embryonic stem cell
7	chr12:8963200-8966600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr12:8963400-8965800	Weak transcription	HUES64 Cell Line	embryonic stem cell
9	chr12:8963400-8965800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
10	chr12:8963400-8966400	Weak transcription	HUES48 Cell Line	embryonic stem cell
11	chr12:8963400-8966400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
12	chr12:8963400-8966400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
13	chr12:8963800-8965800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
14	chr12:8963800-8966600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
15	chr12:8964200-8964800	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
16	chr12:8964400-8964800	Weak transcription	HUES6 Cell Line	embryonic stem cell

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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