Variant report

Variant	rs17880419
Chromosome Location	chr11:64956369-64956370
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr11:64877702..64891058-chr11:64944203..64957091,32	K562	blood:
2	chr11:64852718..64854358-chr11:64953563..64956408,2	MCF-7	breast:
3	chr11:64953862..64955424-chr11:64955470..64957493,2	MCF-7	breast:
4	chr11:64888951..64891503-chr11:64955622..64957144,2	MCF-7	breast:
5	chr11:64877165..64880640-chr11:64955591..64959412,3	K562	blood:
6	chr11:64877522..64908330-chr11:64931619..64960265,171	MCF-7	breast:
7	chr11:64951297..64953608-chr11:64956133..64959941,3	MCF-7	breast:
8	chr11:64898985..64901826-chr11:64955533..64957107,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000174276	Chromatin interaction
ENSG00000014216	Chromatin interaction
ENSG00000162298	Chromatin interaction
ENSG00000149792	Chromatin interaction
ENSG00000149809	Chromatin interaction
ENSG00000255173	Chromatin interaction
ENSG00000149806	Chromatin interaction
ENSG00000254501	Chromatin interaction
ENSG00000149823	Chromatin interaction
ENSG00000162300	Chromatin interaction

Extended variants
information (count: 11 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11828131	0.85[AMR][1000 genomes]
rs17880328	0.85[AMR][1000 genomes]
rs17881194	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56815630	0.85[AMR][1000 genomes]
rs58874511	0.85[AMR][1000 genomes]
rs59600966	0.85[AMR][1000 genomes]
rs7102692	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7933743	0.85[AMR][1000 genomes]
rs7942977	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv526181	chr11:64638041-65257329	Flanking Active TSS Enhancers Strong transcription Active TSS Weak transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1539 gene(s)	inside rSNPs	diseases
2	nsv897713	chr11:64915042-65000719	Flanking Active TSS Weak transcription Strong transcription Enhancers Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	42 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:64950400-64973200	Weak transcription	Fetal Kidney	kidney
2	chr11:64950600-64957200	Weak transcription	Psoas Muscle	Psoas
3	chr11:64950600-64992400	Weak transcription	Right Atrium	heart
4	chr11:64951000-64956800	Weak transcription	NH-A	brain
5	chr11:64951000-64959000	Strong transcription	Thymus	Thymus
6	chr11:64951000-64959200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
7	chr11:64951000-64973600	Weak transcription	Pancreatic Islets	Pancreatic Islet
8	chr11:64951000-64976200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
9	chr11:64951200-64958400	Strong transcription	NHLF	lung
10	chr11:64951200-64958800	Strong transcription	Skeletal Muscle Male	skeletal muscle
11	chr11:64951200-64959800	Strong transcription	Primary T cells from cord blood	blood
12	chr11:64951200-64961800	Strong transcription	Primary neutrophils fromperipheralblood	blood
13	chr11:64951200-64962800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr11:64951200-64963000	Strong transcription	Liver	Liver
15	chr11:64951200-64963000	Strong transcription	Fetal Stomach	stomach
16	chr11:64951200-64963200	Strong transcription	Fetal Muscle Trunk	muscle
17	chr11:64951200-64963600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr11:64951200-64968400	Strong transcription	Primary monocytes fromperipheralblood	blood
19	chr11:64951200-64976200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
20	chr11:64951400-64957200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
21	chr11:64951400-64957200	Strong transcription	Monocytes-CD14+_RO01746	blood
22	chr11:64951400-64958800	Strong transcription	Stomach Smooth Muscle	stomach
23	chr11:64951400-64959200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
24	chr11:64951400-64960000	Strong transcription	Adipose Nuclei	Adipose
25	chr11:64951400-64963400	Strong transcription	Fetal Muscle Leg	muscle
26	chr11:64951400-64968000	Strong transcription	Primary B cells from peripheral blood	blood
27	chr11:64951400-64979200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
28	chr11:64951600-64976400	Weak transcription	Fetal Brain Male	brain
29	chr11:64951600-64979600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
30	chr11:64951800-64958200	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
31	chr11:64951800-64958200	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
32	chr11:64951800-64958400	Strong transcription	Lung	lung
33	chr11:64951800-64958400	Strong transcription	Spleen	Spleen
34	chr11:64951800-64958600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
35	chr11:64951800-64958800	Strong transcription	Sigmoid Colon	Sigmoid Colon
36	chr11:64951800-64959000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
37	chr11:64951800-64963200	Strong transcription	Fetal Intestine Large	intestine
38	chr11:64951800-64968800	Strong transcription	Rectal Mucosa Donor 29	rectum
39	chr11:64951800-64969000	Strong transcription	Skeletal Muscle Female	skeletal muscle
40	chr11:64952000-64958600	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
41	chr11:64952000-64962200	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
42	chr11:64952200-64960000	Strong transcription	Primary B cells from cord blood	blood
43	chr11:64952200-64960000	Strong transcription	Duodenum Mucosa	Duodenum
44	chr11:64952200-64960200	Strong transcription	Fetal Thymus	thymus
45	chr11:64952200-64960400	Strong transcription	Rectal Smooth Muscle	rectum
46	chr11:64952200-64961600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
47	chr11:64952400-64956600	Weak transcription	HUVEC	blood vessel
48	chr11:64952400-64958200	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
49	chr11:64952400-64958400	Strong transcription	Pancreas	Pancrea
50	chr11:64952400-64960000	Strong transcription	Duodenum Smooth Muscle	Duodenum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links