Variant report

Variant	rs4713977
Chromosome Location	chr6:36424664-36424665
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:36422087..36425016-chr6:36426919..36429459,2	K562	blood:
2	chr6:36423281..36426595-chr6:36560792..36564300,3	K562	blood:
3	chr6:36420409..36426454-chr6:36560792..36565637,7	K562	blood:
4	chr6:36423468..36426498-chr6:36430251..36432215,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000112081	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs12525802	0.83[ASN][1000 genomes]
rs16888605	0.87[ASN][1000 genomes]
rs16888788	0.89[AMR][1000 genomes]
rs1885206	0.82[AMR][1000 genomes]
rs2239541	0.98[AMR][1000 genomes];0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2267930	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2273882	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2273883	0.88[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs3778028	0.84[AMR][1000 genomes]
rs3819759	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs41272166	0.83[ASN][1000 genomes]
rs4236051	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4711451	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4713975	0.82[ASN][1000 genomes]
rs4713976	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4713978	0.83[ASN][1000 genomes]
rs7747978	0.82[AMR][1000 genomes]
rs9470264	0.81[AMR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv885806	chr6:36349890-36621178	Flanking Bivalent TSS/Enh Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	103 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:111 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:36411600-36439800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr6:36411600-36476400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr6:36411800-36439400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr6:36412200-36449200	Weak transcription	Esophagus	oesophagus
5	chr6:36412400-36437800	Weak transcription	HUES64 Cell Line	embryonic stem cell
6	chr6:36412400-36438400	Weak transcription	Lung	lung
7	chr6:36412600-36427200	Weak transcription	Fetal Kidney	kidney
8	chr6:36412600-36429600	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr6:36412600-36430600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
10	chr6:36412600-36430800	Weak transcription	Small Intestine	intestine
11	chr6:36412600-36438600	Weak transcription	Rectal Mucosa Donor 31	rectum
12	chr6:36412600-36439200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
13	chr6:36412600-36449000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
14	chr6:36412800-36430800	Weak transcription	Brain Substantia Nigra	brain
15	chr6:36412800-36430800	Weak transcription	Sigmoid Colon	Sigmoid Colon
16	chr6:36412800-36443400	Weak transcription	Brain Inferior Temporal Lobe	brain
17	chr6:36412800-36447000	Weak transcription	Brain Cingulate Gyrus	brain
18	chr6:36412800-36448600	Weak transcription	HMEC	breast
19	chr6:36413400-36427000	Weak transcription	Stomach Smooth Muscle	stomach
20	chr6:36413400-36427400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
21	chr6:36413400-36429600	Weak transcription	Brain Hippocampus Middle	brain
22	chr6:36413400-36431200	Weak transcription	NHEK	skin
23	chr6:36413400-36431400	Weak transcription	A549	lung
24	chr6:36413400-36437800	Weak transcription	Primary B cells from peripheral blood	blood
25	chr6:36413400-36439200	Weak transcription	Skeletal Muscle Male	skeletal muscle
26	chr6:36413600-36427200	Weak transcription	Rectal Smooth Muscle	rectum
27	chr6:36413600-36428400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
28	chr6:36413600-36429400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
29	chr6:36413600-36430800	Weak transcription	NHDF-Ad	bronchial
30	chr6:36413600-36437800	Weak transcription	Duodenum Mucosa	Duodenum
31	chr6:36413800-36427400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
32	chr6:36413800-36429200	Weak transcription	HUVEC	blood vessel
33	chr6:36413800-36429400	Weak transcription	Fetal Heart	heart
34	chr6:36413800-36436800	Weak transcription	Fetal Lung	lung
35	chr6:36415000-36429000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
36	chr6:36415200-36427200	Weak transcription	Colon Smooth Muscle	Colon
37	chr6:36415600-36425600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
38	chr6:36415600-36426400	Weak transcription	Ovary	ovary
39	chr6:36415800-36428000	Weak transcription	Right Atrium	heart
40	chr6:36415800-36428400	Weak transcription	Aorta	Aorta
41	chr6:36416400-36429800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
42	chr6:36416600-36425600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
43	chr6:36417000-36426000	Weak transcription	NHLF	lung
44	chr6:36417000-36429600	Weak transcription	Primary B cells from cord blood	blood
45	chr6:36417000-36436400	Weak transcription	HSMM	muscle
46	chr6:36417000-36438400	Weak transcription	Fetal Brain Female	brain
47	chr6:36417200-36425400	Strong transcription	Fetal Intestine Small	intestine
48	chr6:36417200-36430600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
49	chr6:36417200-36438800	Weak transcription	Rectal Mucosa Donor 29	rectum
50	chr6:36417200-36439000	Weak transcription	HUES6 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links