Variant report

Variant	rs16826602
Chromosome Location	chr3:156317967-156317968
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:156271802..156273489-chr3:156317792..156320764,2	K562	blood:
2	chr3:156292361..156293915-chr3:156317802..156319363,2	K562	blood:
3	chr3:156316378..156327816-chr3:156388248..156396556,24	K562	blood:
4	chr3:156317690..156325697-chr3:156390438..156395080,16	K562	blood:
5	chr3:156294996..156297578-chr3:156317341..156320285,2	K562	blood:

Variant related genes	Relation type
ENSG00000114850	Chromatin interaction
ENSG00000243926	Chromatin interaction
ENSG00000163659	Chromatin interaction

Extended variants
information (count: 18 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs12632784	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs16826514	1.00[ASW][hapmap];1.00[CEU][hapmap]
rs16826603	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16826607	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];0.90[JPT][hapmap];1.00[ASN][1000 genomes]
rs16826618	1.00[EUR][1000 genomes]
rs55934657	0.87[ASN][1000 genomes]
rs56865334	0.82[ASN][1000 genomes]
rs57217336	1.00[EUR][1000 genomes]
rs57231972	1.00[ASN][1000 genomes]
rs59343105	1.00[EUR][1000 genomes]
rs60571863	0.87[ASN][1000 genomes]
rs61363943	1.00[ASN][1000 genomes]
rs6765047	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73875722	0.87[ASN][1000 genomes]
rs9681788	1.00[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1014755	chr3:155889430-156411894	Flanking Active TSS Strong transcription Weak transcription Enhancers Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases
2	nsv829764	chr3:156174824-156347774	Enhancers Flanking Active TSS Strong transcription Weak transcription Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	13 gene(s)	inside rSNPs	diseases
3	nsv877684	chr3:156294987-156344825	Flanking Active TSS Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:156312000-156323000	Weak transcription	HUES64 Cell Line	embryonic stem cell
2	chr3:156312600-156323000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr3:156312800-156323400	Weak transcription	Brain Substantia Nigra	brain
4	chr3:156313000-156319400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr3:156316000-156323600	Weak transcription	Brain Germinal Matrix	brain
6	chr3:156316400-156319400	Enhancers	K562	blood
7	chr3:156316600-156323400	Weak transcription	Ovary	ovary
8	chr3:156317200-156318000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
9	chr3:156317400-156318400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr3:156317600-156318000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr3:156317600-156319800	Weak transcription	Brain Cingulate Gyrus	brain
12	chr3:156317600-156319800	Weak transcription	Fetal Intestine Small	intestine
13	chr3:156317600-156320000	Weak transcription	Fetal Intestine Large	intestine
14	chr3:156317600-156322400	Weak transcription	Left Ventricle	heart
15	chr3:156317600-156322600	Weak transcription	Cortex derived primary cultured neurospheres	brain
16	chr3:156317600-156322600	Weak transcription	Fetal Heart	heart
17	chr3:156317600-156323000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
18	chr3:156317600-156323000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr3:156317600-156323000	Weak transcription	HUES6 Cell Line	embryonic stem cell
20	chr3:156317600-156323200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
21	chr3:156317600-156323200	Weak transcription	Brain Inferior Temporal Lobe	brain
22	chr3:156317600-156323600	Weak transcription	H1 Cell Line	embryonic stem cell
23	chr3:156317600-156323600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
24	chr3:156317800-156321400	Weak transcription	Right Atrium	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links