Variant report

Variant	rs9839401
Chromosome Location	chr3:111671018-111671019
allele	C/T
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	chr3:111670966-111671254	Hela-S3	cervix:	n/a	n/a
2	POLR2A	chr3:111670978-111671096	Hela-S3	cervix:	n/a	n/a

Variant related genes	Relation type
PHLDB2	TF binding region

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs1027566	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10934126	0.89[EUR][1000 genomes]
rs1282946	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1282963	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1282964	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1282965	0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1388629	0.84[EUR][1000 genomes]
rs16858948	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2399399	0.93[EUR][1000 genomes]
rs2895387	0.93[EUR][1000 genomes]
rs34186517	0.82[EUR][1000 genomes]
rs4234406	0.93[EUR][1000 genomes]
rs4682065	0.93[EUR][1000 genomes]
rs493456	0.84[ASN][1000 genomes]
rs579082	0.80[ASN][1000 genomes]
rs6438024	0.84[ASN][1000 genomes]
rs6779756	0.93[EUR][1000 genomes]
rs6804475	0.84[ASN][1000 genomes]
rs712508	0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs712514	0.82[ASN][1000 genomes]
rs712518	0.84[ASN][1000 genomes]
rs7630129	0.85[EUR][1000 genomes]
rs766745	0.84[ASN][1000 genomes]
rs811814	0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs937551	0.93[EUR][1000 genomes]
rs951660	0.93[EUR][1000 genomes]
rs9834695	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]

No data

Chromatin state (count:77 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:111631000-111672000	Weak transcription	Fetal Intestine Small	intestine
2	chr3:111631000-111673400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
3	chr3:111637200-111690600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr3:111639200-111675400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
5	chr3:111642200-111674400	Weak transcription	Lung	lung
6	chr3:111642200-111690400	Weak transcription	Spleen	Spleen
7	chr3:111645400-111689600	Weak transcription	Skeletal Muscle Female	skeletal muscle
8	chr3:111648600-111674800	Weak transcription	Psoas Muscle	Psoas
9	chr3:111652400-111685800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
10	chr3:111653000-111686200	Weak transcription	Rectal Mucosa Donor 31	rectum
11	chr3:111654400-111695000	Strong transcription	Placenta	Placenta
12	chr3:111656600-111672000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
13	chr3:111656600-111673200	Weak transcription	Stomach Mucosa	stomach
14	chr3:111656600-111674600	Weak transcription	Sigmoid Colon	Sigmoid Colon
15	chr3:111656600-111679200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr3:111657200-111672600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr3:111657200-111682000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
18	chr3:111657400-111673000	Strong transcription	Osteobl	bone
19	chr3:111657800-111674600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr3:111658000-111673000	Strong transcription	Adipose Nuclei	Adipose
21	chr3:111658000-111673200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr3:111658600-111697400	Weak transcription	Gastric	stomach
23	chr3:111658800-111672600	Weak transcription	Fetal Kidney	kidney
24	chr3:111658800-111685800	Weak transcription	HepG2	liver
25	chr3:111660200-111671600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chr3:111660400-111672400	Weak transcription	HUES48 Cell Line	embryonic stem cell
27	chr3:111660600-111672400	Weak transcription	HUES6 Cell Line	embryonic stem cell
28	chr3:111660800-111672000	Weak transcription	Fetal Intestine Large	intestine
29	chr3:111661000-111676000	Weak transcription	Duodenum Mucosa	Duodenum
30	chr3:111661400-111671800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
31	chr3:111661600-111689800	Weak transcription	Ovary	ovary
32	chr3:111662000-111672600	Weak transcription	Aorta	Aorta
33	chr3:111663000-111672200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
34	chr3:111663000-111681400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
35	chr3:111663200-111671800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
36	chr3:111663200-111675200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
37	chr3:111663400-111671400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
38	chr3:111663800-111671200	Strong transcription	A549	lung
39	chr3:111663800-111681200	Strong transcription	NHEK	skin
40	chr3:111664000-111673400	Strong transcription	HMEC	breast
41	chr3:111664600-111672600	Weak transcription	HUES64 Cell Line	embryonic stem cell
42	chr3:111664800-111672400	Weak transcription	Right Ventricle	heart
43	chr3:111665800-111675400	Weak transcription	Right Atrium	heart
44	chr3:111666000-111672400	Weak transcription	Rectal Smooth Muscle	rectum
45	chr3:111666600-111675200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
46	chr3:111666600-111697400	Weak transcription	Esophagus	oesophagus
47	chr3:111666800-111671600	Weak transcription	NHDF-Ad	bronchial
48	chr3:111667000-111675400	Strong transcription	HSMM	muscle
49	chr3:111667200-111675200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
50	chr3:111667800-111672400	Weak transcription	H9 Cell Line	embryonic stem cell

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