Variant report

Variant	rs9875301
Chromosome Location	chr3:99604642-99604643
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:99596053..99600789-chr3:99601531..99605674,5	MCF-7	breast:
2	chr3:99603110..99605515-chr3:99787025..99789865,2	MCF-7	breast:
3	chr3:99603421..99605877-chr3:99613161..99615005,2	MCF-7	breast:
4	chr3:99599836..99602681-chr3:99604247..99606316,2	K562	blood:
5	chr3:99602517..99605057-chr7:140621979..140624575,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000157764	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]
rs9810553	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]
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:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:99595400-99608400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
2	chr3:99595600-99607400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
3	chr3:99595600-99612800	Weak transcription	Fetal Muscle Trunk	muscle
4	chr3:99596600-99614200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr3:99597200-99614200	Weak transcription	HMEC	breast
6	chr3:99600800-99638600	Weak transcription	Left Ventricle	heart
7	chr3:99601800-99604800	Weak transcription	Skeletal Muscle Female	skeletal muscle
8	chr3:99602000-99605400	Enhancers	HepG2	liver
9	chr3:99602600-99604800	Enhancers	Fetal Intestine Large	intestine
10	chr3:99602600-99605000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr3:99603000-99605400	Enhancers	Stomach Mucosa	stomach
12	chr3:99603400-99604800	Enhancers	Sigmoid Colon	Sigmoid Colon
13	chr3:99603400-99605000	Enhancers	HUES6 Cell Line	embryonic stem cell
14	chr3:99603400-99605400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
15	chr3:99603400-99609400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
16	chr3:99603600-99611200	Weak transcription	Psoas Muscle	Psoas
17	chr3:99603800-99605200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr3:99604000-99612600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
19	chr3:99604000-99613200	Weak transcription	Primary hematopoietic stem cells	blood
20	chr3:99604000-99614400	Weak transcription	Primary T helper cells PMA-I stimulated	--
21	chr3:99604400-99604800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
22	chr3:99604400-99605000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
23	chr3:99604400-99609000	Weak transcription	HUES64 Cell Line	embryonic stem cell
24	chr3:99604400-99614000	Weak transcription	HUVEC	blood vessel
25	chr3:99604600-99604800	Enhancers	K562	blood
26	chr3:99604600-99605200	Enhancers	HUES48 Cell Line	embryonic stem cell
27	chr3:99604600-99648200	Weak transcription	Primary T cells from cord blood	blood

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