Variant report

Variant	rs61897844
Chromosome Location	chr11:47190860-47190861
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr11:47190577-47190861	HepG2	liver:	n/a	n/a
2	POLR2A	chr11:47190778-47191020	Hela-S3	cervix:	n/a	n/a
3	POLR2A	chr11:47190837-47191019	K562	blood:	n/a	n/a
4	POLR2A	chr11:47190755-47191700	Hela-S3	cervix:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:47190024..47192945-chr11:47289457..47292109,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-PACSIN3-4	chr11:47190847-47191114	ENSG00000270060.1

Variant related genes	Relation type
ARFGAP2	TF binding region
ENSG00000110514	Chromatin interaction
ENSG00000025434	Chromatin interaction

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs10501319	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10742797	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10769248	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10838652	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10838658	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10838662	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10838663	0.88[ASN][1000 genomes]
rs10838664	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11039080	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11039081	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11039098	0.85[ASN][1000 genomes]
rs11601798	0.84[AFR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11603373	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12417519	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12574410	0.88[ASN][1000 genomes]
rs2087215	0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2279438	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2279439	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3758666	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3758667	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3922684	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4269876	0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4315028	0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4498951	0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4576779	0.85[ASN][1000 genomes]
rs4587689	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4752965	0.88[ASN][1000 genomes]
rs4752968	0.91[ASN][1000 genomes]
rs4752969	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs61896133	0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs61896136	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs61897787	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs61897857	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6485726	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7108822	0.80[ASN][1000 genomes]
rs7112854	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7114683	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7124648	0.80[ASN][1000 genomes]
rs7126005	0.80[ASN][1000 genomes]
rs7127741	0.81[ASN][1000 genomes]
rs7128650	0.80[ASN][1000 genomes]
rs7130006	0.89[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs7937410	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7940240	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7950753	0.81[ASN][1000 genomes]
rs7951979	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs901747	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs923324	0.95[EUR][1000 genomes];0.88[ASN][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	nsv897323	chr11:47182926-47460306	Genic enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	96 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:47175400-47197600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr11:47176000-47196600	Strong transcription	Fetal Intestine Small	intestine
3	chr11:47176800-47193000	Strong transcription	Fetal Brain Female	brain
4	chr11:47176800-47196600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr11:47178000-47197000	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr11:47178200-47194000	Strong transcription	Dnd41	blood
7	chr11:47178800-47196800	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr11:47180600-47196600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
9	chr11:47181400-47197000	Weak transcription	Right Atrium	heart
10	chr11:47182000-47196400	Strong transcription	Hela-S3	cervix
11	chr11:47182200-47193400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr11:47182200-47194800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
13	chr11:47182200-47197000	Strong transcription	Primary neutrophils fromperipheralblood	blood
14	chr11:47182400-47196400	Strong transcription	Fetal Intestine Large	intestine
15	chr11:47183200-47194000	Strong transcription	Primary B cells from peripheral blood	blood
16	chr11:47183200-47197000	Strong transcription	Placenta	Placenta
17	chr11:47183200-47197200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
18	chr11:47183400-47192600	Strong transcription	Primary T cells from cord blood	blood
19	chr11:47183400-47192800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
20	chr11:47183400-47193000	Strong transcription	Primary T cells fromperipheralblood	blood
21	chr11:47183400-47193200	Strong transcription	Brain Cingulate Gyrus	brain
22	chr11:47183400-47193800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
23	chr11:47183400-47194600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr11:47183400-47194600	Strong transcription	Colonic Mucosa	Colon
25	chr11:47183400-47196600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
26	chr11:47183400-47197000	Strong transcription	Cortex derived primary cultured neurospheres	brain
27	chr11:47183400-47197000	Strong transcription	Rectal Mucosa Donor 29	rectum
28	chr11:47183400-47197000	Strong transcription	Sigmoid Colon	Sigmoid Colon
29	chr11:47183600-47192000	Strong transcription	Primary hematopoietic stem cells	blood
30	chr11:47183600-47192800	Strong transcription	Foreskin Melanocyte Primary Cells skin01	Skin
31	chr11:47183600-47193000	Strong transcription	Brain Substantia Nigra	brain
32	chr11:47183600-47193800	Strong transcription	Primary T helper cells fromperipheralblood	blood
33	chr11:47183600-47194200	Strong transcription	Fetal Thymus	thymus
34	chr11:47183600-47196400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr11:47183600-47196600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
36	chr11:47183600-47197000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
37	chr11:47183600-47197000	Strong transcription	Monocytes-CD14+_RO01746	blood
38	chr11:47183800-47196800	Strong transcription	NHLF	lung
39	chr11:47184000-47193000	Strong transcription	Esophagus	oesophagus
40	chr11:47184000-47193600	Strong transcription	Adipose Nuclei	Adipose
41	chr11:47184000-47194000	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
42	chr11:47184000-47196800	Strong transcription	Duodenum Mucosa	Duodenum
43	chr11:47184200-47191600	Strong transcription	Right Ventricle	heart
44	chr11:47184200-47196000	Strong transcription	Rectal Mucosa Donor 31	rectum
45	chr11:47184400-47192800	Strong transcription	Stomach Smooth Muscle	stomach
46	chr11:47184400-47193800	Strong transcription	Pancreas	Pancrea
47	chr11:47184400-47194000	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
48	chr11:47184400-47194400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
49	chr11:47184400-47196400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
50	chr11:47184400-47197000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell

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