Variant report

Variant	rs9374774
Chromosome Location	chr6:119361257-119361258
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 51 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs10456918	0.86[EUR][1000 genomes]
rs1068588	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11153778	1.00[ASW][hapmap];0.90[CEU][hapmap];0.93[GIH][hapmap];0.82[LWK][hapmap];0.89[TSI][hapmap];0.84[YRI][hapmap];0.84[EUR][1000 genomes]
rs11153780	0.86[EUR][1000 genomes]
rs11153791	0.87[EUR][1000 genomes]
rs12204084	0.90[CEU][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12204825	0.88[EUR][1000 genomes]
rs12207663	0.87[EUR][1000 genomes]
rs12211725	0.98[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12213327	0.87[EUR][1000 genomes]
rs12213597	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12216130	0.82[EUR][1000 genomes]
rs1334922	0.88[ASN][1000 genomes]
rs1342794	0.88[ASN][1000 genomes]
rs17506361	0.90[CEU][hapmap];0.84[YRI][hapmap];0.88[EUR][1000 genomes]
rs1775613	1.00[JPT][hapmap]
rs1775617	0.83[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3756939	1.00[JPT][hapmap]
rs4343954	1.00[ASN][1000 genomes]
rs589865	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs590004	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs610960	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs639266	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs669978	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67182660	0.85[EUR][1000 genomes]
rs6902942	0.87[EUR][1000 genomes]
rs7740819	0.91[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7750373	0.91[AFR][1000 genomes];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7771525	0.98[EUR][1000 genomes]
rs7772912	0.90[CEU][hapmap];0.93[GIH][hapmap];0.83[TSI][hapmap];0.83[EUR][1000 genomes]
rs7775251	0.86[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7775275	0.90[CEU][hapmap];0.85[EUR][1000 genomes]
rs794249	1.00[JPT][hapmap]
rs813233	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9372521	1.00[JPT][hapmap]
rs9374756	0.85[EUR][1000 genomes]
rs9374760	0.87[EUR][1000 genomes]
rs9374762	0.87[EUR][1000 genomes]
rs9374769	1.00[JPT][hapmap]
rs9374770	1.00[JPT][hapmap]
rs9385059	1.00[JPT][hapmap]
rs9385066	1.00[ASN][1000 genomes]
rs9387607	1.00[JPT][hapmap]
rs9387618	1.00[JPT][hapmap]
rs9387627	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs9387631	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9401094	1.00[JPT][hapmap]
rs9401100	1.00[JPT][hapmap]
rs9401101	0.90[CEU][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];0.83[TSI][hapmap];0.86[EUR][1000 genomes]
rs9401117	0.95[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1030400	chr6:119320153-119433830	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region miRNA	30 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs9374774	FAM184A	cis	parietal	SCAN
rs9374774	MCM9	cis	parietal	SCAN
rs9374774	MCM9	cis	cerebellum	SCAN
rs9374774	BRD7P3	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:119314400-119364400	Weak transcription	Fetal Muscle Trunk	muscle
2	chr6:119356400-119368800	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr6:119356800-119366600	Weak transcription	Cortex derived primary cultured neurospheres	brain
4	chr6:119357200-119361400	Enhancers	iPS-18 Cell Line	embryonic stem cell
5	chr6:119357400-119361600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr6:119357400-119373400	Weak transcription	H1 Cell Line	embryonic stem cell
7	chr6:119357800-119361400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
8	chr6:119358000-119363400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr6:119359400-119364400	Weak transcription	HUES64 Cell Line	embryonic stem cell
10	chr6:119359600-119361800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
11	chr6:119360200-119364600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
12	chr6:119360600-119362600	Enhancers	HUES6 Cell Line	embryonic stem cell
13	chr6:119360800-119361800	Enhancers	ES-I3 Cell Line	embryonic stem cell
14	chr6:119360800-119361800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
15	chr6:119360800-119362000	Genic enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
16	chr6:119360800-119363200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr6:119360800-119363600	Enhancers	Placenta	Placenta
18	chr6:119361000-119361600	Enhancers	H9 Cell Line	embryonic stem cell
19	chr6:119361000-119361800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
20	chr6:119361000-119362600	Enhancers	HUES48 Cell Line	embryonic stem cell
21	chr6:119361200-119362200	Enhancers	Adipose Nuclei	Adipose
22	chr6:119361200-119364400	Weak transcription	K562	blood

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