Variant report

Variant	rs11774860
Chromosome Location	chr8:8651879-8651880
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	chr8:8645586..8647126-chr8:8650976..8652774,2	K562	blood:
2	chr8:8648185..8650191-chr8:8651639..8653893,2	MCF-7	breast:

Extended variants
information (count: 65 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10090152	1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs10092600	1.00[CHB][hapmap];0.87[CHD][hapmap]
rs10092720	1.00[CHB][hapmap];0.87[CHD][hapmap]
rs10093872	0.88[CEU][hapmap];1.00[CHB][hapmap]
rs10100066	0.94[ASN][1000 genomes]
rs10103163	1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs10103282	1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs10105920	1.00[CHB][hapmap];0.87[CHD][hapmap]
rs10110711	0.94[ASN][1000 genomes]
rs10113326	1.00[CHB][hapmap]
rs1039912	1.00[CHB][hapmap];0.87[CHD][hapmap]
rs11775486	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11777812	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11778326	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11778330	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11781430	1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs11906	0.80[CEU][hapmap];1.00[CHB][hapmap];0.87[CHD][hapmap];0.88[GIH][hapmap]
rs11985640	1.00[CEU][hapmap];0.87[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17154743	1.00[CEU][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.88[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17154756	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17154758	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17630714	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17631022	1.00[CEU][hapmap];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17631052	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17698256	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2048420	0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2427	0.82[CEU][hapmap];1.00[CHB][hapmap];0.87[CHD][hapmap];0.88[GIH][hapmap]
rs34722673	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35432123	0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3748142	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3748143	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3789857	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3827807	1.00[CHB][hapmap]
rs3827810	0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3827812	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs55657655	0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs55961293	0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs56100346	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7002397	1.00[CHB][hapmap]
rs73517985	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs73519953	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7813355	1.00[CHB][hapmap]
rs7820324	1.00[CHB][hapmap]
rs7831224	0.84[CEU][hapmap];1.00[MEX][hapmap];0.88[TSI][hapmap];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs964771	0.88[CHD][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs964772	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs964773	1.00[CEU][hapmap];1.00[JPT][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:18 , 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	nsv1030433	chr8:8130629-8653691	Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
3	nsv539447	chr8:8130629-8653691	Flanking Bivalent TSS/Enh Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
4	nsv1033463	chr8:8221922-8674333	Weak transcription Bivalent/Poised TSS Genic enhancers Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
5	nsv539451	chr8:8221922-8674333	Weak transcription Strong transcription Enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
6	nsv1019606	chr8:8353661-8736992	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
7	nsv539456	chr8:8353661-8736992	Strong transcription Weak transcription Bivalent Enhancer Enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
8	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
9	nsv1022511	chr8:8493992-8737132	Weak transcription Flanking Active TSS Bivalent Enhancer Enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
10	nsv539457	chr8:8493992-8737132	Genic enhancers Enhancers Flanking Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
11	esv1795023	chr8:8583943-8655580	Enhancers Weak transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
12	esv1825234	chr8:8583943-8655580	Strong transcription Weak transcription Enhancers Genic enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
13	esv1824870	chr8:8583943-8699382	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
14	nsv610189	chr8:8590437-8664940	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
15	nsv831228	chr8:8608387-8790790	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
16	nsv1018828	chr8:8609880-8790660	Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
17	nsv1022331	chr8:8610035-8787981	Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
18	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

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs11774860	TDH	cis	cerebellum	SCAN
rs11774860	MAP7D2	trans	parietal	SCAN
rs11774860	MFHAS1	cis	cerebellum	SCAN
rs11774860	MFHAS1	cis	parietal	SCAN

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:8631200-8652400	Weak transcription	Ovary	ovary
2	chr8:8637600-8653400	Weak transcription	Stomach Smooth Muscle	stomach
3	chr8:8637600-8679800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr8:8640200-8655600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr8:8640600-8652000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr8:8640600-8653200	Weak transcription	Gastric	stomach
7	chr8:8640600-8654800	Weak transcription	Colonic Mucosa	Colon
8	chr8:8640800-8652400	Weak transcription	Duodenum Mucosa	Duodenum
9	chr8:8641200-8652400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr8:8641600-8652200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr8:8641600-8653000	Weak transcription	Liver	Liver
12	chr8:8642800-8660000	Weak transcription	Skeletal Muscle Female	skeletal muscle
13	chr8:8643600-8652200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
14	chr8:8644200-8655600	Weak transcription	Fetal Brain Male	brain
15	chr8:8644800-8652000	Weak transcription	NHEK	skin
16	chr8:8645000-8655000	Weak transcription	Brain Angular Gyrus	brain
17	chr8:8646600-8654600	Weak transcription	Brain Hippocampus Middle	brain
18	chr8:8646600-8654800	Weak transcription	Brain Inferior Temporal Lobe	brain
19	chr8:8646600-8655000	Weak transcription	Brain Cingulate Gyrus	brain
20	chr8:8646600-8655000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
21	chr8:8646600-8658000	Weak transcription	Pancreas	Pancrea
22	chr8:8647000-8654800	Weak transcription	Right Atrium	heart
23	chr8:8647200-8653200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
24	chr8:8647200-8653600	Weak transcription	Primary B cells from peripheral blood	blood
25	chr8:8647200-8654800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
26	chr8:8647400-8653200	Weak transcription	Brain Germinal Matrix	brain
27	chr8:8647400-8654800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
28	chr8:8647600-8654400	Weak transcription	GM12878-XiMat	blood
29	chr8:8648000-8652400	Weak transcription	Primary T helper cells fromperipheralblood	blood
30	chr8:8648200-8653200	Weak transcription	Fetal Muscle Leg	muscle
31	chr8:8648600-8654400	Weak transcription	Primary B cells from cord blood	blood
32	chr8:8648600-8658000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
33	chr8:8648800-8654000	Strong transcription	HepG2	liver
34	chr8:8649000-8654800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
35	chr8:8649200-8652000	Weak transcription	Primary T helper cells PMA-I stimulated	--
36	chr8:8649200-8652200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
37	chr8:8649200-8652400	Weak transcription	HMEC	breast
38	chr8:8649200-8654800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
39	chr8:8649200-8654800	Weak transcription	Small Intestine	intestine
40	chr8:8649200-8655000	Weak transcription	HSMM	muscle
41	chr8:8649200-8657200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
42	chr8:8649200-8657200	Weak transcription	Colon Smooth Muscle	Colon
43	chr8:8649200-8657800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
44	chr8:8649200-8666400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
45	chr8:8649400-8652200	Weak transcription	HUES48 Cell Line	embryonic stem cell
46	chr8:8649400-8652200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
47	chr8:8649400-8652400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
48	chr8:8649400-8652400	Weak transcription	Left Ventricle	heart
49	chr8:8649400-8653000	Weak transcription	HUES6 Cell Line	embryonic stem cell
50	chr8:8649400-8653000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links