Variant report

Variant	rs8061942
Chromosome Location	chr16:74691362-74691363
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	chr16:74691160..74693410-chr16:74694917..74697832,4	MCF-7	breast:
2	chr16:74690546..74692876-chr16:74698874..74700526,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000168411	Chromatin interaction

Extended variants
information (count: 36 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs12716769	0.82[EUR][1000 genomes]
rs12924948	0.83[AMR][1000 genomes]
rs28681530	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4072222	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4888262	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4888264	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4888265	0.97[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4888267	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4888274	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs56099065	0.86[AMR][1000 genomes]
rs57488599	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs71376290	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7188581	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7188880	0.84[AFR][1000 genomes];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7191665	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7201320	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8052367	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs8058133	0.80[AFR][1000 genomes];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs8059780	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs8062783	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9922988	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9923145	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9929496	0.93[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9929931	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9930188	0.85[AFR][1000 genomes];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9931225	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv916687	chr16:74241238-74896721	Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Strong transcription Transcr. at gene 5' and 3' Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	102 gene(s)	inside rSNPs	diseases
2	nsv949374	chr16:74466960-75172358	Enhancers Flanking Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	96 gene(s)	inside rSNPs	diseases
3	nsv1062517	chr16:74483574-74710623	Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
4	nsv1061095	chr16:74519718-75407020	Strong transcription Enhancers Flanking Active TSS Weak transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	123 gene(s)	inside rSNPs	diseases
5	esv275138	chr16:74647795-74722907	Weak transcription Strong transcription Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
6	esv2760414	chr16:74647795-74741615	Weak transcription Flanking Active TSS Enhancers Strong transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
7	nsv1061948	chr16:74660609-74882915	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	67 gene(s)	inside rSNPs	diseases
8	nsv542957	chr16:74660609-74882915	Enhancers Genic enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	67 gene(s)	inside rSNPs	diseases
9	nsv906906	chr16:74664743-74805668	Active TSS Flanking Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	57 gene(s)	inside rSNPs	diseases
10	nsv572975	chr16:74677312-74702254	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs8061942	MLKL	Cis_1M	lymphoblastoid	RTeQTL
rs8061942	RFWD3	cis	Esophagus Mucosa	GTEx
rs8061942	RFWD3	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:74647800-74691800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
2	chr16:74648800-74692200	Strong transcription	Fetal Thymus	thymus
3	chr16:74652000-74692200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr16:74652200-74699000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr16:74653200-74698800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr16:74653400-74699000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr16:74656800-74699400	Strong transcription	HUES64 Cell Line	embryonic stem cell
8	chr16:74657000-74699200	Strong transcription	HUES48 Cell Line	embryonic stem cell
9	chr16:74657200-74699400	Strong transcription	H1 Cell Line	embryonic stem cell
10	chr16:74657200-74699600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
11	chr16:74657400-74699200	Strong transcription	HUES6 Cell Line	embryonic stem cell
12	chr16:74657400-74699600	Strong transcription	iPS-18 Cell Line	embryonic stem cell
13	chr16:74658200-74697200	Weak transcription	Fetal Brain Male	brain
14	chr16:74666000-74692000	Weak transcription	Fetal Heart	heart
15	chr16:74673600-74695400	Strong transcription	Fetal Muscle Leg	muscle
16	chr16:74676200-74692000	Strong transcription	Primary B cells from peripheral blood	blood
17	chr16:74676600-74691600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
18	chr16:74677000-74691600	Strong transcription	HepG2	liver
19	chr16:74678400-74691800	Weak transcription	Placenta Amnion	Placenta Amnion
20	chr16:74678600-74692800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
21	chr16:74678600-74699800	Weak transcription	Pancreatic Islets	Pancreatic Islet
22	chr16:74679400-74692800	Weak transcription	Brain Substantia Nigra	brain
23	chr16:74679600-74692000	Weak transcription	Brain Cingulate Gyrus	brain
24	chr16:74680600-74692000	Weak transcription	Pancreas	Pancrea
25	chr16:74682800-74691800	Weak transcription	Colonic Mucosa	Colon
26	chr16:74682800-74692000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
27	chr16:74682800-74692800	Weak transcription	Spleen	Spleen
28	chr16:74682800-74693400	Weak transcription	Right Ventricle	heart
29	chr16:74683000-74693000	Weak transcription	Esophagus	oesophagus
30	chr16:74683200-74692200	Weak transcription	Skeletal Muscle Male	skeletal muscle
31	chr16:74683800-74692000	Weak transcription	Fetal Kidney	kidney
32	chr16:74684400-74692800	Weak transcription	NHLF	lung
33	chr16:74684800-74694800	Weak transcription	Psoas Muscle	Psoas
34	chr16:74685000-74700000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
35	chr16:74685600-74691600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
36	chr16:74685800-74699400	Genic enhancers	Primary T helper cells fromperipheralblood	blood
37	chr16:74686000-74691600	Weak transcription	Fetal Lung	lung
38	chr16:74686000-74691800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
39	chr16:74686000-74692000	Weak transcription	HSMM	muscle
40	chr16:74686000-74692200	Weak transcription	Lung	lung
41	chr16:74686000-74692800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr16:74686000-74693000	Weak transcription	Colon Smooth Muscle	Colon
43	chr16:74686200-74694400	Weak transcription	Small Intestine	intestine
44	chr16:74686400-74692000	Weak transcription	Adipose Nuclei	Adipose
45	chr16:74686400-74692000	Weak transcription	Left Ventricle	heart
46	chr16:74686400-74692800	Weak transcription	Brain Anterior Caudate	brain
47	chr16:74686400-74693000	Weak transcription	Rectal Smooth Muscle	rectum
48	chr16:74686400-74693200	Weak transcription	NHDF-Ad	bronchial
49	chr16:74687000-74691600	Weak transcription	Primary neutrophils fromperipheralblood	blood
50	chr16:74687200-74692000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links