Variant report

Variant	rs1055615
Chromosome Location	chr11:65846922-65846923
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:4)
CpG islands
(count:0)
Chromatin interactive
region (count:6)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:4 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	FOXA2	chr11:65846794-65847084	A549	lung:	n/a	n/a
2	ZNF384	chr11:65846723-65846925	K562	blood:	n/a	n/a
3	FOXA1	chr11:65846801-65847013	T-47D	breast:	n/a	n/a
4	FOXA1	chr11:65846778-65846980	T-47D	breast:	n/a	n/a

No data

(count:6 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr11:65844532..65851114-chr11:65890610..65896417,9	MCF-7	breast:
2	chr11:65845492..65848054-chr11:65910423..65911966,2	MCF-7	breast:
3	chr11:65846039..65848374-chr11:65888360..65890494,2	MCF-7	breast:
4	chr11:65837445..65841623-chr11:65846203..65851019,6	MCF-7	breast:
5	chr11:65846645..65848956-chr11:65849527..65852438,2	K562	blood:
6	chr11:65840513..65843599-chr11:65845942..65848991,3	K562	blood:

No data

Variant related genes	Relation type
PACS1	TF binding region
ENSG00000175115	Chromatin interaction

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10791838	1.00[CEU][hapmap]
rs10791840	1.00[CEU][hapmap]
rs10791861	0.83[CEU][hapmap]
rs10791863	0.81[CEU][hapmap]
rs10896075	1.00[CEU][hapmap]
rs10896077	1.00[CEU][hapmap]
rs10896081	1.00[CEU][hapmap]
rs10896089	1.00[CEU][hapmap]
rs10896091	1.00[CEU][hapmap]
rs11227410	1.00[CEU][hapmap]
rs11227411	1.00[CEU][hapmap]
rs11227413	1.00[CEU][hapmap]
rs11227415	1.00[CEU][hapmap]
rs11607393	0.93[CEU][hapmap]
rs12576969	1.00[CEU][hapmap]
rs2155030	0.81[CEU][hapmap]
rs2155198	0.82[CEU][hapmap]
rs2155201	0.82[CEU][hapmap]
rs2236651	0.82[CEU][hapmap]
rs2236652	0.81[CEU][hapmap]
rs2276036	0.86[CEU][hapmap]
rs2293121	1.00[CEU][hapmap]
rs2298468	0.81[CEU][hapmap]
rs2430979	1.00[CEU][hapmap]
rs2452682	1.00[CEU][hapmap]
rs3814744	1.00[CEU][hapmap]
rs3825067	1.00[CEU][hapmap]
rs3862386	0.94[CEU][hapmap]
rs472518	0.95[CHB][hapmap];0.95[JPT][hapmap]
rs476551	0.82[CEU][hapmap]
rs489337	0.82[CHB][hapmap];0.80[JPT][hapmap]
rs524281	0.95[CHB][hapmap];0.95[JPT][hapmap]
rs527897	0.95[CHB][hapmap];0.95[JPT][hapmap]
rs535395	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs549187	0.95[CHB][hapmap];0.90[JPT][hapmap]
rs565198	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6591203	1.00[CEU][hapmap]
rs6591207	1.00[CEU][hapmap]
rs6591208	1.00[CEU][hapmap]
rs7120326	1.00[CEU][hapmap]
rs730787	1.00[CEU][hapmap]
rs7925123	0.82[CEU][hapmap]
rs7941469	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7946917	0.87[CEU][hapmap]
rs9645684	1.00[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948711	chr11:65692760-65949674	Genic enhancers Weak transcription Enhancers Transcr. at gene 5' and 3' Strong transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	65 gene(s)	inside rSNPs	diseases
2	esv3335923	chr11:65741698-66175759	Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	117 gene(s)	inside rSNPs	diseases
3	esv1819302	chr11:65787660-66007018	Active TSS Enhancers Flanking Active TSS Strong transcription Weak transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
4	esv3407551	chr11:65794503-66158322	Weak transcription Genic enhancers Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	103 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:65839000-65849800	Weak transcription	Psoas Muscle	Psoas
2	chr11:65839200-65847600	Weak transcription	Brain Hippocampus Middle	brain
3	chr11:65839200-65847800	Weak transcription	Colonic Mucosa	Colon
4	chr11:65839400-65847200	Weak transcription	Rectal Mucosa Donor 31	rectum
5	chr11:65839400-65847200	Weak transcription	Right Atrium	heart
6	chr11:65839400-65847600	Weak transcription	Brain Inferior Temporal Lobe	brain
7	chr11:65839400-65847600	Weak transcription	Rectal Smooth Muscle	rectum
8	chr11:65839400-65847600	Weak transcription	Small Intestine	intestine
9	chr11:65839400-65847800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr11:65839400-65848800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr11:65839400-65850400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
12	chr11:65839400-65850400	Weak transcription	Fetal Intestine Large	intestine
13	chr11:65839400-65850800	Weak transcription	Liver	Liver
14	chr11:65839400-65850800	Weak transcription	Fetal Kidney	kidney
15	chr11:65839400-65850800	Weak transcription	Right Ventricle	heart
16	chr11:65839600-65850400	Weak transcription	Brain Substantia Nigra	brain
17	chr11:65839600-65854600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
18	chr11:65840000-65847400	Weak transcription	Rectal Mucosa Donor 29	rectum
19	chr11:65840000-65847600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr11:65840000-65847600	Weak transcription	Colon Smooth Muscle	Colon
21	chr11:65840200-65848000	Weak transcription	Placenta Amnion	Placenta Amnion
22	chr11:65840200-65848200	Strong transcription	Fetal Stomach	stomach
23	chr11:65840400-65847600	Weak transcription	HUVEC	blood vessel
24	chr11:65840600-65850800	Weak transcription	Brain Germinal Matrix	brain
25	chr11:65840600-65870600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
26	chr11:65840800-65847200	Weak transcription	Lung	lung
27	chr11:65840800-65850400	Weak transcription	Fetal Brain Male	brain
28	chr11:65840800-65850800	Weak transcription	Brain Angular Gyrus	brain
29	chr11:65841000-65847000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
30	chr11:65841000-65847200	Weak transcription	HepG2	liver
31	chr11:65841000-65847800	Genic enhancers	Primary T regulatory cells fromperipheralblood	blood
32	chr11:65842000-65849600	Weak transcription	HUES48 Cell Line	embryonic stem cell
33	chr11:65842200-65847200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
34	chr11:65842200-65847200	Weak transcription	Brain Anterior Caudate	brain
35	chr11:65842200-65847200	Weak transcription	Sigmoid Colon	Sigmoid Colon
36	chr11:65842200-65847400	Weak transcription	NH-A	brain
37	chr11:65842200-65847600	Weak transcription	Skeletal Muscle Female	skeletal muscle
38	chr11:65842200-65847600	Weak transcription	Dnd41	blood
39	chr11:65842200-65848000	Weak transcription	Skeletal Muscle Male	skeletal muscle
40	chr11:65842200-65848800	Weak transcription	Brain Cingulate Gyrus	brain
41	chr11:65842200-65850400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
42	chr11:65842200-65850600	Weak transcription	Fetal Lung	lung
43	chr11:65842200-65867800	Weak transcription	Ovary	ovary
44	chr11:65842400-65847200	Weak transcription	HUES6 Cell Line	embryonic stem cell
45	chr11:65842400-65847800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
46	chr11:65842400-65851800	Weak transcription	HUES64 Cell Line	embryonic stem cell
47	chr11:65842800-65847200	Weak transcription	Primary monocytes fromperipheralblood	blood
48	chr11:65842800-65847400	Weak transcription	Adipose Nuclei	Adipose
49	chr11:65843600-65851400	Genic enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
50	chr11:65843800-65847600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links