Variant report

Variant	rs3798996
Chromosome Location	chr6:69705913-69705914
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:69704465..69706532-chr6:69711513..69713014,2	K562	blood:
2	chr6:69699072..69700875-chr6:69703905..69706517,2	K562	blood:
3	chr6:69705335..69707622-chr6:69708224..69711440,3	K562	blood:

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs12194774	1.00[CHB][hapmap];0.95[ASN][1000 genomes]
rs12194946	1.00[CHB][hapmap];0.95[ASN][1000 genomes]
rs12213405	1.00[CHB][hapmap];0.90[CHD][hapmap];0.95[ASN][1000 genomes]
rs13191240	1.00[JPT][hapmap]
rs13191563	1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];0.94[MKK][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs13191706	0.85[ASN][1000 genomes]
rs13192798	0.85[ASN][1000 genomes]
rs13194716	0.85[ASN][1000 genomes]
rs13197569	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13205016	0.89[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.81[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13205140	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13219339	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs13219669	1.00[JPT][hapmap]
rs1336635	0.95[ASN][1000 genomes]
rs1336636	0.95[ASN][1000 genomes]
rs1336651	1.00[CHB][hapmap];0.85[ASN][1000 genomes]
rs1336655	0.85[ASN][1000 genomes]
rs1415029	1.00[CHB][hapmap];0.90[CHD][hapmap];0.95[ASN][1000 genomes]
rs1415036	1.00[CHB][hapmap];0.85[ASN][1000 genomes]
rs1556756	0.95[ASN][1000 genomes]
rs16900400	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1889877	1.00[CHB][hapmap];0.81[CHD][hapmap];0.85[ASN][1000 genomes]
rs1889878	1.00[CHB][hapmap];0.90[CHD][hapmap];0.85[ASN][1000 genomes]
rs1932618	0.87[GIH][hapmap]
rs2200088	1.00[JPT][hapmap]
rs2210867	1.00[CHD][hapmap];0.85[ASN][1000 genomes]
rs2225803	1.00[CHB][hapmap];0.90[CHD][hapmap];0.83[LWK][hapmap];0.86[YRI][hapmap];0.85[ASN][1000 genomes]
rs2343396	0.85[ASN][1000 genomes]
rs34526480	0.85[ASN][1000 genomes]
rs3757045	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs3757046	0.85[ASN][1000 genomes]
rs3757047	0.85[ASN][1000 genomes]
rs3798980	0.81[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap]
rs3799002	1.00[CHB][hapmap];0.95[ASN][1000 genomes]
rs3799007	1.00[CHB][hapmap];0.89[CHD][hapmap];0.93[GIH][hapmap];0.85[ASN][1000 genomes]
rs3799016	0.85[ASN][1000 genomes]
rs3799017	1.00[CHB][hapmap];0.90[CHD][hapmap];0.85[ASN][1000 genomes]
rs3799021	0.81[CHD][hapmap];0.93[GIH][hapmap]
rs3799023	1.00[JPT][hapmap]
rs3823061	0.82[GIH][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap]
rs3823066	0.85[ASN][1000 genomes]
rs3823067	1.00[CHB][hapmap];0.85[ASN][1000 genomes]
rs526898	0.90[CHD][hapmap]
rs6455309	0.84[GIH][hapmap]
rs6903686	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6904267	0.81[CHD][hapmap]
rs6908180	1.00[ASW][hapmap];0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];0.85[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6919909	1.00[JPT][hapmap];1.00[MEX][hapmap]
rs6934473	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71555397	0.85[ASN][1000 genomes]
rs7741493	0.85[ASN][1000 genomes]
rs7743332	1.00[CHB][hapmap];0.90[CHD][hapmap];0.85[ASN][1000 genomes]
rs7756040	1.00[CHB][hapmap];0.90[CHD][hapmap];0.85[ASN][1000 genomes]
rs7756637	1.00[CHB][hapmap];0.85[ASN][1000 genomes]
rs7760307	1.00[CHB][hapmap]
rs7761270	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.93[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7767118	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs9446085	1.00[CHB][hapmap];0.90[CHD][hapmap];0.81[ASN][1000 genomes]
rs9454674	1.00[CHB][hapmap];0.90[CHD][hapmap];0.95[ASN][1000 genomes]
rs947221	0.85[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	nsv886137	chr6:69684850-70095690	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:69685800-69758800	Weak transcription	Fetal Brain Male	brain
2	chr6:69686800-69706200	Weak transcription	Fetal Lung	lung
3	chr6:69688200-69721200	Weak transcription	Left Ventricle	heart
4	chr6:69692000-69716600	Weak transcription	Fetal Stomach	stomach
5	chr6:69696400-69715400	Weak transcription	Aorta	Aorta
6	chr6:69700800-69710200	Weak transcription	Brain Anterior Caudate	brain
7	chr6:69701000-69706200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr6:69701000-69723000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr6:69701000-69737600	Weak transcription	Brain Hippocampus Middle	brain
10	chr6:69701200-69721200	Weak transcription	Brain Cingulate Gyrus	brain
11	chr6:69701200-69724400	Weak transcription	Brain Germinal Matrix	brain
12	chr6:69702400-69728600	Weak transcription	Brain Inferior Temporal Lobe	brain
13	chr6:69702400-69737600	Weak transcription	Brain Angular Gyrus	brain
14	chr6:69702600-69723800	Weak transcription	Brain Substantia Nigra	brain
15	chr6:69703800-69719400	Weak transcription	Fetal Brain Female	brain
16	chr6:69704800-69708200	Weak transcription	HUES48 Cell Line	embryonic stem cell
17	chr6:69704800-69708400	Weak transcription	HUES64 Cell Line	embryonic stem cell
18	chr6:69704800-69713000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
19	chr6:69704800-69721600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr6:69705400-69706800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chr6:69705400-69711600	Strong transcription	Cortex derived primary cultured neurospheres	brain
22	chr6:69705600-69706200	Weak transcription	Adipose Nuclei	Adipose

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