Variant report

Variant	rs2966089
Chromosome Location	chr16:81526976-81526977
allele	A/C
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	MAX	chr16:81526871-81528057	HCT-116	colon:	n/a	chr16:81527447-81527458 chr16:81528007-81528017 chr16:81527448-81527457 chr16:81527451-81527459 chr16:81527448-81527458 chr16:81527447-81527457 chr16:81528009-81528016 chr16:81527448-81527457 chr16:81528007-81528018 chr16:81528008-81528018 chr16:81528008-81528017 chr16:81528008-81528017 chr16:81527448-81527457
2	FOSL1	chr16:81526924-81528114	HCT-116	colon:	n/a	chr16:81527108-81527119 chr16:81527478-81527487 chr16:81527110-81527118 chr16:81527111-81527122 chr16:81527480-81527491
3	POLR2A	chr16:81526795-81528136	HUVEC	blood vessel:	n/a	n/a
4	JUN	chr16:81526734-81528209	K562	blood:	n/a	chr16:81527108-81527119 chr16:81527478-81527487 chr16:81527110-81527118 chr16:81527111-81527122 chr16:81527480-81527491
5	ZEB1	chr16:81526664-81527626	HepG2	liver:	n/a	n/a
6	MAX	chr16:81526912-81527995	MCF-7	breast:	n/a	chr16:81527447-81527458 chr16:81527448-81527457 chr16:81527451-81527459 chr16:81527448-81527458 chr16:81527447-81527457 chr16:81527448-81527457 chr16:81527448-81527457
7	CCNT2	chr16:81526618-81527639	K562	blood:	n/a	n/a
8	ZEB1	chr16:81526777-81527254	GM12878	blood:	n/a	n/a
9	TCF12	chr16:81526890-81527791	A549	lung:	n/a	n/a
10	POLR2A	chr16:81526895-81528152	K562	blood:	n/a	n/a
11	SMARCB1	chr16:81526860-81528059	Hela-S3	cervix:	n/a	n/a
12	USF1	chr16:81526760-81528081	HCT-116	colon:	n/a	chr16:81527400-81527411 chr16:81527447-81527458 chr16:81527420-81527436
13	NR2F2	chr16:81526954-81527850	K562	blood:	n/a	n/a
14	MAX	chr16:81526874-81528234	A549	lung:	n/a	chr16:81527447-81527458 chr16:81528007-81528017 chr16:81527448-81527457 chr16:81527451-81527459 chr16:81527448-81527458 chr16:81527447-81527457 chr16:81528009-81528016 chr16:81527448-81527457 chr16:81528007-81528018 chr16:81528008-81528018 chr16:81528008-81528017 chr16:81528008-81528017 chr16:81527448-81527457
15	MAX	chr16:81526899-81528218	HCT-116	colon:	n/a	chr16:81527447-81527458 chr16:81528007-81528017 chr16:81527448-81527457 chr16:81527451-81527459 chr16:81527448-81527458 chr16:81527447-81527457 chr16:81528009-81528016 chr16:81527448-81527457 chr16:81528007-81528018 chr16:81528008-81528018 chr16:81528008-81528017 chr16:81528008-81528017 chr16:81527448-81527457
16	POLR2A	chr16:81526950-81527819	A549	lung:	n/a	n/a
17	TEAD4	chr16:81526947-81528079	K562	blood:	n/a	n/a
18	RCOR1	chr16:81526722-81528175	IMR90	lung:	n/a	n/a

No.	Chromosome Location	Cell Line	Cell type	Cell Stage
1	chr16:81526954-81527004	SKMC	muscle:	n/a
2	chr16:81526954-81527004	AG09319	gingival:	n/a
3	chr16:81526954-81527004	AG10803	skin:	n/a
4	chr16:81526954-81527004	MCF-7	breast:	n/a
5	chr16:81526954-81527004	LNCaP	prostate:	n/a
6	chr16:81526954-81527004	SK-N-SH_RA	brain:	n/a
7	chr16:81526954-81527004	HCPEpiC	choroid plexus:	n/a
8	chr16:81526954-81527004	ovcar-3	ovarian:	n/a
9	chr16:81526954-81527004	HMEC	breast:	n/a
10	chr16:81526954-81527004	HL-60	blood:	n/a
11	chr16:81526954-81527004	HEK293	kidney:	embryo
12	chr16:81526954-81527004	IMR90	lung:	fetal
13	chr16:81526954-81527004	Hepatocyte	liver:	n/a
14	chr16:81526954-81527004	AG09309	skin:	n/a
15	chr16:81526954-81527004	HUVEC	blood vessel:	n/a
16	chr16:81526954-81527004	GM12878	blood:	n/a
17	chr16:81526954-81527004	Hela-S3	cervix:	n/a
18	chr16:81526954-81527004	HCF	heart:	n/a
19	chr16:81526954-81527004	H1-hESC	embryonic stem cell:	embryo
20	chr16:81526954-81527004	T-47D	breast:	n/a
21	chr16:81526954-81527004	HRPEpiC	eye:	n/a
22	chr16:81526954-81527004	AoSMC	blood vessel:	n/a
23	chr16:81526954-81527004	HRE	kidney:	n/a
24	chr16:81526954-81527004	HNPCEpiC	eye:	n/a
25	chr16:81526954-81527004	PrEC	prostate:	n/a
26	chr16:81526954-81527004	AG04450	lung:	fetal
27	chr16:81526954-81527004	PANC-1	pancreas:	n/a
28	chr16:81526954-81527004	HCM	heart:	n/a
29	chr16:81526954-81527004	HPAEpiC	pulmonary alveolar:	n/a
30	chr16:81526954-81527004	BE2_C	brain:	n/a
31	chr16:81526954-81527004	NB4	blood:	n/a
32	chr16:81526954-81527004	SK-N-SH	brain:	n/a
33	chr16:81526954-81527004	NH-A	brain:	n/a
34	chr16:81526954-81527004	MCF10A-Er-Src	breast:	n/a
35	chr16:81526954-81527004	HAEpiC	amniotic membrane:	n/a
36	chr16:81526954-81527004	GM19239	blood:	n/a
37	chr16:81526954-81527004	GM12892	blood:	n/a
38	chr16:81526954-81527004	U87	brain:	n/a
39	chr16:81526954-81527004	HIPEpiC	eye:	n/a
40	chr16:81526954-81527004	NHDF-neo	bronchial:	n/a
41	chr16:81526954-81527004	AG04449	skin:	fetal
42	chr16:81526954-81527004	SK-N-MC	brain:	n/a
43	chr16:81526954-81527004	SAEC	small airway:	n/a
44	chr16:81526954-81527004	CMK	blood:	n/a
45	chr16:81526954-81527004	A549	lung:	n/a
46	chr16:81526954-81527004	GM12891	blood:	n/a
47	chr16:81526954-81527004	ProgFib	skin:	n/a
48	chr16:81526954-81527004	RPTEC	kidney:	n/a
49	chr16:81526954-81527004	HRCEpiC	kidney:	n/a
50	chr16:81526954-81527004	Jurkat	blood:	n/a

No.	Distal block	Cell Line	Cell type
1	chr16:81510328..81512312-chr16:81524530..81527083,3	MCF-7	breast:
2	chr16:81525291..81527672-chr16:81527844..81530075,2	MCF-7	breast:
3	chr16:81517573..81519911-chr16:81525610..81528257,2	MCF-7	breast:
4	chr16:81520528..81523163-chr16:81525818..81527534,2	MCF-7	breast:
5	chr1:11967644..11970692-chr16:81526745..81530304,3	K562	blood:
6	chr1:11968388..11970144-chr16:81526598..81528245,2	K562	blood:
7	chr16:81516881..81521971-chr16:81523389..81527475,7	MCF-7	breast:

Variant related genes	Relation type
CMIP	TF binding region
CMIP	CpG island
ENSG00000199347	Chromatin interaction
ENSG00000201801	Chromatin interaction
ENSG00000153815	Chromatin interaction

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs13330047	1.00[AMR][1000 genomes]
rs13330236	1.00[AMR][1000 genomes]
rs13330460	1.00[AMR][1000 genomes]
rs13331648	1.00[AMR][1000 genomes]
rs13333096	1.00[AMR][1000 genomes]
rs13335545	1.00[AMR][1000 genomes]
rs13336715	1.00[AMR][1000 genomes]
rs13336792	1.00[AMR][1000 genomes]
rs13338579	1.00[AMR][1000 genomes]
rs16955449	1.00[AMR][1000 genomes]
rs28412656	1.00[AMR][1000 genomes]
rs28418533	1.00[AMR][1000 genomes]
rs28436066	1.00[AMR][1000 genomes]
rs28493867	1.00[AMR][1000 genomes]
rs28572501	1.00[AMR][1000 genomes]
rs28594283	1.00[AMR][1000 genomes]
rs28669745	1.00[AMR][1000 genomes]
rs2927303	1.00[AMR][1000 genomes]
rs2927306	1.00[AMR][1000 genomes]
rs2927309	1.00[AMR][1000 genomes]
rs2927310	1.00[AMR][1000 genomes]
rs2966096	1.00[AMR][1000 genomes]
rs56850891	1.00[AMR][1000 genomes]
rs73594494	1.00[AMR][1000 genomes]
rs73594496	1.00[AMR][1000 genomes]
rs73596412	1.00[AMR][1000 genomes]
rs73596428	1.00[AMR][1000 genomes]
rs73596440	1.00[AMR][1000 genomes]
rs73596462	1.00[AMR][1000 genomes]
rs9921409	1.00[AMR][1000 genomes]
rs9923475	1.00[AMR][1000 genomes]
rs9925710	1.00[AMR][1000 genomes]
rs9927474	1.00[AMR][1000 genomes]
rs9928818	1.00[AMR][1000 genomes]
rs9929135	1.00[AMR][1000 genomes]
rs9933163	1.00[AMR][1000 genomes]
rs9934014	1.00[AMR][1000 genomes]
rs9934846	1.00[AMR][1000 genomes]
rs9934867	1.00[AMR][1000 genomes]
rs9935244	1.00[AMR][1000 genomes]
rs9935348	1.00[AMR][1000 genomes]
rs9935375	1.00[AMR][1000 genomes]
rs9935617	1.00[AMR][1000 genomes]
rs9935646	1.00[AMR][1000 genomes]
rs9936412	1.00[AMR][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	nsv532569	chr16:80980356-81700149	Weak transcription Flanking Active TSS Genic enhancers Enhancers Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	71 gene(s)	inside rSNPs	diseases
2	nsv1058519	chr16:81177767-81735333	Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Enhancers Transcr. at gene 5' and 3' Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	36 gene(s)	inside rSNPs	diseases
3	nsv948448	chr16:81198147-81906766	Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS Bivalent Enhancer Genic enhancers 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	37 gene(s)	inside rSNPs	diseases
4	nsv907010	chr16:81488893-81534790	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases
5	nsv1057791	chr16:81515036-81644651	Active TSS Enhancers Genic enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases
6	nsv542993	chr16:81515036-81644651	Weak transcription Enhancers Strong transcription Bivalent Enhancer Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases
7	nsv457576	chr16:81525637-81579433	Weak transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA	3 gene(s)	inside rSNPs	diseases
8	nsv573360	chr16:81525637-81579433	Bivalent Enhancer Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region miRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:117 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:81506000-81546600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr16:81506600-81547000	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr16:81510400-81533200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr16:81511400-81527000	Enhancers	Fetal Muscle Leg	muscle
5	chr16:81515200-81531600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
6	chr16:81515200-81532600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr16:81517400-81531600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
8	chr16:81518200-81527000	Weak transcription	Thymus	Thymus
9	chr16:81519600-81532000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
10	chr16:81519800-81527200	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr16:81520400-81532200	Enhancers	Spleen	Spleen
12	chr16:81520800-81527400	Weak transcription	Muscle Satellite Cultured Cells	--
13	chr16:81521000-81528600	Weak transcription	Primary T cells from cord blood	blood
14	chr16:81522200-81528800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
15	chr16:81522400-81528400	Enhancers	Monocytes-CD14+_RO01746	blood
16	chr16:81522400-81537000	Enhancers	HUVEC	blood vessel
17	chr16:81522600-81528400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
18	chr16:81522600-81528800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
19	chr16:81522600-81529800	Enhancers	Esophagus	oesophagus
20	chr16:81522600-81532200	Enhancers	Fetal Muscle Trunk	muscle
21	chr16:81522800-81529800	Enhancers	Placenta	Placenta
22	chr16:81523600-81527600	Enhancers	Fetal Brain Male	brain
23	chr16:81523600-81531800	Enhancers	Stomach Mucosa	stomach
24	chr16:81523800-81528200	Weak transcription	Primary T helper cells fromperipheralblood	blood
25	chr16:81523800-81529000	Weak transcription	Ovary	ovary
26	chr16:81523800-81530800	Weak transcription	Colon Smooth Muscle	Colon
27	chr16:81524000-81531000	Weak transcription	GM12878-XiMat	blood
28	chr16:81524200-81529800	Enhancers	Gastric	stomach
29	chr16:81524400-81528000	Enhancers	Fetal Lung	lung
30	chr16:81524400-81530600	Enhancers	Right Atrium	heart
31	chr16:81524400-81531200	Enhancers	Duodenum Mucosa	Duodenum
32	chr16:81524400-81533800	Enhancers	Liver	Liver
33	chr16:81524600-81527000	Enhancers	Skeletal Muscle Male	skeletal muscle
34	chr16:81524600-81527400	Weak transcription	Primary B cells from cord blood	blood
35	chr16:81524600-81527800	Enhancers	Brain Substantia Nigra	brain
36	chr16:81524600-81532200	Enhancers	Pancreas	Pancrea
37	chr16:81524800-81527800	Enhancers	Cortex derived primary cultured neurospheres	brain
38	chr16:81524800-81528000	Enhancers	H1 Cell Line	embryonic stem cell
39	chr16:81524800-81528000	Enhancers	Brain Cingulate Gyrus	brain
40	chr16:81524800-81532200	Genic enhancers	Fetal Intestine Small	intestine
41	chr16:81525000-81527600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
42	chr16:81525000-81528200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
43	chr16:81525000-81528600	Genic enhancers	K562	blood
44	chr16:81525200-81527000	Weak transcription	Primary T helper cells PMA-I stimulated	--
45	chr16:81525200-81527400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
46	chr16:81525200-81527400	Enhancers	Brain Inferior Temporal Lobe	brain
47	chr16:81525200-81527800	Enhancers	ES-I3 Cell Line	embryonic stem cell
48	chr16:81525200-81527800	Enhancers	Duodenum Smooth Muscle	Duodenum
49	chr16:81525200-81528000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
50	chr16:81525200-81528000	Enhancers	Colonic Mucosa	Colon

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links