Variant report

Variant	rs61886876
Chromosome Location	chr11:18721442-18721443
allele	C/T
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	MXI1	chr11:18719632-18721487	SK-N-SH	brain:	n/a	chr11:18720684-18720693
2	MAZ	chr11:18721431-18721593	GM12878	blood:	n/a	n/a
3	JUN	chr11:18719445-18721473	K562	blood:	n/a	chr11:18720274-18720283 chr11:18719917-18719925 chr11:18720589-18720598 chr11:18720551-18720560

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:18655737..18658361-chr11:18720798..18722992,3	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-TMEM86A-3	chr11:18721358-18721596	NONHSAT018312
2	lnc-TMEM86A-3	chr11:18721365-18721596	NONHSAT018313

Variant related genes	Relation type
TMEM86A	TF binding region
ENSG00000179119	Chromatin interaction

Extended variants
information (count: 7 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs11602657	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs733460	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv553633	chr11:18311701-19058451	Weak transcription Strong transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	144 gene(s)	inside rSNPs	diseases
2	nsv1046886	chr11:18547568-18781448	Flanking Active TSS Weak transcription Strong transcription Active TSS Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	75 gene(s)	inside rSNPs	diseases
3	nsv540956	chr11:18547568-18781448	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	75 gene(s)	inside rSNPs	diseases
4	nsv983163	chr11:18702181-18736146	Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Enhancers Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv897028	chr11:18714623-18770822	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Weak transcription Bivalent/Poised TSS Genic enhancers Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:100 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:18719200-18722200	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
2	chr11:18719800-18721600	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
3	chr11:18719800-18721800	Active TSS	Esophagus	oesophagus
4	chr11:18720000-18721600	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr11:18720000-18721800	Active TSS	Ovary	ovary
6	chr11:18720600-18721600	Flanking Active TSS	Fetal Muscle Trunk	muscle
7	chr11:18720600-18721600	Flanking Active TSS	Placenta	Placenta
8	chr11:18720600-18722000	Enhancers	Fetal Heart	heart
9	chr11:18720800-18721600	Flanking Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr11:18720800-18721600	Flanking Active TSS	Liver	Liver
11	chr11:18720800-18721600	Flanking Active TSS	Brain Angular Gyrus	brain
12	chr11:18720800-18721600	Flanking Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
13	chr11:18720800-18721600	Flanking Active TSS	Duodenum Smooth Muscle	Duodenum
14	chr11:18720800-18721600	Flanking Active TSS	Fetal Adrenal Gland	Adrenal Gland
15	chr11:18720800-18721600	Flanking Active TSS	Fetal Brain Female	brain
16	chr11:18720800-18721600	Flanking Active TSS	Fetal Muscle Leg	muscle
17	chr11:18720800-18721600	Flanking Active TSS	Stomach Smooth Muscle	stomach
18	chr11:18720800-18722000	Flanking Active TSS	Adipose Nuclei	Adipose
19	chr11:18720800-18722000	Flanking Active TSS	HSMM	muscle
20	chr11:18720800-18722200	Flanking Active TSS	Fetal Lung	lung
21	chr11:18720800-18722200	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
22	chr11:18720800-18722200	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
23	chr11:18720800-18722400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr11:18720800-18727000	Weak transcription	Sigmoid Colon	Sigmoid Colon
25	chr11:18721000-18721600	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
26	chr11:18721000-18721600	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
27	chr11:18721000-18721600	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
28	chr11:18721000-18721600	Flanking Active TSS	Brain Inferior Temporal Lobe	brain
29	chr11:18721000-18721600	Flanking Active TSS	Colon Smooth Muscle	Colon
30	chr11:18721000-18721600	Enhancers	Placenta Amnion	Placenta Amnion
31	chr11:18721000-18721800	Bivalent Enhancer	H1 Derived Mesenchymal Stem Cells	ES cell derived
32	chr11:18721000-18721800	Bivalent Enhancer	Primary B cells from peripheral blood	blood
33	chr11:18721000-18721800	Enhancers	Primary T helper naive cells from peripheral blood	blood
34	chr11:18721000-18722000	Flanking Active TSS	Brain Substantia Nigra	brain
35	chr11:18721000-18722400	Enhancers	Fetal Brain Male	brain
36	chr11:18721000-18722400	Enhancers	Pancreas	Pancrea
37	chr11:18721000-18722600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
38	chr11:18721000-18722600	Enhancers	Spleen	Spleen
39	chr11:18721000-18727400	Weak transcription	Aorta	Aorta
40	chr11:18721200-18721600	Bivalent Enhancer	HUES6 Cell Line	embryonic stem cell
41	chr11:18721200-18721600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
42	chr11:18721200-18721600	Flanking Active TSS	Breast Myoepithelial Primary Cells	Breast
43	chr11:18721200-18721600	Active TSS	Primary T cells from cord blood	blood
44	chr11:18721200-18721600	Bivalent/Poised TSS	Foreskin Fibroblast Primary Cells skin02	Skin
45	chr11:18721200-18721600	Flanking Active TSS	Brain Anterior Caudate	brain
46	chr11:18721200-18721600	Bivalent Enhancer	HepG2	liver
47	chr11:18721200-18721600	Enhancers	K562	blood
48	chr11:18721200-18721600	Flanking Active TSS	NHEK	skin
49	chr11:18721200-18721800	Enhancers	Primary hematopoietic stem cells	blood
50	chr11:18721200-18721800	Enhancers	Primary T helper naive cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links