Variant report

Variant	rs1662161
Chromosome Location	chr11:4136974-4136975
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:4135275..4137434-chr11:4139419..4142096,2	K562	blood:

Variant related genes	Relation type
ENSG00000167325	Chromatin interaction

Extended variants
information (count: 25 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs1015998	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10835613	0.81[AMR][1000 genomes]
rs11030980	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11031043	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11031070	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1662173	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs183484	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1980412	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2284452	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs232054	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2735689	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2735691	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs34356743	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3794049	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4910913	0.81[AMR][1000 genomes]
rs4910914	0.81[AMR][1000 genomes]
rs9937	0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv896896	chr11:4010409-4185595	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
2	esv2758253	chr11:4055945-4510188	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases
3	esv2759797	chr11:4055945-4510188	Active TSS Flanking Active TSS Strong transcription Weak transcription Enhancers ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases
4	nsv428248	chr11:4055945-4510188	Weak transcription Strong transcription Flanking Active TSS Genic enhancers Enhancers Bivalent/Poised TSS Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases
5	nsv832053	chr11:4096527-4330263	Flanking Active TSS Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Enhancers ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
6	nsv1053189	chr11:4123119-4359044	Strong transcription Weak transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
7	nsv1048590	chr11:4133055-4225100	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
8	nsv540911	chr11:4133055-4225100	Weak transcription Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs1662161	CHRNA10	cis	Artery Tibial	GTEx
rs1662161	RRM1	cis	Artery Tibial	GTEx

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:4117000-4137200	Weak transcription	Esophagus	oesophagus
2	chr11:4117000-4141000	Weak transcription	Ovary	ovary
3	chr11:4117200-4142200	Weak transcription	Colonic Mucosa	Colon
4	chr11:4117400-4141800	Weak transcription	Small Intestine	intestine
5	chr11:4117600-4137400	Weak transcription	Right Ventricle	heart
6	chr11:4117600-4144600	Weak transcription	HSMMtube	muscle
7	chr11:4117600-4145200	Weak transcription	Gastric	stomach
8	chr11:4117600-4153000	Weak transcription	Stomach Mucosa	stomach
9	chr11:4117800-4147800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
10	chr11:4117800-4160200	Weak transcription	Pancreatic Islets	Pancreatic Islet
11	chr11:4118000-4159200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
12	chr11:4118400-4146400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr11:4118400-4156200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr11:4118800-4141000	Weak transcription	Brain Germinal Matrix	brain
15	chr11:4119000-4137800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr11:4119400-4157600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr11:4121000-4159400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
18	chr11:4121600-4142800	Weak transcription	Fetal Brain Male	brain
19	chr11:4122000-4139800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
20	chr11:4122400-4158000	Strong transcription	Dnd41	blood
21	chr11:4122800-4141800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr11:4122800-4158000	Strong transcription	Fetal Thymus	thymus
23	chr11:4123000-4138200	Strong transcription	HUES6 Cell Line	embryonic stem cell
24	chr11:4123000-4152000	Strong transcription	HUES48 Cell Line	embryonic stem cell
25	chr11:4123000-4157600	Strong transcription	HUES64 Cell Line	embryonic stem cell
26	chr11:4123000-4157600	Strong transcription	Primary T helper cells fromperipheralblood	blood
27	chr11:4123000-4157800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
28	chr11:4123200-4158000	Strong transcription	Primary T cells fromperipheralblood	blood
29	chr11:4124000-4157600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
30	chr11:4124000-4157800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
31	chr11:4124400-4138200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
32	chr11:4124600-4138000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
33	chr11:4124800-4138200	Strong transcription	Primary monocytes fromperipheralblood	blood
34	chr11:4125200-4138000	Strong transcription	Primary neutrophils fromperipheralblood	blood
35	chr11:4125400-4137400	Weak transcription	Pancreas	Pancrea
36	chr11:4126000-4142000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
37	chr11:4126200-4137800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
38	chr11:4126600-4166600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
39	chr11:4126800-4137000	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
40	chr11:4127000-4151000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
41	chr11:4127400-4138600	Weak transcription	NHLF	lung
42	chr11:4127400-4142200	Weak transcription	Rectal Smooth Muscle	rectum
43	chr11:4127400-4148400	Weak transcription	Psoas Muscle	Psoas
44	chr11:4127600-4141600	Weak transcription	Aorta	Aorta
45	chr11:4127600-4144400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
46	chr11:4127600-4144400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
47	chr11:4127600-4158000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
48	chr11:4129000-4140000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
49	chr11:4130200-4144600	Weak transcription	Fetal Heart	heart
50	chr11:4130600-4138200	Strong transcription	Skeletal Muscle Female	skeletal muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links