Variant report

Variant	rs7646392
Chromosome Location	chr3:133699575-133699576
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:133696142..133700134-chr3:133702355..133707029,6	MCF-7	breast:
2	chr3:133696346..133698164-chr3:133698551..133700077,2	MCF-7	breast:

Extended variants
information (count: 16 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10049358	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10049385	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12695600	0.82[CEU][hapmap]
rs4327389	0.81[ASW][hapmap];1.00[CEU][hapmap];0.94[CHB][hapmap];0.97[CHD][hapmap];0.87[GIH][hapmap];0.94[JPT][hapmap];0.91[MEX][hapmap];0.90[MKK][hapmap];0.97[TSI][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4367057	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4549269	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4552342	0.94[ASN][1000 genomes]
rs4854777	0.82[CEU][hapmap]
rs5013525	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.95[YRI][hapmap];0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62272000	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6795110	0.95[CHB][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs71639008	0.93[ASN][1000 genomes]
rs7646298	0.92[CEU][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs7646473	0.87[ASW][hapmap];0.92[CEU][hapmap];0.90[MKK][hapmap];0.82[YRI][hapmap];0.82[AFR][1000 genomes]
rs9809190	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9870647	0.93[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7646392	TF	cis	cerebellum	SCAN

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:133664000-133705400	Weak transcription	Fetal Intestine Small	intestine
2	chr3:133664800-133713000	Weak transcription	Gastric	stomach
3	chr3:133688000-133710800	Weak transcription	Fetal Lung	lung
4	chr3:133694600-133703800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr3:133695800-133705400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
6	chr3:133696000-133709400	Weak transcription	Esophagus	oesophagus
7	chr3:133696400-133699800	Enhancers	HUVEC	blood vessel
8	chr3:133696600-133700200	Enhancers	Left Ventricle	heart
9	chr3:133696800-133699600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
10	chr3:133697000-133699800	Enhancers	Spleen	Spleen
11	chr3:133697200-133700200	Weak transcription	Rectal Mucosa Donor 29	rectum
12	chr3:133697600-133700000	Genic enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr3:133698200-133700200	Enhancers	Right Atrium	heart
14	chr3:133698200-133704600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
15	chr3:133698200-133705400	Weak transcription	HUES64 Cell Line	embryonic stem cell
16	chr3:133698400-133699800	Enhancers	Fetal Muscle Leg	muscle
17	chr3:133698400-133704200	Weak transcription	Fetal Stomach	stomach
18	chr3:133698600-133700000	Enhancers	Fetal Muscle Trunk	muscle
19	chr3:133698600-133701600	Weak transcription	Pancreas	Pancrea
20	chr3:133698800-133699800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
21	chr3:133699000-133699600	Weak transcription	Right Ventricle	heart
22	chr3:133699000-133699800	Enhancers	Lung	lung
23	chr3:133699000-133703400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
24	chr3:133699200-133701600	Weak transcription	Fetal Thymus	thymus
25	chr3:133699400-133699800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
26	chr3:133699400-133699800	Enhancers	Adipose Nuclei	Adipose
27	chr3:133699400-133705200	Weak transcription	Stomach Mucosa	stomach

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