Variant report

Variant	rs6977929
Chromosome Location	chr7:117416677-117416678
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	7:115847372-115857098..7:117413681-117417762	H1-hESC	embryonic stem cell:	embryo
2	7:116651084-116657331..7:117413681-117417762	Hela-S3	cervix:

Variant related genes	Relation type
ENSG00000004866	Chromatin interaction
ENSG00000135269	Chromatin interaction

Extended variants
information (count: 66 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:66)

rs_ID	r²[population]
rs10227037	1.00[ASN][1000 genomes]
rs10231200	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10235887	1.00[CEU][hapmap];0.84[MEX][hapmap];0.93[TSI][hapmap];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10249282	1.00[CEU][hapmap];0.93[TSI][hapmap];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10249647	1.00[CEU][hapmap];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10250116	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10258876	1.00[CEU][hapmap];0.94[YRI][hapmap];0.84[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10277715	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10279510	1.00[ASN][1000 genomes]
rs10487375	0.90[GIH][hapmap]
rs10953849	0.90[GIH][hapmap]
rs11505934	1.00[ASN][1000 genomes]
rs11767812	1.00[CHD][hapmap];0.88[GIH][hapmap]
rs11974874	1.00[CHD][hapmap];0.90[GIH][hapmap];0.84[MEX][hapmap];0.86[TSI][hapmap]
rs17140401	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17140426	1.00[CEU][hapmap];0.93[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17140428	1.00[ASN][1000 genomes]
rs28403532	1.00[ASN][1000 genomes]
rs28458827	1.00[ASN][1000 genomes]
rs28460732	1.00[ASN][1000 genomes]
rs28491601	1.00[ASN][1000 genomes]
rs28626909	0.84[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28744472	0.98[EUR][1000 genomes]
rs34090296	1.00[ASN][1000 genomes]
rs34128994	1.00[ASN][1000 genomes]
rs34184681	1.00[ASN][1000 genomes]
rs34242801	1.00[ASN][1000 genomes]
rs34338088	1.00[ASN][1000 genomes]
rs34469059	1.00[ASN][1000 genomes]
rs34491454	1.00[ASN][1000 genomes]
rs34505144	1.00[ASN][1000 genomes]
rs34680574	1.00[ASN][1000 genomes]
rs34739284	1.00[ASN][1000 genomes]
rs34782757	1.00[ASN][1000 genomes]
rs34844482	1.00[ASN][1000 genomes]
rs35160894	1.00[ASN][1000 genomes]
rs35191087	1.00[ASN][1000 genomes]
rs35280089	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35309708	1.00[ASN][1000 genomes]
rs35349079	1.00[ASN][1000 genomes]
rs35410407	1.00[ASN][1000 genomes]
rs35441392	1.00[ASN][1000 genomes]
rs35492426	1.00[ASN][1000 genomes]
rs35522360	1.00[ASN][1000 genomes]
rs35618845	1.00[ASN][1000 genomes]
rs35714028	1.00[ASN][1000 genomes]
rs35720191	1.00[ASN][1000 genomes]
rs35731674	1.00[ASN][1000 genomes]
rs35774527	1.00[ASN][1000 genomes]
rs35813124	1.00[ASN][1000 genomes]
rs35838987	1.00[ASN][1000 genomes]
rs35894760	1.00[ASN][1000 genomes]
rs35918397	1.00[ASN][1000 genomes]
rs35997432	1.00[ASN][1000 genomes]
rs36011009	1.00[ASN][1000 genomes]
rs36036225	1.00[ASN][1000 genomes]
rs6466623	0.84[CEU][hapmap];0.85[EUR][1000 genomes]
rs6946763	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6954037	1.00[CEU][hapmap];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6962570	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6971495	1.00[CEU][hapmap];0.94[YRI][hapmap];0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7781185	1.00[CEU][hapmap];0.92[MEX][hapmap];1.00[TSI][hapmap];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7781470	1.00[CEU][hapmap];0.93[TSI][hapmap];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7800765	1.00[ASN][1000 genomes]
rs916931	1.00[CHD][hapmap];0.90[GIH][hapmap]
rs9969206	1.00[CEU][hapmap];1.00[MEX][hapmap];0.86[MKK][hapmap];1.00[TSI][hapmap];0.94[YRI][hapmap];0.84[AFR][1000 genomes];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs6977929	MDFIC	cis	parietal	SCAN
rs6977929	ST7	cis	parietal	SCAN

Chromatin state (count:51 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:117354800-117417200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
2	chr7:117356200-117431400	Weak transcription	HUES6 Cell Line	embryonic stem cell
3	chr7:117375200-117431600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr7:117396400-117450200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
5	chr7:117396600-117431200	Weak transcription	Aorta	Aorta
6	chr7:117396800-117421000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr7:117397000-117431200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr7:117397000-117431200	Weak transcription	Fetal Intestine Small	intestine
9	chr7:117397000-117431600	Weak transcription	Ovary	ovary
10	chr7:117397200-117421400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr7:117397200-117431200	Weak transcription	Pancreas	Pancrea
12	chr7:117398600-117431200	Weak transcription	Fetal Stomach	stomach
13	chr7:117400800-117431200	Weak transcription	Cortex derived primary cultured neurospheres	brain
14	chr7:117401400-117434000	Weak transcription	Rectal Smooth Muscle	rectum
15	chr7:117402400-117419200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr7:117405000-117419600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
17	chr7:117405800-117418400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
18	chr7:117409200-117416800	Weak transcription	Sigmoid Colon	Sigmoid Colon
19	chr7:117409800-117433400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr7:117410200-117418400	Strong transcription	Fetal Brain Female	brain
21	chr7:117410400-117418000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
22	chr7:117411400-117418000	Strong transcription	Fetal Lung	lung
23	chr7:117411800-117417400	Weak transcription	Stomach Smooth Muscle	stomach
24	chr7:117412200-117431200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
25	chr7:117412200-117431200	Weak transcription	H9 Cell Line	embryonic stem cell
26	chr7:117412400-117416800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
27	chr7:117412400-117431200	Weak transcription	Esophagus	oesophagus
28	chr7:117412800-117417400	Weak transcription	Brain Angular Gyrus	brain
29	chr7:117413000-117417000	Enhancers	Primary monocytes fromperipheralblood	blood
30	chr7:117413200-117416800	Enhancers	Primary hematopoietic stem cells short term culture	blood
31	chr7:117413200-117417200	Weak transcription	Fetal Kidney	kidney
32	chr7:117414600-117416800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
33	chr7:117415200-117417800	Strong transcription	Brain Germinal Matrix	brain
34	chr7:117415400-117417800	Strong transcription	H1 Cell Line	embryonic stem cell
35	chr7:117415400-117417800	Strong transcription	Brain Inferior Temporal Lobe	brain
36	chr7:117415600-117421000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
37	chr7:117415600-117421000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
38	chr7:117415600-117421000	Weak transcription	Fetal Heart	heart
39	chr7:117415800-117417000	Weak transcription	Adipose Nuclei	Adipose
40	chr7:117415800-117421000	Weak transcription	Brain Cingulate Gyrus	brain
41	chr7:117416000-117416800	Genic enhancers	Brain Hippocampus Middle	brain
42	chr7:117416000-117417800	Strong transcription	HUES64 Cell Line	embryonic stem cell
43	chr7:117416200-117417600	Weak transcription	NHLF	lung
44	chr7:117416200-117418200	Strong transcription	HUES48 Cell Line	embryonic stem cell
45	chr7:117416400-117416800	Enhancers	Monocytes-CD14+_RO01746	blood
46	chr7:117416400-117417000	Enhancers	GM12878-XiMat	blood
47	chr7:117416400-117418400	Strong transcription	iPS-18 Cell Line	embryonic stem cell
48	chr7:117416600-117417800	Strong transcription	Brain Anterior Caudate	brain
49	chr7:117416600-117418000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
50	chr7:117416600-117418000	Strong transcription	Fetal Brain Male	brain

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