Variant report

Variant	rs61838723
Chromosome Location	chr10:49662440-49662441
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:8)
CpG islands
(count:0)
Chromatin interactive
region (count:3)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:8 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	NR2F2	chr10:49662179-49662819	MCF-7	breast:	n/a	n/a
2	MYC	chr10:49662308-49662655	K562	blood:	n/a	n/a
3	POLR2A	chr10:49661677-49662659	U87	brain:	n/a	n/a
4	RCOR1	chr10:49662386-49662597	K562	blood:	n/a	n/a
5	SIN3AK20	chr10:49662122-49662909	MCF-7	breast:	n/a	n/a
6	POLR2A	chr10:49661829-49662562	U87	brain:	n/a	n/a
7	GATA3	chr10:49662232-49662905	MCF-7	breast:	n/a	n/a
8	GATA3	chr10:49662082-49662856	MCF-7	breast:	n/a	n/a

No data

(count:3 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr10:49607978..49609733-chr10:49660029..49662465,2	K562	blood:
2	chr10:49659900..49662821-chr10:49704182..49706648,2	K562	blood:
3	chr10:49649966..49652141-chr10:49661563..49663221,2	K562	blood:

No data

Variant related genes	Relation type
ARHGAP22	TF binding region
ENSG00000107643	Chromatin interaction

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10745273	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11101327	0.85[EUR][1000 genomes]
rs17010407	0.84[EUR][1000 genomes]
rs17010430	0.84[EUR][1000 genomes]
rs17010447	0.84[EUR][1000 genomes]
rs17010454	0.84[EUR][1000 genomes]
rs17010455	0.84[EUR][1000 genomes]
rs17010496	0.91[EUR][1000 genomes]
rs17697972	0.84[EUR][1000 genomes]
rs1867586	0.92[EUR][1000 genomes]
rs3730160	0.84[EUR][1000 genomes]
rs3855904	0.96[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs4838592	0.85[EUR][1000 genomes]
rs57508520	0.84[EUR][1000 genomes]
rs58676018	0.84[EUR][1000 genomes]
rs60992548	0.84[EUR][1000 genomes]
rs61838668	0.84[EUR][1000 genomes]
rs61838669	0.80[EUR][1000 genomes]
rs61838672	0.84[EUR][1000 genomes]
rs61838673	0.84[EUR][1000 genomes]
rs61838677	0.84[EUR][1000 genomes]
rs61838697	0.84[EUR][1000 genomes]
rs61838698	0.84[EUR][1000 genomes]
rs61838700	0.84[EUR][1000 genomes]
rs61838701	0.84[EUR][1000 genomes]
rs61838703	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs61838704	0.84[EUR][1000 genomes]
rs61838707	0.92[EUR][1000 genomes]
rs61838708	0.88[EUR][1000 genomes]
rs61838722	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61838724	0.87[EUR][1000 genomes]
rs61838725	0.84[EUR][1000 genomes]
rs61838726	0.91[EUR][1000 genomes]
rs61838728	0.91[EUR][1000 genomes]
rs61838730	0.91[EUR][1000 genomes]
rs61838731	0.91[EUR][1000 genomes]
rs61838735	0.91[EUR][1000 genomes]
rs61840558	0.84[EUR][1000 genomes]
rs7089077	0.89[EUR][1000 genomes]
rs7092959	0.85[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	nsv895371	chr10:49492075-50232180	Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	35 gene(s)	inside rSNPs	diseases
2	nsv895372	chr10:49576878-49933488	Enhancers Weak transcription Bivalent Enhancer Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:68 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:49612000-49664200	Weak transcription	Thymus	Thymus
2	chr10:49619000-49664200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr10:49621400-49664400	Weak transcription	Brain Angular Gyrus	brain
4	chr10:49624600-49664800	Weak transcription	Gastric	stomach
5	chr10:49626600-49664400	Weak transcription	Spleen	Spleen
6	chr10:49644200-49664400	Weak transcription	Duodenum Smooth Muscle	Duodenum
7	chr10:49647800-49663000	Weak transcription	NHEK	skin
8	chr10:49647800-49664400	Weak transcription	Fetal Intestine Small	intestine
9	chr10:49648000-49664400	Weak transcription	Right Atrium	heart
10	chr10:49650600-49664000	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
11	chr10:49652000-49673000	Weak transcription	HMEC	breast
12	chr10:49652600-49664200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
13	chr10:49653000-49673600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
14	chr10:49653200-49663600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr10:49653600-49664400	Weak transcription	Esophagus	oesophagus
16	chr10:49653600-49664600	Weak transcription	HUES6 Cell Line	embryonic stem cell
17	chr10:49655200-49677800	Weak transcription	H9 Cell Line	embryonic stem cell
18	chr10:49657600-49662600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr10:49657800-49664400	Strong transcription	NHLF	lung
20	chr10:49657800-49677600	Weak transcription	HSMMtube	muscle
21	chr10:49658000-49664400	Weak transcription	Brain Cingulate Gyrus	brain
22	chr10:49658200-49663400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr10:49658200-49664200	Weak transcription	Adipose Nuclei	Adipose
24	chr10:49658200-49664200	Weak transcription	HUVEC	blood vessel
25	chr10:49658200-49664400	Weak transcription	Right Ventricle	heart
26	chr10:49658600-49664400	Strong transcription	Muscle Satellite Cultured Cells	--
27	chr10:49659200-49664000	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
28	chr10:49660200-49662800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
29	chr10:49660400-49665400	Enhancers	Ovary	ovary
30	chr10:49660600-49663400	Enhancers	Pancreas	Pancrea
31	chr10:49660800-49663000	Enhancers	Placenta	Placenta
32	chr10:49660800-49664200	Weak transcription	Brain Substantia Nigra	brain
33	chr10:49661200-49663600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
34	chr10:49661200-49664400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
35	chr10:49661200-49669200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
36	chr10:49661400-49667600	Weak transcription	HSMM	muscle
37	chr10:49661600-49662600	Weak transcription	Lung	lung
38	chr10:49661600-49663200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
39	chr10:49661600-49664000	Weak transcription	Brain Inferior Temporal Lobe	brain
40	chr10:49661600-49665600	Enhancers	Fetal Lung	lung
41	chr10:49661800-49662600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
42	chr10:49661800-49662600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
43	chr10:49661800-49664400	Genic enhancers	Primary hematopoietic stem cells short term culture	blood
44	chr10:49661800-49664400	Weak transcription	NHDF-Ad	bronchial
45	chr10:49661800-49665800	Enhancers	Fetal Heart	heart
46	chr10:49661800-49666800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
47	chr10:49661800-49668600	Genic enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
48	chr10:49662000-49664000	Weak transcription	Brain Hippocampus Middle	brain
49	chr10:49662000-49664200	Weak transcription	Brain Anterior Caudate	brain
50	chr10:49662000-49667400	Weak transcription	Breast Myoepithelial Primary Cells	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links