Variant report

Variant	rs61248687
Chromosome Location	chr11:86384211-86384212
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr11:86381845-86384306	PANC-1	pancreas:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr11:86378621..86386201-chr11:86413884..86420246,14	MCF-7	breast:
2	chr11:86379027..86389838-chr11:86504553..86514376,29	MCF-7	breast:
3	chr11:86210913..86213504-chr11:86383764..86386048,2	MCF-7	breast:
4	chr11:86381425..86386014-chr11:86508895..86515059,6	MCF-7	breast:

Variant related genes	Relation type
ME3	TF binding region
ENSG00000254731	Chromatin interaction
ENSG00000150687	Chromatin interaction

Extended variants
information (count: 51 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10501624	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10501625	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12099044	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17149180	1.00[ASN][1000 genomes]
rs17149223	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17149226	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17149234	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17149238	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17149242	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17149245	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17149305	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs17149308	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs17149311	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs17149319	0.84[EUR][1000 genomes]
rs17149320	0.84[EUR][1000 genomes]
rs17149325	0.84[EUR][1000 genomes]
rs17149326	0.84[EUR][1000 genomes]
rs1945141	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2156532	1.00[ASN][1000 genomes]
rs4614483	1.00[ASN][1000 genomes]
rs55642252	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55763915	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs55894714	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs56048600	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs56056120	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs56272084	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56304616	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs58173252	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58968600	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59227416	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59339534	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59415795	0.86[AFR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61182121	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61230561	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs61372386	1.00[ASN][1000 genomes]
rs7103556	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7103642	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72961775	1.00[ASN][1000 genomes]
rs73514376	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73526075	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs73526086	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs73528019	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7940187	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7940523	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7941124	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1044081	chr11:86133641-86868560	Bivalent/Poised TSS Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv541118	chr11:86133641-86868560	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
3	nsv555665	chr11:86230898-86417553	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv1055071	chr11:86301240-86465465	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	nsv555704	chr11:86344677-86386784	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv428263	chr11:86357990-86508480	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:60 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:86380600-86384400	Active TSS	Brain Angular Gyrus	brain
2	chr11:86381000-86384400	Active TSS	Pancreatic Islets	Pancreatic Islet
3	chr11:86381200-86384400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
4	chr11:86381400-86384600	Active TSS	Duodenum Smooth Muscle	Duodenum
5	chr11:86382600-86384800	Flanking Active TSS	Stomach Smooth Muscle	stomach
6	chr11:86383400-86384400	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
7	chr11:86383600-86384400	Flanking Active TSS	Rectal Smooth Muscle	rectum
8	chr11:86383600-86384400	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
9	chr11:86383600-86384400	Flanking Active TSS	Dnd41	blood
10	chr11:86383600-86384600	Enhancers	Spleen	Spleen
11	chr11:86383600-86385400	Enhancers	Hela-S3	cervix
12	chr11:86383800-86384400	Flanking Active TSS	Colon Smooth Muscle	Colon
13	chr11:86383800-86384600	Enhancers	NHDF-Ad	bronchial
14	chr11:86383800-86384800	Enhancers	Fetal Heart	heart
15	chr11:86383800-86384800	Enhancers	Left Ventricle	heart
16	chr11:86383800-86384800	Enhancers	Pancreas	Pancrea
17	chr11:86383800-86385400	Enhancers	Rectal Mucosa Donor 31	rectum
18	chr11:86383800-86385600	Enhancers	Liver	Liver
19	chr11:86383800-86385800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
20	chr11:86383800-86386400	Enhancers	Stomach Mucosa	stomach
21	chr11:86383800-86387000	Weak transcription	Psoas Muscle	Psoas
22	chr11:86383800-86387600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
23	chr11:86383800-86387600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr11:86383800-86387800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
25	chr11:86383800-86387800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
26	chr11:86383800-86388600	Weak transcription	Cortex derived primary cultured neurospheres	brain
27	chr11:86383800-86389200	Weak transcription	Right Atrium	heart
28	chr11:86383800-86389200	Weak transcription	HSMM	muscle
29	chr11:86383800-86391600	Weak transcription	Right Ventricle	heart
30	chr11:86383800-86393000	Weak transcription	Fetal Muscle Trunk	muscle
31	chr11:86383800-86393200	Weak transcription	Aorta	Aorta
32	chr11:86384000-86384400	Enhancers	Muscle Satellite Cultured Cells	--
33	chr11:86384000-86384400	Enhancers	Duodenum Mucosa	Duodenum
34	chr11:86384000-86384400	Enhancers	Fetal Muscle Leg	muscle
35	chr11:86384000-86384400	Enhancers	Fetal Stomach	stomach
36	chr11:86384000-86384400	Enhancers	Lung	lung
37	chr11:86384000-86384400	Enhancers	HUVEC	blood vessel
38	chr11:86384000-86384600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
39	chr11:86384000-86384800	Enhancers	Breast Myoepithelial Primary Cells	Breast
40	chr11:86384000-86384800	Enhancers	Colonic Mucosa	Colon
41	chr11:86384000-86384800	Enhancers	Fetal Brain Male	brain
42	chr11:86384000-86384800	Enhancers	Gastric	stomach
43	chr11:86384000-86384800	Enhancers	Placenta Amnion	Placenta Amnion
44	chr11:86384000-86384800	Enhancers	Sigmoid Colon	Sigmoid Colon
45	chr11:86384000-86385800	Enhancers	Adipose Nuclei	Adipose
46	chr11:86384000-86386400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
47	chr11:86384000-86386400	Enhancers	A549	lung
48	chr11:86384000-86387200	Weak transcription	Fetal Intestine Small	intestine
49	chr11:86384000-86388400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
50	chr11:86384000-86388400	Weak transcription	Brain Germinal Matrix	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links