Variant report

Variant	rs12411984
Chromosome Location	chr10:27392973-27392974
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:27389620..27391351-chr10:27392502..27395276,2	MCF-7	breast:
2	chr10:27387641..27389495-chr10:27392433..27394066,2	K562	blood:
3	chr10:27392451..27395279-chr10:27423684..27425871,2	K562	blood:

Variant related genes	Relation type
ENSG00000107890	Chromatin interaction
ENSG00000136758	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs11015546	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12414273	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12415376	1.00[AFR][1000 genomes]
rs12569491	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12569598	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12570662	1.00[AFR][1000 genomes]
rs12571529	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12572302	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12572325	1.00[AFR][1000 genomes]
rs12572707	0.87[ASN][1000 genomes]
rs12572862	1.00[AFR][1000 genomes]
rs12573268	0.90[ASN][1000 genomes]
rs1329993	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2297144	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs28365962	0.89[ASN][1000 genomes]
rs3758404	0.86[ASN][1000 genomes]
rs3780924	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs3780925	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3781101	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3781102	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3802526	0.87[ASN][1000 genomes]
rs3818633	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3824592	0.89[ASN][1000 genomes]
rs3824690	1.00[AFR][1000 genomes]
rs4747586	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4749222	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4749227	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4749229	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4749234	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73598035	0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3364452	chr10:27385286-27395686	Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
2	esv3369347	chr10:27385331-27395478	Weak transcription Active TSS Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:27389800-27399600	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr10:27389800-27441200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr10:27390000-27393800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr10:27390000-27393800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr10:27390000-27393800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr10:27390000-27393800	Weak transcription	Primary hematopoietic stem cells	blood
7	chr10:27390000-27393800	Weak transcription	Brain Germinal Matrix	brain
8	chr10:27390000-27393800	Weak transcription	Fetal Intestine Small	intestine
9	chr10:27390000-27393800	Weak transcription	Fetal Stomach	stomach
10	chr10:27390000-27394000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr10:27390000-27394000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr10:27390000-27394000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr10:27390000-27394000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr10:27390000-27394000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
15	chr10:27390000-27396200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr10:27390000-27396200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr10:27390000-27396600	Weak transcription	H1 Cell Line	embryonic stem cell
18	chr10:27390000-27396600	Weak transcription	Fetal Lung	lung
19	chr10:27390000-27396800	Weak transcription	Fetal Intestine Large	intestine
20	chr10:27390000-27396800	Weak transcription	Fetal Kidney	kidney
21	chr10:27390000-27396800	Weak transcription	A549	lung
22	chr10:27390000-27397000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
23	chr10:27390000-27398400	Weak transcription	HUES64 Cell Line	embryonic stem cell
24	chr10:27390000-27398600	Weak transcription	HUES48 Cell Line	embryonic stem cell
25	chr10:27390000-27398800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
26	chr10:27390000-27399200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
27	chr10:27390000-27400200	Weak transcription	H9 Cell Line	embryonic stem cell
28	chr10:27390000-27400200	Weak transcription	HMEC	breast
29	chr10:27390000-27400600	Weak transcription	NHLF	lung
30	chr10:27390000-27401200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
31	chr10:27390000-27406400	Weak transcription	Small Intestine	intestine
32	chr10:27390000-27408000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
33	chr10:27390000-27442000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
34	chr10:27390200-27393800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
35	chr10:27390200-27393800	Weak transcription	HSMM	muscle
36	chr10:27390200-27394000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
37	chr10:27390200-27394000	Weak transcription	Liver	Liver
38	chr10:27390200-27394200	Weak transcription	Osteobl	bone
39	chr10:27390200-27396000	Weak transcription	Fetal Muscle Leg	muscle
40	chr10:27390200-27396200	Weak transcription	Cortex derived primary cultured neurospheres	brain
41	chr10:27390200-27396600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
42	chr10:27390200-27396800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
43	chr10:27390200-27396800	Weak transcription	Left Ventricle	heart
44	chr10:27390200-27396800	Weak transcription	Ovary	ovary
45	chr10:27390200-27396800	Weak transcription	NH-A	brain
46	chr10:27390200-27397000	Weak transcription	HUES6 Cell Line	embryonic stem cell
47	chr10:27390200-27398000	Weak transcription	Primary monocytes fromperipheralblood	blood
48	chr10:27390200-27398600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
49	chr10:27390200-27398600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
50	chr10:27390200-27399400	Weak transcription	HUVEC	blood vessel

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