Variant report

Variant	rs9860011
Chromosome Location	chr3:46626589-46626590
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	chr3:46625987-46629061	H1-hESC	embryonic stem cell:	n/a	n/a
2	MAX	chr3:46626299-46627305	H1-hESC	embryonic stem cell:	n/a	chr3:46626547-46626557
3	POLR2A	chr3:46625901-46629370	H1-hESC	embryonic stem cell:	n/a	n/a
4	POLR2A	chr3:46626179-46627218	H1-hESC	embryonic stem cell:	n/a	n/a
5	ATF2	chr3:46626359-46627256	H1-hESC	embryonic stem cell:	n/a	n/a
6	CHD2	chr3:46626479-46627228	H1-hESC	embryonic stem cell:	n/a	n/a
7	NRF1	chr3:46626545-46626741	H1-hESC	embryonic stem cell:	n/a	n/a
8	POLR2A	chr3:46626007-46627276	H1-hESC	embryonic stem cell:	n/a	n/a
9	USF2	chr3:46626270-46626617	H1-hESC	embryonic stem cell:	n/a	n/a
10	POLR2A	chr3:46625886-46627315	H1-hESC	embryonic stem cell:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:46616725..46618577-chr3:46625163..46627134,2	K562	blood:

Variant related genes	Relation type
LRRC2	TF binding region

Extended variants
information (count: 8 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs2102943	0.91[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs34844178	0.83[AFR][1000 genomes]
rs4117520	0.87[AFR][1000 genomes];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4683243	0.80[JPT][hapmap]
rs62247858	0.94[AFR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6802820	0.89[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs72622930	0.91[AFR][1000 genomes];0.84[EUR][1000 genomes];0.87[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	nsv1013306	chr3:46469014-46698538	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:46616800-46626600	Weak transcription	Pancreas	Pancrea
2	chr3:46621000-46627200	Weak transcription	Duodenum Mucosa	Duodenum
3	chr3:46622400-46626600	Weak transcription	Colonic Mucosa	Colon
4	chr3:46622600-46626800	Weak transcription	Gastric	stomach
5	chr3:46622600-46626800	Weak transcription	Rectal Mucosa Donor 29	rectum
6	chr3:46622600-46626800	Weak transcription	Rectal Mucosa Donor 31	rectum
7	chr3:46622800-46627200	Strong transcription	H1 Cell Line	embryonic stem cell
8	chr3:46622800-46627400	Strong transcription	HUES64 Cell Line	embryonic stem cell
9	chr3:46623000-46627800	Strong transcription	HUES6 Cell Line	embryonic stem cell
10	chr3:46623400-46627800	Strong transcription	HUES48 Cell Line	embryonic stem cell
11	chr3:46623800-46626800	Enhancers	HepG2	liver
12	chr3:46624000-46627200	Strong transcription	iPS DF 6.9 Cell Line	embryonic stem cell
13	chr3:46624000-46628800	Enhancers	Liver	Liver
14	chr3:46624400-46628000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
15	chr3:46624400-46628800	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
16	chr3:46624600-46627200	Strong transcription	H9 Cell Line	embryonic stem cell
17	chr3:46624600-46627600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr3:46624800-46626600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr3:46625000-46627000	Weak transcription	Fetal Intestine Small	intestine
20	chr3:46625000-46628200	Weak transcription	Thymus	Thymus
21	chr3:46625200-46626800	Weak transcription	Fetal Intestine Large	intestine
22	chr3:46625400-46627800	ZNF genes & repeats	iPS-18 Cell Line	embryonic stem cell
23	chr3:46625400-46628800	Strong transcription	Right Atrium	heart
24	chr3:46625600-46627000	Genic enhancers	iPS-15b Cell Line	embryonic stem cell
25	chr3:46626000-46626600	Strong transcription	ES-I3 Cell Line	embryonic stem cell
26	chr3:46626200-46627000	ZNF genes & repeats	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
27	chr3:46626200-46627000	Genic enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
28	chr3:46626200-46627000	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
29	chr3:46626200-46630200	Enhancers	Dnd41	blood
30	chr3:46626400-46629200	Enhancers	Stomach Mucosa	stomach

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