Variant report

Variant	rs55799452
Chromosome Location	chr6:161556629-161556630
allele	A/C/G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:161552329..161556769-chr6:161557901..161562142,6	K562	blood:
2	chr6:161555927..161558582-chr6:161570219..161573182,3	K562	blood:
3	chr6:161554160..161557722-chr6:161792909..161795003,3	K562	blood:
4	chr6:161553291..161555137-chr6:161555182..161557649,2	K562	blood:
5	chr6:161554722..161557722-chr6:161792909..161795003,3	K562	blood:

Variant related genes	Relation type
ENSG00000026652	Chromatin interaction

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs1001421	0.83[ASN][1000 genomes]
rs1001756	0.87[AMR][1000 genomes]
rs10945718	0.89[ASN][1000 genomes]
rs11751634	0.87[AMR][1000 genomes]
rs11751688	0.87[AMR][1000 genomes]
rs11751843	0.87[AMR][1000 genomes]
rs11752188	0.87[AMR][1000 genomes]
rs11753446	0.87[AMR][1000 genomes]
rs11755042	0.87[AMR][1000 genomes]
rs11755244	0.87[AMR][1000 genomes]
rs11757223	0.87[AMR][1000 genomes]
rs11757309	0.82[AMR][1000 genomes]
rs11759000	0.94[AMR][1000 genomes]
rs11759408	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12110827	1.00[ASN][1000 genomes]
rs1464781	0.87[AMR][1000 genomes]
rs1807426	1.00[ASN][1000 genomes]
rs1880367	0.80[ASN][1000 genomes]
rs2009830	1.00[ASN][1000 genomes]
rs2314190	0.89[ASN][1000 genomes]
rs3778218	0.87[AMR][1000 genomes]
rs3778221	0.88[ASN][1000 genomes]
rs3798916	0.87[AMR][1000 genomes]
rs3823057	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41268545	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57922639	0.87[AMR][1000 genomes]
rs58040353	0.87[AMR][1000 genomes]
rs59129068	0.87[AMR][1000 genomes]
rs59318837	0.87[AMR][1000 genomes]
rs6455707	0.80[ASN][1000 genomes]
rs6922534	0.82[AMR][1000 genomes]
rs7752907	0.80[ASN][1000 genomes]
rs7754215	0.89[ASN][1000 genomes]
rs7754525	0.89[ASN][1000 genomes]
rs9456635	0.88[AMR][1000 genomes]
rs9456636	0.88[AMR][1000 genomes]
rs9458135	0.88[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1030045	chr6:161359075-161562255	Enhancers Strong transcription Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv886817	chr6:161371621-161846654	Strong transcription Enhancers Weak transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
3	esv3381361	chr6:161373617-161864101	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
4	nsv1030852	chr6:161477750-161589394	Weak transcription Strong transcription Genic enhancers Enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:112 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:161534600-161559800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr6:161537600-161556800	Weak transcription	Gastric	stomach
3	chr6:161538200-161559600	Weak transcription	Rectal Smooth Muscle	rectum
4	chr6:161538400-161557800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
5	chr6:161538400-161558400	Weak transcription	HMEC	breast
6	chr6:161538600-161559600	Weak transcription	Placenta Amnion	Placenta Amnion
7	chr6:161539800-161556800	Weak transcription	Primary monocytes fromperipheralblood	blood
8	chr6:161539800-161557200	Weak transcription	Rectal Mucosa Donor 29	rectum
9	chr6:161541000-161584600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
10	chr6:161541400-161562200	Weak transcription	NHDF-Ad	bronchial
11	chr6:161542000-161567200	Weak transcription	Muscle Satellite Cultured Cells	--
12	chr6:161542000-161585600	Weak transcription	Fetal Kidney	kidney
13	chr6:161544600-161589600	Weak transcription	Fetal Brain Male	brain
14	chr6:161545000-161584800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
15	chr6:161546200-161560800	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
16	chr6:161548000-161557400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
17	chr6:161548200-161556800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
18	chr6:161548200-161562000	Strong transcription	Fetal Intestine Small	intestine
19	chr6:161548200-161562800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
20	chr6:161548400-161556800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr6:161548400-161561200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
22	chr6:161548400-161590800	Weak transcription	Fetal Thymus	thymus
23	chr6:161548600-161557400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
24	chr6:161549200-161565600	Strong transcription	Brain Germinal Matrix	brain
25	chr6:161549200-161577000	Strong transcription	Fetal Brain Female	brain
26	chr6:161549200-161577400	Strong transcription	Fetal Stomach	stomach
27	chr6:161549600-161561200	Weak transcription	NH-A	brain
28	chr6:161549800-161589400	Weak transcription	Primary T helper cells fromperipheralblood	blood
29	chr6:161550000-161584600	Weak transcription	Primary T cells fromperipheralblood	blood
30	chr6:161550200-161556800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr6:161550200-161557400	Weak transcription	Right Ventricle	heart
32	chr6:161550200-161557800	Weak transcription	Colon Smooth Muscle	Colon
33	chr6:161550200-161560400	Strong transcription	HUES64 Cell Line	embryonic stem cell
34	chr6:161550200-161562600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
35	chr6:161550200-161577400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
36	chr6:161550400-161558800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
37	chr6:161550400-161567000	Weak transcription	H9 Cell Line	embryonic stem cell
38	chr6:161550600-161557400	Weak transcription	Osteobl	bone
39	chr6:161550600-161562200	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
40	chr6:161550800-161557400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
41	chr6:161551200-161557400	Strong transcription	HUES6 Cell Line	embryonic stem cell
42	chr6:161551400-161561600	Strong transcription	Primary T cells from cord blood	blood
43	chr6:161551800-161560600	Weak transcription	K562	blood
44	chr6:161552000-161559000	Weak transcription	Primary T helper cells PMA-I stimulated	--
45	chr6:161552600-161558400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
46	chr6:161552800-161558200	Strong transcription	Thymus	Thymus
47	chr6:161553000-161558800	Weak transcription	NHEK	skin
48	chr6:161553000-161560400	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
49	chr6:161553000-161561200	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
50	chr6:161553000-161564400	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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