Variant report

Variant	rs6977868
Chromosome Location	chr7:106790555-106790556
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:12)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:12 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr7:106587375..106588392-chr7:106790531..106792052,25	K562	blood:
2	chr7:106790159..106792080-chr7:106808485..106810265,2	MCF-7	breast:
3	chr7:106785402..106788167-chr7:106788520..106790659,2	K562	blood:
4	chr7:106650757..106652736-chr7:106788247..106790695,3	K562	blood:
5	chr7:106587499..106588599-chr7:106790528..106791712,8	MCF-7	breast:
6	chr7:106689062..106690686-chr7:106788089..106791077,2	K562	blood:
7	chr7:106717147..106719450-chr7:106788638..106791468,2	K562	blood:
8	chr7:106684077..106686070-chr7:106790309..106791811,2	K562	blood:
9	chr7:106531707..106532599-chr7:106790528..106791251,2	K562	blood:
10	chr7:106584183..106585065-chr7:106790531..106791311,2	K562	blood:
11	chr7:106432310..106435136-chr7:106789858..106792528,2	K562	blood:
12	chr7:106586596..106588761-chr7:106790457..106792904,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000105856	Chromatin interaction
ENSG00000005249	Chromatin interaction
ENSG00000243193	Chromatin interaction

Extended variants
information (count: 92 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:91)

rs_ID	r²[population]
rs1002935	0.82[CEU][hapmap];0.91[AMR][1000 genomes]
rs1018946	0.81[CEU][hapmap];0.91[AMR][1000 genomes]
rs1018947	0.82[CEU][hapmap];0.91[AMR][1000 genomes]
rs10248105	1.00[JPT][hapmap]
rs10253172	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10253291	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10261881	0.81[ASN][1000 genomes]
rs10487271	0.82[CEU][hapmap]
rs10953529	0.85[AMR][1000 genomes]
rs10953530	0.81[CEU][hapmap];0.91[AMR][1000 genomes]
rs10953531	0.81[CEU][hapmap];0.91[AMR][1000 genomes]
rs10953533	0.80[AMR][1000 genomes]
rs11509187	0.81[ASN][1000 genomes]
rs11767623	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12055946	0.81[ASN][1000 genomes]
rs12532447	0.88[CEU][hapmap]
rs12532849	0.82[CEU][hapmap]
rs12532953	0.91[AMR][1000 genomes]
rs12533767	0.91[AMR][1000 genomes]
rs12535258	0.82[CEU][hapmap]
rs12536574	0.95[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12537374	0.82[AMR][1000 genomes]
rs12537730	0.91[AMR][1000 genomes]
rs12540475	0.82[AMR][1000 genomes]
rs12705405	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17153861	0.81[ASN][1000 genomes]
rs17341680	0.81[ASN][1000 genomes]
rs17349904	0.81[CEU][hapmap];0.82[AMR][1000 genomes]
rs17427123	0.91[AMR][1000 genomes]
rs17427158	0.91[AMR][1000 genomes]
rs17427849	0.91[AMR][1000 genomes]
rs17428071	0.82[CEU][hapmap];0.82[AMR][1000 genomes]
rs17428126	0.82[AMR][1000 genomes]
rs1981696	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2023892	0.91[AMR][1000 genomes]
rs2107318	0.91[AMR][1000 genomes]
rs2107319	0.81[CEU][hapmap];0.85[AMR][1000 genomes]
rs2191917	0.81[ASN][1000 genomes]
rs2249043	0.81[CEU][hapmap]
rs257371	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs257372	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs257373	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs257375	0.91[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs257377	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs257378	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs257379	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs257381	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs257382	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs257385	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs257386	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs257387	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28610544	0.81[ASN][1000 genomes]
rs2894459	0.81[CEU][hapmap]
rs3729876	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3729877	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3752645	0.81[ASN][1000 genomes]
rs3779500	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3801963	0.82[CEU][hapmap]
rs3801965	0.82[CEU][hapmap];0.91[AMR][1000 genomes]
rs4727670	0.81[AMR][1000 genomes]
rs4727671	0.82[AMR][1000 genomes]
rs4730222	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4730223	0.81[CEU][hapmap];0.89[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs4730224	0.91[AMR][1000 genomes]
rs4730226	0.82[AMR][1000 genomes]
rs61014091	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs61673847	0.82[AMR][1000 genomes]
rs6466160	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6946036	0.91[AMR][1000 genomes]
rs6946931	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6947675	0.80[CEU][hapmap];0.91[AMR][1000 genomes]
rs6947857	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6949961	0.81[CEU][hapmap];0.91[AMR][1000 genomes]
rs6951639	0.91[AMR][1000 genomes]
rs6960148	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6960708	0.81[ASN][1000 genomes]
rs6967745	0.82[CEU][hapmap];0.91[AMR][1000 genomes]
rs6971393	0.81[ASN][1000 genomes]
rs6971675	0.82[CEU][hapmap];0.91[AMR][1000 genomes]
rs6971774	0.81[CEU][hapmap];0.89[AMR][1000 genomes]
rs6978486	0.81[ASN][1000 genomes]
rs7777976	0.82[AMR][1000 genomes]
rs7781947	0.82[CEU][hapmap]
rs7789678	0.84[AMR][1000 genomes]
rs7793594	0.82[AMR][1000 genomes]
rs7794598	0.81[CEU][hapmap]
rs7794965	0.91[AMR][1000 genomes]
rs7798223	0.91[AMR][1000 genomes]
rs7981	0.91[AMR][1000 genomes]
rs8180787	0.81[ASN][1000 genomes]
rs9641378	0.82[CEU][hapmap];0.85[AMR][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	nsv831087	chr7:106673465-106872460	Active TSS Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6977868	GPR22	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:46 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:106760400-106808400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr7:106763000-106807800	Weak transcription	Stomach Smooth Muscle	stomach
3	chr7:106767400-106797600	Weak transcription	Monocytes-CD14+_RO01746	blood
4	chr7:106778400-106807800	Weak transcription	Brain Germinal Matrix	brain
5	chr7:106779800-106790800	Weak transcription	Brain Inferior Temporal Lobe	brain
6	chr7:106780000-106807800	Weak transcription	Fetal Heart	heart
7	chr7:106780200-106792000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr7:106780200-106792200	Weak transcription	Fetal Brain Female	brain
9	chr7:106782000-106795400	Weak transcription	Pancreas	Pancrea
10	chr7:106782600-106808000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr7:106782800-106807800	Weak transcription	H1 Cell Line	embryonic stem cell
12	chr7:106783600-106807600	Weak transcription	Fetal Stomach	stomach
13	chr7:106784200-106802600	Strong transcription	K562	blood
14	chr7:106785400-106808000	Weak transcription	H9 Cell Line	embryonic stem cell
15	chr7:106785800-106790800	Weak transcription	Fetal Lung	lung
16	chr7:106785800-106807600	Weak transcription	Fetal Kidney	kidney
17	chr7:106787400-106791800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr7:106787400-106792000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
19	chr7:106787400-106805800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
20	chr7:106788000-106805800	Weak transcription	HUES6 Cell Line	embryonic stem cell
21	chr7:106788000-106808000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
22	chr7:106788200-106807600	Weak transcription	Duodenum Smooth Muscle	Duodenum
23	chr7:106788400-106791800	Weak transcription	Adipose Nuclei	Adipose
24	chr7:106788400-106792000	Weak transcription	HMEC	breast
25	chr7:106788400-106792000	Weak transcription	NHDF-Ad	bronchial
26	chr7:106788400-106794000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr7:106788400-106808000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
28	chr7:106788600-106792000	Weak transcription	NH-A	brain
29	chr7:106788600-106805800	Weak transcription	HUES64 Cell Line	embryonic stem cell
30	chr7:106788800-106790800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
31	chr7:106788800-106790800	Weak transcription	Brain Anterior Caudate	brain
32	chr7:106788800-106791800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
33	chr7:106788800-106792000	Weak transcription	NHLF	lung
34	chr7:106788800-106797200	Weak transcription	Placenta	Placenta
35	chr7:106788800-106797400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
36	chr7:106788800-106805800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
37	chr7:106788800-106807200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr7:106788800-106807600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
39	chr7:106788800-106807800	Weak transcription	Ovary	ovary
40	chr7:106789000-106790600	Weak transcription	HUVEC	blood vessel
41	chr7:106789000-106791800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
42	chr7:106789400-106808200	Weak transcription	Sigmoid Colon	Sigmoid Colon
43	chr7:106789800-106791000	Enhancers	HUES48 Cell Line	embryonic stem cell
44	chr7:106790000-106792600	Weak transcription	Hela-S3	cervix
45	chr7:106790000-106807200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
46	chr7:106790200-106792200	Weak transcription	Brain Angular Gyrus	brain

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