Variant report

Variant	rs2485401
Chromosome Location	chr1:165512845-165512846
allele	A/G
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	NFIC	chr1:165512557-165513530	ECC-1	luminal epithelium:	n/a	n/a
2	E2F6	chr1:165512812-165513462	H1-hESC	embryonic stem cell:	n/a	n/a
3	MAX	chr1:165512824-165513487	H1-hESC	embryonic stem cell:	n/a	n/a

Variant related genes	Relation type
LRRC52	TF binding region
ENSG00000237463	TF binding region

Extended variants
information (count: 57 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs10494445	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs1326375	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];0.85[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1648111	1.00[CEU][hapmap];0.90[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs166949	0.89[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];0.91[YRI][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs16846405	1.00[CEU][hapmap]
rs16846549	0.81[AMR][1000 genomes]
rs16846612	1.00[CEU][hapmap];1.00[MEX][hapmap];0.81[AMR][1000 genomes]
rs16846621	1.00[CEU][hapmap];0.81[AMR][1000 genomes]
rs16847312	1.00[CEU][hapmap]
rs184038	0.89[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs184039	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs191746	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs192586	1.00[CEU][hapmap];0.91[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs192587	1.00[CEU][hapmap];0.91[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2254880	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2433131	1.00[CEU][hapmap];0.91[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2433132	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2459240	1.00[CEU][hapmap];0.90[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2485399	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2485400	1.00[CEU][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2485408	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs285423	1.00[CEU][hapmap];0.90[GIH][hapmap];0.90[TSI][hapmap];0.95[EUR][1000 genomes]
rs285424	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs285433	1.00[CEU][hapmap];0.91[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs285434	1.00[CEU][hapmap];0.91[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs285436	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs285437	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs285440	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs285441	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs285442	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs285443	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs285444	1.00[CEU][hapmap]
rs285445	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs285446	1.00[CEU][hapmap];1.00[GIH][hapmap];0.80[LWK][hapmap];1.00[MEX][hapmap];0.91[MKK][hapmap];1.00[TSI][hapmap]
rs285447	0.89[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.91[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs285449	1.00[CEU][hapmap];0.91[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs285450	1.00[CEU][hapmap];0.91[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs285451	1.00[CEU][hapmap];0.91[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs285452	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs285453	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs285454	1.00[CEU][hapmap];0.95[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs366124	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs369231	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs375780	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs385649	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs386186	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs390395	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs404612	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs415710	0.82[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs421361	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs424313	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6426916	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6659141	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6666562	1.00[CEU][hapmap]
rs74118810	0.81[AMR][1000 genomes]
rs74120729	0.81[AMR][1000 genomes]
rs796570	1.00[CEU][hapmap];0.91[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

No data

Chromatin state (count:47 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:165505600-165513000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr1:165510200-165513000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
3	chr1:165510400-165513000	Weak transcription	Brain Inferior Temporal Lobe	brain
4	chr1:165510600-165513000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr1:165511400-165513800	Enhancers	Fetal Lung	lung
6	chr1:165511400-165514200	Enhancers	Fetal Heart	heart
7	chr1:165511800-165513000	Enhancers	Fetal Stomach	stomach
8	chr1:165512400-165513000	Enhancers	Pancreatic Islets	Pancreatic Islet
9	chr1:165512400-165513200	Enhancers	H1 Cell Line	embryonic stem cell
10	chr1:165512400-165513400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr1:165512600-165513000	Enhancers	HUES64 Cell Line	embryonic stem cell
12	chr1:165512600-165514000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
13	chr1:165512800-165513000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
14	chr1:165512800-165513000	Enhancers	iPS-20b Cell Line	embryonic stem cell
15	chr1:165512800-165513000	Enhancers	Adipose Nuclei	Adipose
16	chr1:165512800-165513000	Enhancers	Brain Anterior Caudate	brain
17	chr1:165512800-165513000	Enhancers	Fetal Kidney	kidney
18	chr1:165512800-165513200	Enhancers	H9 Cell Line	embryonic stem cell
19	chr1:165512800-165513200	Enhancers	iPS-18 Cell Line	embryonic stem cell
20	chr1:165512800-165513200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
21	chr1:165512800-165513200	Enhancers	Duodenum Smooth Muscle	Duodenum
22	chr1:165512800-165513200	Enhancers	Gastric	stomach
23	chr1:165512800-165513200	Enhancers	Ovary	ovary
24	chr1:165512800-165513600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
25	chr1:165512800-165513600	Bivalent Enhancer	HUES48 Cell Line	embryonic stem cell
26	chr1:165512800-165513600	Enhancers	Brain Germinal Matrix	brain
27	chr1:165512800-165513600	Enhancers	Fetal Brain Male	brain
28	chr1:165512800-165513600	Enhancers	Fetal Muscle Trunk	muscle
29	chr1:165512800-165513600	Enhancers	Fetal Muscle Leg	muscle
30	chr1:165512800-165513800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
31	chr1:165512800-165513800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
32	chr1:165512800-165513800	Enhancers	Brain Cingulate Gyrus	brain
33	chr1:165512800-165513800	Enhancers	Brain Hippocampus Middle	brain
34	chr1:165512800-165513800	Enhancers	Brain Substantia Nigra	brain
35	chr1:165512800-165513800	Enhancers	Pancreas	Pancrea
36	chr1:165512800-165513800	Enhancers	Psoas Muscle	Psoas
37	chr1:165512800-165514000	Bivalent Enhancer	ES-I3 Cell Line	embryonic stem cell
38	chr1:165512800-165514000	Bivalent Enhancer	HUES6 Cell Line	embryonic stem cell
39	chr1:165512800-165514000	Enhancers	Cortex derived primary cultured neurospheres	brain
40	chr1:165512800-165514000	Enhancers	Placenta	Placenta
41	chr1:165512800-165514000	Enhancers	Right Atrium	heart
42	chr1:165512800-165514200	Bivalent Enhancer	iPS-15b Cell Line	embryonic stem cell
43	chr1:165512800-165514200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
44	chr1:165512800-165514200	Enhancers	Left Ventricle	heart
45	chr1:165512800-165514200	Enhancers	Right Ventricle	heart
46	chr1:165512800-165514200	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
47	chr1:165512800-165514400	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle

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