Variant report

Variant	rs3858401
Chromosome Location	chr11:108536281-108536282
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:107897375..107899076-chr11:108535874..108537676,2	K562	blood:
2	chr11:107879617..107881507-chr11:108535769..108537352,2	K562	blood:
3	chr11:108093199..108095517-chr11:108534185..108536757,3	K562	blood:
4	chr11:108093199..108095517-chr11:108534185..108536757,4	K562	blood:

Variant related genes	Relation type
ENSG00000149311	Chromatin interaction
ENSG00000149308	Chromatin interaction
ENSG00000166266	Chromatin interaction

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs12279766	1.00[EUR][1000 genomes]
rs12291564	1.00[EUR][1000 genomes]
rs1466501	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs17108567	1.00[EUR][1000 genomes]
rs17108597	0.80[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs17108600	1.00[EUR][1000 genomes]
rs17108665	1.00[EUR][1000 genomes]
rs61996357	1.00[EUR][1000 genomes]
rs73556772	1.00[EUR][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	nsv1052254	chr11:108122683-108845008	Weak transcription Enhancers Strong transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
2	nsv541164	chr11:108122683-108845008	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
3	nsv898386	chr11:108409442-108831875	Weak transcription Enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	nsv898388	chr11:108440814-108724639	Enhancers Genic enhancers Weak transcription Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
5	nsv832264	chr11:108449613-108623720	ZNF genes & repeats Strong transcription Active TSS Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:108535000-108536400	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
2	chr11:108535000-108536400	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
3	chr11:108535000-108536400	Active TSS	Brain Anterior Caudate	brain
4	chr11:108535000-108536400	Active TSS	Brain Hippocampus Middle	brain
5	chr11:108535000-108536400	Active TSS	Brain Inferior Temporal Lobe	brain
6	chr11:108535000-108536400	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
7	chr11:108535000-108536400	Active TSS	Colon Smooth Muscle	Colon
8	chr11:108535000-108536400	Active TSS	Duodenum Mucosa	Duodenum
9	chr11:108535000-108536400	Active TSS	Duodenum Smooth Muscle	Duodenum
10	chr11:108535000-108536400	Active TSS	Pancreatic Islets	Pancreatic Islet
11	chr11:108535000-108536400	Active TSS	Rectal Mucosa Donor 29	rectum
12	chr11:108535000-108536400	Active TSS	Rectal Smooth Muscle	rectum
13	chr11:108535000-108536400	Active TSS	Skeletal Muscle Male	skeletal muscle
14	chr11:108535000-108536400	Active TSS	Stomach Smooth Muscle	stomach
15	chr11:108535200-108536400	Active TSS	H1 Cell Line	embryonic stem cell
16	chr11:108535200-108536400	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr11:108535200-108536400	Active TSS	HUES6 Cell Line	embryonic stem cell
18	chr11:108535200-108536400	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr11:108535200-108536400	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr11:108535200-108536400	Active TSS	Primary T killer memory cells from peripheral blood	blood
21	chr11:108535200-108536400	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
22	chr11:108535200-108536400	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
23	chr11:108535200-108536400	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr11:108535200-108536400	Active TSS	Liver	Liver
25	chr11:108535200-108536400	Active TSS	Brain Angular Gyrus	brain
26	chr11:108535200-108536400	Active TSS	Colonic Mucosa	Colon
27	chr11:108535200-108536400	Active TSS	Fetal Adrenal Gland	Adrenal Gland
28	chr11:108535200-108536400	Active TSS	Fetal Brain Female	brain
29	chr11:108535200-108536400	Active TSS	Fetal Heart	heart
30	chr11:108535200-108536400	Active TSS	Fetal Intestine Small	intestine
31	chr11:108535200-108536400	Active TSS	Fetal Kidney	kidney
32	chr11:108535200-108536400	Active TSS	Fetal Muscle Leg	muscle
33	chr11:108535200-108536400	Active TSS	Placenta	Placenta
34	chr11:108535200-108536400	Active TSS	Fetal Stomach	stomach
35	chr11:108535200-108536400	Active TSS	Gastric	stomach
36	chr11:108535200-108536400	Active TSS	Stomach Mucosa	stomach
37	chr11:108535200-108536400	Active TSS	HMEC	breast
38	chr11:108535200-108536400	Active TSS	NHDF-Ad	bronchial
39	chr11:108535200-108536400	Active TSS	Osteobl	bone
40	chr11:108535200-108536600	Active TSS	ES-I3 Cell Line	embryonic stem cell
41	chr11:108535200-108536600	Active TSS	ES-WA7 Cell Line	embryonic stem cell
42	chr11:108535200-108536600	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
43	chr11:108535200-108536600	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
44	chr11:108535200-108536600	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
45	chr11:108535200-108536600	Active TSS	Aorta	Aorta
46	chr11:108535200-108536600	Active TSS	Brain Cingulate Gyrus	brain
47	chr11:108535200-108536600	Active TSS	Fetal Lung	lung
48	chr11:108535200-108536600	Active TSS	Left Ventricle	heart
49	chr11:108535200-108536600	Active TSS	Ovary	ovary
50	chr11:108535200-108536600	Active TSS	Right Atrium	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links