Variant report

Variant	rs2966104
Chromosome Location	chr16:81557195-81557196
allele	C/T
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	chr16:81554501..81557421-chr16:81614817..81617531,2	MCF-7	breast:
2	chr16:81477278..81479557-chr16:81555810..81558008,2	MCF-7	breast:
3	chr16:81537304..81540257-chr16:81554887..81558623,3	MCF-7	breast:
4	chr16:81556103..81558627-chr16:81562997..81564545,2	K562	blood:
5	chr16:81527564..81530254-chr16:81556060..81557683,2	K562	blood:
6	chr16:81434653..81436470-chr16:81555326..81557688,2	MCF-7	breast:
7	chr16:81557086..81559213-chr16:81591248..81592791,2	MCF-7	breast:
8	chr16:81556103..81559286-chr16:81561998..81564976,3	K562	blood:

No data

Variant related genes	Relation type
ENSG00000153815	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs2925986	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2925990	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2927315	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2966106	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62046625	0.85[AMR][1000 genomes]
rs898968	0.93[AMR][1000 genomes];0.90[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	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	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
5	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
6	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
7	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
8	nsv1062659	chr16:81547280-81668786	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 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	chr16:81547400-81571600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
2	chr16:81547600-81560000	Weak transcription	Colon Smooth Muscle	Colon
3	chr16:81547600-81564400	Weak transcription	Fetal Kidney	kidney
4	chr16:81547800-81557200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chr16:81547800-81571600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
6	chr16:81548000-81564200	Weak transcription	H1 Cell Line	embryonic stem cell
7	chr16:81548000-81564200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr16:81548200-81559600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
9	chr16:81548200-81560000	Weak transcription	Rectal Smooth Muscle	rectum
10	chr16:81548200-81560600	Weak transcription	Skeletal Muscle Female	skeletal muscle
11	chr16:81548800-81558000	Strong transcription	Fetal Stomach	stomach
12	chr16:81548800-81560400	Weak transcription	Stomach Smooth Muscle	stomach
13	chr16:81548800-81567400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr16:81551000-81559600	Weak transcription	Fetal Lung	lung
15	chr16:81551400-81559000	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
16	chr16:81551400-81559200	Weak transcription	Duodenum Smooth Muscle	Duodenum
17	chr16:81551400-81563800	Weak transcription	HUES64 Cell Line	embryonic stem cell
18	chr16:81551600-81557200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr16:81552200-81557200	Weak transcription	HSMMtube	muscle
20	chr16:81552200-81559200	Weak transcription	NHLF	lung
21	chr16:81552200-81559600	Weak transcription	Right Ventricle	heart
22	chr16:81552200-81560200	Weak transcription	Fetal Muscle Leg	muscle
23	chr16:81552200-81561000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
24	chr16:81552200-81564600	Weak transcription	Skeletal Muscle Male	skeletal muscle
25	chr16:81552400-81560200	Weak transcription	Ovary	ovary
26	chr16:81552800-81563400	Enhancers	Primary T cells fromperipheralblood	blood
27	chr16:81553000-81557400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
28	chr16:81553200-81558000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
29	chr16:81553200-81560200	Weak transcription	Fetal Muscle Trunk	muscle
30	chr16:81553200-81560200	Weak transcription	Rectal Mucosa Donor 31	rectum
31	chr16:81553200-81562400	Enhancers	Primary T killer memory cells from peripheral blood	blood
32	chr16:81553400-81558400	Strong transcription	Fetal Intestine Small	intestine
33	chr16:81553600-81559600	Weak transcription	HUES6 Cell Line	embryonic stem cell
34	chr16:81553600-81559800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
35	chr16:81553600-81560400	Weak transcription	Colonic Mucosa	Colon
36	chr16:81553600-81565400	Weak transcription	Rectal Mucosa Donor 29	rectum
37	chr16:81553800-81557200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
38	chr16:81553800-81558000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
39	chr16:81553800-81558000	Weak transcription	Right Atrium	heart
40	chr16:81553800-81560400	Weak transcription	Left Ventricle	heart
41	chr16:81553800-81566200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
42	chr16:81554000-81558000	Enhancers	Primary T helper naive cells from peripheral blood	blood
43	chr16:81554000-81558200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
44	chr16:81554000-81559600	Weak transcription	HUVEC	blood vessel
45	chr16:81554000-81560000	Weak transcription	Primary hematopoietic stem cells	blood
46	chr16:81554200-81557800	Enhancers	Primary T helper cells fromperipheralblood	blood
47	chr16:81554600-81557200	Weak transcription	Spleen	Spleen
48	chr16:81555200-81559600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr16:81555400-81560400	Weak transcription	Cortex derived primary cultured neurospheres	brain
50	chr16:81555400-81563200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links