Variant report

Variant	rs9858844
Chromosome Location	chr3:112352406-112352407
allele	A/C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:112338141..112343361-chr3:112351475..112354709,4	MCF-7	breast:
2	chr3:112344415..112347197-chr3:112350553..112352868,2	K562	blood:
3	chr3:112350080..112353120-chr3:112708595..112712214,3	K562	blood:
4	chr3:112346448..112348470-chr3:112351397..112354527,3	K562	blood:
5	chr3:112346979..112353983-chr3:112357134..112359925,9	K562	blood:

Variant related genes	Relation type
ENSG00000163607	Chromatin interaction
ENSG00000091986	Chromatin interaction
ENSG00000272844	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs13084615	0.92[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16859847	0.86[JPT][hapmap]
rs16859875	0.91[CEU][hapmap];0.88[EUR][1000 genomes]
rs17233925	0.84[CEU][hapmap]
rs17233960	0.88[CEU][hapmap]
rs17235583	0.84[CEU][hapmap]
rs3933099	0.86[CEU][hapmap];0.85[CHB][hapmap];0.86[JPT][hapmap]
rs6438085	0.80[CEU][hapmap];0.88[EUR][1000 genomes]
rs6774572	0.91[CEU][hapmap];0.88[EUR][1000 genomes]
rs6774776	0.82[CEU][hapmap];0.88[EUR][1000 genomes]
rs6789723	0.81[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs73214207	0.88[EUR][1000 genomes]
rs73231362	0.88[EUR][1000 genomes]
rs73231368	0.88[EUR][1000 genomes]
rs73231371	0.88[EUR][1000 genomes]
rs7636528	0.92[CEU][hapmap];0.88[EUR][1000 genomes]
rs9288956	0.86[CEU][hapmap];0.85[CHB][hapmap];0.86[JPT][hapmap];0.97[YRI][hapmap];0.98[AFR][1000 genomes]
rs981181	0.92[CEU][hapmap];0.84[CHB][hapmap];0.85[JPT][hapmap];0.96[YRI][hapmap];0.98[AFR][1000 genomes]
rs9855853	0.85[CEU][hapmap];0.83[CHB][hapmap];0.92[JPT][hapmap];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[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	esv3329419	chr3:112236688-112620544	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:72 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:112331400-112354800	Weak transcription	Psoas Muscle	Psoas
2	chr3:112336600-112355800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr3:112342600-112359600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr3:112343400-112358000	Weak transcription	Pancreas	Pancrea
5	chr3:112345000-112353800	Enhancers	Cortex derived primary cultured neurospheres	brain
6	chr3:112345200-112359400	Weak transcription	Esophagus	oesophagus
7	chr3:112346400-112354000	Weak transcription	Fetal Heart	heart
8	chr3:112346600-112353800	Weak transcription	Aorta	Aorta
9	chr3:112347800-112353200	Weak transcription	Pancreatic Islets	Pancreatic Islet
10	chr3:112348000-112353200	Enhancers	Rectal Smooth Muscle	rectum
11	chr3:112348200-112358400	Transcr. at gene 5' and 3'	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
12	chr3:112348600-112357200	Transcr. at gene 5' and 3'	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr3:112348800-112353800	Weak transcription	GM12878-XiMat	blood
14	chr3:112348800-112358400	Weak transcription	Hela-S3	cervix
15	chr3:112349000-112354400	Enhancers	A549	lung
16	chr3:112349200-112354400	Weak transcription	Fetal Muscle Leg	muscle
17	chr3:112350000-112353200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr3:112350000-112353600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr3:112350000-112354400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
20	chr3:112350000-112354600	Enhancers	H1 Cell Line	embryonic stem cell
21	chr3:112350000-112354600	Enhancers	HUES6 Cell Line	embryonic stem cell
22	chr3:112350000-112354600	Enhancers	iPS-18 Cell Line	embryonic stem cell
23	chr3:112350200-112354400	Flanking Active TSS	NHDF-Ad	bronchial
24	chr3:112351200-112352800	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
25	chr3:112351200-112353000	Flanking Active TSS	NHLF	lung
26	chr3:112351200-112353800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
27	chr3:112351200-112354000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
28	chr3:112351200-112355600	Enhancers	Fetal Kidney	kidney
29	chr3:112351400-112352600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
30	chr3:112351400-112353000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr3:112351400-112353000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
32	chr3:112351400-112353000	Enhancers	HUVEC	blood vessel
33	chr3:112351400-112354000	Enhancers	Fetal Lung	lung
34	chr3:112351400-112354200	Enhancers	Fetal Stomach	stomach
35	chr3:112351400-112355000	Flanking Active TSS	Adipose Nuclei	Adipose
36	chr3:112351400-112358600	Transcr. at gene 5' and 3'	Osteobl	bone
37	chr3:112351600-112352600	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
38	chr3:112351600-112352600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
39	chr3:112351600-112352600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
40	chr3:112351600-112352600	Flanking Active TSS	Stomach Smooth Muscle	stomach
41	chr3:112351600-112352600	Flanking Active TSS	NH-A	brain
42	chr3:112351600-112352800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
43	chr3:112351600-112352800	Enhancers	Ovary	ovary
44	chr3:112351600-112353400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
45	chr3:112351600-112354200	Enhancers	H9 Cell Line	embryonic stem cell
46	chr3:112351800-112352600	Enhancers	HMEC	breast
47	chr3:112351800-112352800	Enhancers	NHEK	skin
48	chr3:112351800-112354000	Enhancers	ES-WA7 Cell Line	embryonic stem cell
49	chr3:112351800-112354200	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
50	chr3:112351800-112354800	Enhancers	iPS-15b Cell Line	embryonic stem cell

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