Variant report

Variant	rs7843789
Chromosome Location	chr8:8800561-8800562
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr8:8791750..8794485-chr8:8798173..8800628,2	K562	blood:
2	chr8:8792434..8796663-chr8:8799601..8802595,4	K562	blood:
3	chr8:8637196..8637781-chr8:8800088..8800758,2	MCF-7	breast:
4	chr8:8636919..8637702-chr8:8799876..8800811,2	MCF-7	breast:

Extended variants
information (count: 72 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:64)

rs_ID	r²[population]
rs10087416	1.00[CHB][hapmap]
rs10091588	1.00[ASN][1000 genomes]
rs10096850	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1036082	1.00[ASN][1000 genomes]
rs11774244	1.00[ASN][1000 genomes]
rs11775788	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs11779660	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs11779804	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11780338	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs11780774	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11781203	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs12549151	0.81[EUR][1000 genomes]
rs13250781	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13277114	1.00[ASN][1000 genomes]
rs1530484	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs1594437	0.82[EUR][1000 genomes]
rs17646197	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs17700611	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17701980	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs2043129	0.83[EUR][1000 genomes]
rs28520356	1.00[ASN][1000 genomes]
rs28572014	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34293316	1.00[ASN][1000 genomes]
rs36056437	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4840376	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55824072	1.00[ASN][1000 genomes]
rs56109025	1.00[ASN][1000 genomes]
rs56349323	1.00[ASN][1000 genomes]
rs56400435	1.00[ASN][1000 genomes]
rs57280925	1.00[ASN][1000 genomes]
rs59041878	1.00[ASN][1000 genomes]
rs59257214	1.00[ASN][1000 genomes]
rs60551984	1.00[ASN][1000 genomes]
rs61397430	1.00[ASN][1000 genomes]
rs61730232	1.00[ASN][1000 genomes]
rs62492947	1.00[ASN][1000 genomes]
rs62493174	1.00[ASN][1000 genomes]
rs62495491	1.00[ASN][1000 genomes]
rs62495539	1.00[ASN][1000 genomes]
rs6601282	1.00[CHB][hapmap]
rs6981610	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs6981745	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6982619	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs6987569	1.00[ASN][1000 genomes]
rs6996374	1.00[ASN][1000 genomes]
rs7000323	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7001187	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7014430	0.82[EUR][1000 genomes]
rs73518330	1.00[ASN][1000 genomes]
rs73518392	1.00[ASN][1000 genomes]
rs7357482	1.00[ASN][1000 genomes]
rs73662247	1.00[ASN][1000 genomes]
rs7814828	0.81[EUR][1000 genomes]
rs7822129	1.00[ASN][1000 genomes]
rs7826478	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs7828944	1.00[ASN][1000 genomes]
rs7830266	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs7843024	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7843154	1.00[ASN][1000 genomes]
rs7843369	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7846007	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs895253	1.00[ASN][1000 genomes]
rs9329175	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs9329176	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv890331	chr8:8093240-8971100	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
2	nsv995047	chr8:8353662-8857913	Bivalent/Poised TSS Enhancers Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	nsv917117	chr8:8621658-9313799	Active TSS Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
4	nsv831229	chr8:8751523-8926235	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
5	nsv1017388	chr8:8759494-8826714	Weak transcription Bivalent Enhancer Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv1017238	chr8:8760138-8831662	Flanking Active TSS Weak transcription Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv1026913	chr8:8773659-8838256	Weak transcription Bivalent Enhancer Genic enhancers Enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
8	nsv610205	chr8:8799111-8891644	Weak transcription Flanking Active TSS Strong transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	n/a

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs7843789	RP11-62H7.2	cis	Thyroid	GTEx
rs7843789	CTA-398F10.2	cis	Skin Sun Exposed Lower leg	GTEx
rs7843789	THEX1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:8781200-8815200	Weak transcription	Primary T helper cells fromperipheralblood	blood
2	chr8:8781600-8816600	Weak transcription	Primary T cells from cord blood	blood
3	chr8:8786200-8820600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
4	chr8:8793000-8802600	Weak transcription	Small Intestine	intestine
5	chr8:8793400-8804200	Weak transcription	Right Atrium	heart
6	chr8:8794200-8807200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr8:8796600-8800600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr8:8796600-8803200	Weak transcription	Fetal Intestine Large	intestine
9	chr8:8796800-8819600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
10	chr8:8797400-8800600	Enhancers	HUES6 Cell Line	embryonic stem cell
11	chr8:8797400-8800800	Enhancers	iPS-18 Cell Line	embryonic stem cell
12	chr8:8798800-8804400	Weak transcription	HepG2	liver
13	chr8:8799000-8800800	Enhancers	iPS-15b Cell Line	embryonic stem cell
14	chr8:8799200-8800600	Enhancers	ES-I3 Cell Line	embryonic stem cell
15	chr8:8799400-8800600	Enhancers	HUES64 Cell Line	embryonic stem cell
16	chr8:8800000-8804200	Weak transcription	Placenta	Placenta
17	chr8:8800000-8804400	Weak transcription	H1 Cell Line	embryonic stem cell
18	chr8:8800000-8804400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
19	chr8:8800200-8802600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
20	chr8:8800200-8802800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
21	chr8:8800200-8804200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
22	chr8:8800200-8810000	Weak transcription	Fetal Brain Male	brain
23	chr8:8800400-8801600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr8:8800400-8801800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
25	chr8:8800400-8802600	Weak transcription	Stomach Mucosa	stomach
26	chr8:8800400-8804600	Weak transcription	K562	blood
27	chr8:8800400-8805600	Weak transcription	Primary T helper cells PMA-I stimulated	--
28	chr8:8800400-8806000	Weak transcription	Primary T cells fromperipheralblood	blood
29	chr8:8800400-8813200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood

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