Variant report

Variant	rs896624
Chromosome Location	chr16:80646592-80646593
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:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:10 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr16:80631139..80633320-chr16:80645177..80647341,2	MCF-7	breast:
2	chr16:80644852..80647194-chr16:80651034..80653293,2	MCF-7	breast:
3	chr16:80621732..80623861-chr16:80646152..80649105,2	MCF-7	breast:
4	chr16:80646588..80649527-chr16:80660737..80663872,3	MCF-7	breast:
5	chr16:80567126..80568902-chr16:80645510..80647284,2	MCF-7	breast:
6	chr16:80644284..80647227-chr16:80651769..80654073,2	K562	blood:
7	chr16:80646269..80652349-chr16:80833656..80841772,15	MCF-7	breast:
8	chr16:80573033..80575436-chr16:80644795..80647684,3	MCF-7	breast:
9	chr16:80643464..80646861-chr16:80834784..80838958,5	MCF-7	breast:
10	chr16:80616339..80621061-chr16:80643147..80647399,5	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000166446	Chromatin interaction
ENSG00000259867	Chromatin interaction
ENSG00000168589	Chromatin interaction
ENSG00000260064	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs1109548	1.00[JPT][hapmap]
rs11861858	1.00[JPT][hapmap]
rs13330810	1.00[JPT][hapmap]
rs13334543	1.00[JPT][hapmap]
rs13334600	1.00[JPT][hapmap]
rs16953628	1.00[JPT][hapmap]
rs16953639	1.00[JPT][hapmap]
rs16953641	1.00[JPT][hapmap]
rs16953658	1.00[JPT][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2167672	1.00[JPT][hapmap]
rs58949721	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7198464	1.00[JPT][hapmap]
rs74028333	1.00[AMR][1000 genomes]
rs8045496	1.00[JPT][hapmap]
rs966671	1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1060621	chr16:80532848-80980616	Weak transcription Active TSS ZNF genes & repeats Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
2	nsv542989	chr16:80532848-80980616	Enhancers Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Weak transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
3	nsv1056083	chr16:80636184-80666779	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv1063971	chr16:80640278-80663092	Strong transcription Weak transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv1063761	chr16:80640278-80663665	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:67 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:80629200-80647600	Weak transcription	NHEK	skin
2	chr16:80630600-80668000	Weak transcription	Fetal Kidney	kidney
3	chr16:80634000-80647800	Weak transcription	NHLF	lung
4	chr16:80634200-80663600	Weak transcription	Brain Anterior Caudate	brain
5	chr16:80635000-80651200	Weak transcription	Brain Hippocampus Middle	brain
6	chr16:80635400-80655600	Weak transcription	Brain Angular Gyrus	brain
7	chr16:80636000-80648200	Strong transcription	Hela-S3	cervix
8	chr16:80636400-80647800	Weak transcription	Skeletal Muscle Female	skeletal muscle
9	chr16:80636800-80653600	Weak transcription	HSMMtube	muscle
10	chr16:80637000-80653400	Weak transcription	HSMM	muscle
11	chr16:80637200-80648200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr16:80637400-80648600	Weak transcription	Muscle Satellite Cultured Cells	--
13	chr16:80637800-80647200	Strong transcription	Fetal Intestine Small	intestine
14	chr16:80638600-80648000	Weak transcription	Left Ventricle	heart
15	chr16:80639800-80657400	Weak transcription	Stomach Smooth Muscle	stomach
16	chr16:80640400-80647800	Weak transcription	Esophagus	oesophagus
17	chr16:80640600-80652600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
18	chr16:80640600-80662200	Weak transcription	Primary T cells from cord blood	blood
19	chr16:80640600-80662600	Weak transcription	Primary T helper cells fromperipheralblood	blood
20	chr16:80640800-80663800	Weak transcription	Primary T helper cells PMA-I stimulated	--
21	chr16:80640800-80669200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
22	chr16:80641400-80646800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr16:80641400-80647000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr16:80641800-80652200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
25	chr16:80642000-80648200	Weak transcription	Brain Cingulate Gyrus	brain
26	chr16:80642200-80652200	Weak transcription	Primary T cells fromperipheralblood	blood
27	chr16:80642200-80668200	Weak transcription	Brain Inferior Temporal Lobe	brain
28	chr16:80642800-80663800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
29	chr16:80643000-80649600	Weak transcription	Fetal Stomach	stomach
30	chr16:80643000-80654600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
31	chr16:80643200-80648200	Weak transcription	HUVEC	blood vessel
32	chr16:80644200-80647000	Strong transcription	Duodenum Mucosa	Duodenum
33	chr16:80644200-80647200	Weak transcription	Fetal Lung	lung
34	chr16:80644200-80666200	Weak transcription	Brain Substantia Nigra	brain
35	chr16:80644600-80646600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
36	chr16:80644600-80646600	Strong transcription	Liver	Liver
37	chr16:80644600-80646600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
38	chr16:80644600-80646800	Weak transcription	Rectal Mucosa Donor 29	rectum
39	chr16:80644600-80647000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
40	chr16:80644600-80647000	Strong transcription	Gastric	stomach
41	chr16:80644800-80646800	Strong transcription	Adipose Nuclei	Adipose
42	chr16:80645000-80646600	Strong transcription	Skeletal Muscle Male	skeletal muscle
43	chr16:80645000-80646800	Strong transcription	Spleen	Spleen
44	chr16:80645200-80646600	Strong transcription	Primary monocytes fromperipheralblood	blood
45	chr16:80645200-80646600	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
46	chr16:80645200-80647000	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
47	chr16:80645200-80652800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
48	chr16:80645400-80646600	Strong transcription	Primary neutrophils fromperipheralblood	blood
49	chr16:80645400-80646600	Strong transcription	Pancreas	Pancrea
50	chr16:80645400-80657600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links