Variant report

Variant	rs3799005
Chromosome Location	chr6:69722988-69722989
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs1415031	1.00[JPT][hapmap]
rs16900354	0.82[JPT][hapmap];1.00[AMR][1000 genomes]
rs16900381	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes]
rs16900396	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs16900417	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs16900425	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2275209	1.00[JPT][hapmap]
rs3798976	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs3798977	1.00[JPT][hapmap]
rs3798981	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3799006	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3799026	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs3799029	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs3799031	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs3799033	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs3823063	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs3823071	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs41476950	1.00[AFR][1000 genomes]
rs62406826	1.00[AFR][1000 genomes]
rs7453486	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs9294818	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs9342739	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs9351744	1.00[EUR][1000 genomes]
rs9360373	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs9363981	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs9363982	1.00[EUR][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:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:69685800-69758800	Weak transcription	Fetal Brain Male	brain
2	chr6:69701000-69723000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr6:69701000-69737600	Weak transcription	Brain Hippocampus Middle	brain
4	chr6:69701200-69724400	Weak transcription	Brain Germinal Matrix	brain
5	chr6:69702400-69728600	Weak transcription	Brain Inferior Temporal Lobe	brain
6	chr6:69702400-69737600	Weak transcription	Brain Angular Gyrus	brain
7	chr6:69702600-69723800	Weak transcription	Brain Substantia Nigra	brain
8	chr6:69718600-69726200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr6:69719400-69725800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr6:69720400-69758600	Weak transcription	Cortex derived primary cultured neurospheres	brain
11	chr6:69721400-69728600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
12	chr6:69721400-69728800	Weak transcription	Left Ventricle	heart
13	chr6:69721600-69723000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
14	chr6:69721600-69723000	Enhancers	Ovary	ovary
15	chr6:69721600-69723400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr6:69721600-69723400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr6:69721600-69752200	Weak transcription	Fetal Lung	lung
18	chr6:69722000-69723000	Enhancers	iPS-18 Cell Line	embryonic stem cell
19	chr6:69722200-69723000	Enhancers	iPS-15b Cell Line	embryonic stem cell
20	chr6:69722200-69723000	Enhancers	iPS-20b Cell Line	embryonic stem cell
21	chr6:69722200-69723200	Enhancers	H1 Cell Line	embryonic stem cell
22	chr6:69722400-69725800	Weak transcription	HUES48 Cell Line	embryonic stem cell
23	chr6:69722600-69723000	Enhancers	HUES6 Cell Line	embryonic stem cell
24	chr6:69722800-69723200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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