Variant report

Variant	rs9810553
Chromosome Location	chr3:99613522-99613523
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:99603421..99605877-chr3:99613161..99615005,2	MCF-7	breast:
2	chr3:99593619..99595201-chr3:99613248..99616084,2	K562	blood:
3	chr3:99609266..99611636-chr3:99613275..99615005,3	K562	blood:
4	chr3:99613503..99616492-chr3:99619175..99621373,2	K562	blood:
5	chr3:99601088..99603478-chr3:99611897..99614954,3	MCF-7	breast:
6	chr3:99595319..99596945-chr3:99612997..99615307,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000168386	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs12330310	1.00[AFR][1000 genomes]
rs13315221	1.00[AFR][1000 genomes]
rs13323384	1.00[AFR][1000 genomes]
rs13327351	0.83[AFR][1000 genomes]
rs13353487	1.00[AFR][1000 genomes]
rs16841800	1.00[AFR][1000 genomes]
rs16841824	1.00[AFR][1000 genomes]
rs16841828	0.83[AFR][1000 genomes]
rs16841836	1.00[AFR][1000 genomes]
rs16846956	0.83[AFR][1000 genomes]
rs28368726	1.00[AFR][1000 genomes]
rs28411225	0.83[AFR][1000 genomes]
rs28463921	1.00[AFR][1000 genomes]
rs28508384	1.00[AFR][1000 genomes]
rs28728176	0.83[AFR][1000 genomes]
rs28816814	1.00[AFR][1000 genomes]
rs9809706	1.00[AFR][1000 genomes]
rs9816232	1.00[AFR][1000 genomes]
rs9820799	1.00[AFR][1000 genomes]
rs9824229	1.00[AFR][1000 genomes]
rs9825382	1.00[AFR][1000 genomes]
rs9825938	1.00[AFR][1000 genomes]
rs9828782	1.00[AFR][1000 genomes]
rs9830038	0.83[AFR][1000 genomes]
rs9831706	0.83[AFR][1000 genomes]
rs9833005	0.83[AFR][1000 genomes]
rs9835048	1.00[AFR][1000 genomes]
rs9837028	1.00[AFR][1000 genomes]
rs9837204	1.00[AFR][1000 genomes]
rs9837555	1.00[AFR][1000 genomes]
rs9841053	1.00[AFR][1000 genomes]
rs9841758	1.00[AFR][1000 genomes]
rs9843919	1.00[AFR][1000 genomes]
rs9844578	1.00[AFR][1000 genomes]
rs9844595	1.00[AFR][1000 genomes]
rs9849336	1.00[AFR][1000 genomes]
rs9849373	1.00[AFR][1000 genomes]
rs9851406	1.00[AFR][1000 genomes]
rs9851985	0.83[AFR][1000 genomes]
rs9852857	1.00[AFR][1000 genomes]
rs9860986	1.00[AFR][1000 genomes]
rs9862370	1.00[AFR][1000 genomes]
rs9868303	1.00[AFR][1000 genomes]
rs9870153	0.83[AFR][1000 genomes]
rs9871500	1.00[AFR][1000 genomes]
rs9875301	1.00[AFR][1000 genomes]
rs9883235	1.00[AFR][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	nsv817478	chr3:99474086-99955548	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv916476	chr3:99478229-100124625	Active TSS Weak transcription Flanking Active TSS Strong transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 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	chr3:99596600-99614200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr3:99597200-99614200	Weak transcription	HMEC	breast
3	chr3:99600800-99638600	Weak transcription	Left Ventricle	heart
4	chr3:99604000-99614400	Weak transcription	Primary T helper cells PMA-I stimulated	--
5	chr3:99604400-99614000	Weak transcription	HUVEC	blood vessel
6	chr3:99604600-99648200	Weak transcription	Primary T cells from cord blood	blood
7	chr3:99605000-99613600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr3:99605000-99614600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr3:99605200-99613800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr3:99610200-99613600	Weak transcription	HUES48 Cell Line	embryonic stem cell
11	chr3:99610200-99613800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr3:99610200-99614200	Weak transcription	HUES64 Cell Line	embryonic stem cell
13	chr3:99610200-99614400	Weak transcription	HUES6 Cell Line	embryonic stem cell
14	chr3:99610200-99614600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
15	chr3:99610200-99614600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
16	chr3:99610200-99614600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
17	chr3:99611200-99613800	Weak transcription	HSMM	muscle
18	chr3:99611400-99613800	Weak transcription	NHDF-Ad	bronchial
19	chr3:99611600-99614000	Weak transcription	NHLF	lung
20	chr3:99611600-99614200	Weak transcription	Psoas Muscle	Psoas
21	chr3:99611600-99614400	Weak transcription	HepG2	liver
22	chr3:99611600-99614600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
23	chr3:99612600-99614600	Enhancers	Primary hematopoietic stem cells short term culture	blood
24	chr3:99612800-99615000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
25	chr3:99613000-99616000	Enhancers	Primary B cells from cord blood	blood
26	chr3:99613200-99614800	Weak transcription	GM12878-XiMat	blood
27	chr3:99613200-99615400	Enhancers	Primary hematopoietic stem cells	blood
28	chr3:99613200-99615600	Enhancers	Primary B cells from peripheral blood	blood
29	chr3:99613400-99614200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
30	chr3:99613400-99616400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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