Variant report

Variant	rs3828512
Chromosome Location	chr4:144316760-144316761
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:5)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:5 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr4:144315927..144318308-chr4:144352192..144353716,2	K562	blood:
2	chr4:144279896..144282516-chr4:144316177..144318703,2	K562	blood:
3	chr4:144270926..144272635-chr4:144316602..144319536,2	K562	blood:
4	chr4:144316084..144318311-chr4:144327317..144330224,3	K562	blood:
5	chr4:144105239..144107122-chr4:144315713..144318669,2	MCF-7	breast:

(count:1 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SMARCA5-7	chr4:144315970-144316873	NONHSAT098555

No data

Variant related genes	Relation type
ENSG00000228981	Chromatin interaction
ENSG00000170185	Chromatin interaction
ENSG00000250326	Chromatin interaction

Extended variants
information (count: 67 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:67)

rs_ID	r²[population]
rs10013047	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1027851	0.91[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1027852	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10519691	0.82[CHB][hapmap];0.84[JPT][hapmap]
rs11100786	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11100787	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11100788	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11100789	0.85[ASN][1000 genomes]
rs11730569	0.95[ASN][1000 genomes]
rs11945731	0.85[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs12647531	0.95[ASN][1000 genomes]
rs12649592	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13101346	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13123498	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1397526	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs1397527	0.83[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs1397528	1.00[CHB][hapmap];0.84[JPT][hapmap];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1472873	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs1510879	0.85[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs1510880	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1866756	0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2048408	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2055730	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs2119270	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2196908	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2196909	0.86[CEU][hapmap];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs300890	0.84[JPT][hapmap]
rs300893	0.84[JPT][hapmap]
rs300894	0.84[JPT][hapmap]
rs300895	0.84[JPT][hapmap]
rs300904	0.84[JPT][hapmap]
rs300905	0.84[JPT][hapmap]
rs300910	0.85[ASN][1000 genomes]
rs300911	0.84[CHB][hapmap];0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs300912	0.89[CHB][hapmap];0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs300913	0.89[CHB][hapmap];0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs300914	0.94[JPT][hapmap];0.83[ASN][1000 genomes]
rs300915	0.89[CHB][hapmap];0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs300916	0.89[CHB][hapmap];0.81[JPT][hapmap];0.80[ASN][1000 genomes]
rs300917	0.89[CHB][hapmap];0.95[JPT][hapmap]
rs300919	0.84[JPT][hapmap]
rs34095331	0.89[ASN][1000 genomes]
rs34439737	0.92[ASN][1000 genomes]
rs3792652	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3792653	0.84[CEU][hapmap];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3792655	0.95[ASN][1000 genomes]
rs3805238	1.00[CHB][hapmap];0.89[JPT][hapmap];0.88[ASN][1000 genomes]
rs3805245	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3805246	0.95[ASN][1000 genomes]
rs3805247	0.89[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3805249	0.94[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs3805251	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3805252	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3805253	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3805254	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs3805256	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3805257	0.89[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs3828513	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs3828514	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs55758499	0.95[ASN][1000 genomes]
rs55894236	0.95[ASN][1000 genomes]
rs6537154	0.95[ASN][1000 genomes]
rs6537155	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs713140	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs719392	0.84[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7680959	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs906571	0.95[ASN][1000 genomes]

No data

Chromatin state (count:81 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:144303000-144318000	Weak transcription	HSMM	muscle
2	chr4:144303200-144317800	Weak transcription	Gastric	stomach
3	chr4:144303400-144326600	Weak transcription	Colonic Mucosa	Colon
4	chr4:144304200-144320000	Weak transcription	Rectal Mucosa Donor 29	rectum
5	chr4:144304600-144317000	Weak transcription	K562	blood
6	chr4:144306600-144318000	Weak transcription	Aorta	Aorta
7	chr4:144307400-144323600	Enhancers	Brain Hippocampus Middle	brain
8	chr4:144308800-144319400	Enhancers	Brain Cingulate Gyrus	brain
9	chr4:144309200-144317000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr4:144309200-144327600	Weak transcription	Esophagus	oesophagus
11	chr4:144310200-144317000	Weak transcription	Left Ventricle	heart
12	chr4:144310200-144325600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr4:144310800-144317600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr4:144311200-144320400	Weak transcription	Stomach Mucosa	stomach
15	chr4:144311400-144320000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr4:144311600-144321600	Enhancers	Brain Angular Gyrus	brain
17	chr4:144312200-144317000	Weak transcription	Right Atrium	heart
18	chr4:144312200-144317000	Weak transcription	Sigmoid Colon	Sigmoid Colon
19	chr4:144312200-144317200	Weak transcription	Pancreas	Pancrea
20	chr4:144312200-144321000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
21	chr4:144312400-144319000	Weak transcription	Rectal Mucosa Donor 31	rectum
22	chr4:144312400-144323600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
23	chr4:144312600-144323800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr4:144312600-144326400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
25	chr4:144312600-144328600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr4:144312800-144317000	Weak transcription	Fetal Intestine Large	intestine
27	chr4:144312800-144317600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
28	chr4:144312800-144317600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
29	chr4:144312800-144324000	Weak transcription	Fetal Intestine Small	intestine
30	chr4:144312800-144331400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
31	chr4:144312800-144336800	Weak transcription	Fetal Muscle Trunk	muscle
32	chr4:144313000-144319200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
33	chr4:144313000-144320200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
34	chr4:144313000-144323800	Weak transcription	Fetal Muscle Leg	muscle
35	chr4:144313200-144318000	Weak transcription	NH-A	brain
36	chr4:144313200-144319000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
37	chr4:144313200-144319200	Weak transcription	HUES64 Cell Line	embryonic stem cell
38	chr4:144313200-144320400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
39	chr4:144313400-144320400	Weak transcription	Duodenum Mucosa	Duodenum
40	chr4:144313400-144323000	Weak transcription	Pancreatic Islets	Pancreatic Islet
41	chr4:144313400-144323400	Weak transcription	Fetal Brain Female	brain
42	chr4:144313400-144323600	Weak transcription	Primary hematopoietic stem cells	blood
43	chr4:144313400-144324000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
44	chr4:144313600-144317600	Weak transcription	Muscle Satellite Cultured Cells	--
45	chr4:144313600-144319600	Enhancers	Skeletal Muscle Male	skeletal muscle
46	chr4:144313800-144317000	Weak transcription	Fetal Stomach	stomach
47	chr4:144313800-144317600	Weak transcription	Osteobl	bone
48	chr4:144313800-144318400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
49	chr4:144313800-144320400	Weak transcription	Cortex derived primary cultured neurospheres	brain
50	chr4:144313800-144323400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

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