Variant report

Variant	rs16827244
Chromosome Location	chr3:156833616-156833617
allele	G/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	chr3:156833386..156836394-chr3:156837520..156841942,4	MCF-7	breast:
2	chr3:156833220..156834720-chr3:156876046..156877901,2	K562	blood:
3	chr3:156811094..156814889-chr3:156831563..156835673,4	K562	blood:
4	chr3:156802474..156811977-chr3:156831792..156841748,16	K562	blood:
5	chr3:156390672..156392500-chr3:156832016..156834589,3	K562	blood:
6	chr3:156803869..156808712-chr3:156831825..156837265,9	K562	blood:
7	chr3:156832411..156834031-chr3:156873705..156875895,2	K562	blood:
8	chr3:156822578..156824586-chr3:156833143..156834899,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000163659	Chromatin interaction
ENSG00000243629	Chromatin interaction
ENSG00000241135	Chromatin interaction
ENSG00000163660	Chromatin interaction
ENSG00000243926	Chromatin interaction

Extended variants
information (count: 5 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs6804292	0.87[ASN][1000 genomes]
rs7624327	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7646102	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3349885	chr3:156685409-156878910	Flanking Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Strong transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	141 gene(s)	inside rSNPs	diseases
2	nsv829766	chr3:156811536-157020551	Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	144 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:54 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:156813200-156838000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr3:156819600-156846400	Weak transcription	Fetal Kidney	kidney
3	chr3:156829000-156839000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr3:156829200-156833800	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr3:156829600-156833800	Weak transcription	Brain Substantia Nigra	brain
6	chr3:156829600-156838400	Weak transcription	Spleen	Spleen
7	chr3:156829800-156833800	Weak transcription	NHLF	lung
8	chr3:156830400-156834000	Weak transcription	Brain Cingulate Gyrus	brain
9	chr3:156830800-156833800	Weak transcription	Left Ventricle	heart
10	chr3:156831800-156834000	Enhancers	HepG2	liver
11	chr3:156832000-156835400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr3:156832800-156833800	Enhancers	HUES48 Cell Line	embryonic stem cell
13	chr3:156832800-156833800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
14	chr3:156832800-156833800	Enhancers	Fetal Intestine Large	intestine
15	chr3:156832800-156833800	Enhancers	Fetal Intestine Small	intestine
16	chr3:156832800-156833800	Enhancers	Ovary	ovary
17	chr3:156832800-156833800	Flanking Active TSS	K562	blood
18	chr3:156832800-156834200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr3:156832800-156834400	Enhancers	Hela-S3	cervix
20	chr3:156832800-156834400	Enhancers	HMEC	breast
21	chr3:156832800-156834600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr3:156832800-156834600	Enhancers	Psoas Muscle	Psoas
23	chr3:156832800-156834800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr3:156832800-156834800	Enhancers	Placenta Amnion	Placenta Amnion
25	chr3:156832800-156834800	Enhancers	NHEK	skin
26	chr3:156832800-156836400	Enhancers	Rectal Mucosa Donor 31	rectum
27	chr3:156833000-156833800	Enhancers	HUES64 Cell Line	embryonic stem cell
28	chr3:156833000-156834000	Enhancers	iPS-18 Cell Line	embryonic stem cell
29	chr3:156833000-156834200	Bivalent Enhancer	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
30	chr3:156833000-156834200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr3:156833000-156834200	Enhancers	Right Atrium	heart
32	chr3:156833000-156834200	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
33	chr3:156833000-156834200	Enhancers	HUVEC	blood vessel
34	chr3:156833000-156834200	Enhancers	NH-A	brain
35	chr3:156833200-156834000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
36	chr3:156833200-156834200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
37	chr3:156833200-156834200	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
38	chr3:156833200-156834200	Enhancers	Stomach Mucosa	stomach
39	chr3:156833200-156834400	Enhancers	HSMM	muscle
40	chr3:156833200-156834600	Enhancers	Cortex derived primary cultured neurospheres	brain
41	chr3:156833200-156834600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
42	chr3:156833400-156834000	Enhancers	Fetal Thymus	thymus
43	chr3:156833400-156834200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
44	chr3:156833400-156834800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
45	chr3:156833600-156834000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
46	chr3:156833600-156834000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
47	chr3:156833600-156834000	Enhancers	Fetal Heart	heart
48	chr3:156833600-156834000	Weak transcription	Right Ventricle	heart
49	chr3:156833600-156834200	Enhancers	Brain Angular Gyrus	brain
50	chr3:156833600-156834400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links