Variant report

Variant	rs1321934
Chromosome Location	chr10:89495364-89495365
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:89415860..89416916-chr10:89494760..89496408,8	MCF-7	breast:
2	chr10:89456326..89459078-chr10:89495068..89497368,2	K562	blood:
3	chr10:89293453..89294095-chr10:89494935..89495493,2	MCF-7	breast:
4	chr10:89417900..89422022-chr10:89491019..89499459,9	MCF-7	breast:

Variant related genes	Relation type
ENSG00000198682	Chromatin interaction
ENSG00000196566	Chromatin interaction

Extended variants
information (count: 31 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10218936	0.99[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10887752	0.85[AFR][1000 genomes];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11202531	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11202538	0.83[CEU][hapmap]
rs11202555	0.80[AMR][1000 genomes]
rs11202557	0.89[MEX][hapmap]
rs11202564	0.82[ASW][hapmap];0.92[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[LWK][hapmap];0.84[TSI][hapmap];0.88[YRI][hapmap];0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs11816798	0.89[MEX][hapmap]
rs12253113	0.89[MEX][hapmap]
rs12571331	0.81[EUR][1000 genomes]
rs12573160	0.82[CEU][hapmap]
rs12762731	0.89[MEX][hapmap]
rs12771188	0.86[CEU][hapmap]
rs12775017	0.89[MEX][hapmap]
rs12780237	0.89[MEX][hapmap]
rs12781171	0.89[MEX][hapmap]
rs1853167	0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1993845	0.89[MEX][hapmap]
rs2038554	0.84[MEX][hapmap]
rs35388513	0.81[EUR][1000 genomes]
rs35814940	0.81[EUR][1000 genomes]
rs3740278	0.82[AMR][1000 genomes]
rs7068497	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.90[MEX][hapmap];0.88[TSI][hapmap];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7085412	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7481	0.84[MEX][hapmap]
rs7898915	0.95[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.88[YRI][hapmap];0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7901767	0.81[EUR][1000 genomes]
rs7904344	0.89[MEX][hapmap];0.82[AMR][1000 genomes]
rs7908641	0.84[AFR][1000 genomes];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7920778	0.95[MEX][hapmap];0.82[AMR][1000 genomes]
rs9664653	0.89[MEX][hapmap]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs1321934	KIF20B	cis	parietal	SCAN
rs1321934	LIPJ	cis	cerebellum	SCAN

Chromatin state (count:71 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:89460400-89512000	Weak transcription	HSMM	muscle
2	chr10:89463000-89541400	Weak transcription	Rectal Smooth Muscle	rectum
3	chr10:89472400-89503000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr10:89473000-89577200	Weak transcription	Gastric	stomach
5	chr10:89476200-89542400	Weak transcription	Pancreas	Pancrea
6	chr10:89476400-89504800	Weak transcription	Left Ventricle	heart
7	chr10:89477400-89500000	Weak transcription	Pancreatic Islets	Pancreatic Islet
8	chr10:89483200-89503200	Weak transcription	Sigmoid Colon	Sigmoid Colon
9	chr10:89487400-89503200	Weak transcription	Colonic Mucosa	Colon
10	chr10:89488000-89501600	Weak transcription	Rectal Mucosa Donor 31	rectum
11	chr10:89488600-89496600	Weak transcription	Lung	lung
12	chr10:89490000-89499800	Weak transcription	Fetal Intestine Large	intestine
13	chr10:89490000-89503000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr10:89490800-89511400	Weak transcription	Primary B cells from cord blood	blood
15	chr10:89491800-89495600	Genic enhancers	Fetal Adrenal Gland	Adrenal Gland
16	chr10:89493800-89495400	Enhancers	Primary monocytes fromperipheralblood	blood
17	chr10:89493800-89495400	Enhancers	Primary neutrophils fromperipheralblood	blood
18	chr10:89494000-89495600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr10:89494000-89496000	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr10:89494200-89495400	Weak transcription	Osteobl	bone
21	chr10:89494600-89495400	Enhancers	Fetal Lung	lung
22	chr10:89494800-89495400	Enhancers	Brain Hippocampus Middle	brain
23	chr10:89494800-89503000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
24	chr10:89495000-89499200	Weak transcription	NHLF	lung
25	chr10:89495000-89499400	Weak transcription	NHDF-Ad	bronchial
26	chr10:89495000-89503000	Weak transcription	Fetal Muscle Trunk	muscle
27	chr10:89495000-89512200	Weak transcription	Colon Smooth Muscle	Colon
28	chr10:89495000-89514000	Weak transcription	Skeletal Muscle Female	skeletal muscle
29	chr10:89495000-89541400	Weak transcription	Right Ventricle	heart
30	chr10:89495000-89576400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
31	chr10:89495200-89495400	Enhancers	ES-I3 Cell Line	embryonic stem cell
32	chr10:89495200-89495400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
33	chr10:89495200-89495600	Enhancers	HUES6 Cell Line	embryonic stem cell
34	chr10:89495200-89496400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
35	chr10:89495200-89496600	Weak transcription	Liver	Liver
36	chr10:89495200-89496600	Weak transcription	Rectal Mucosa Donor 29	rectum
37	chr10:89495200-89497200	Strong transcription	NH-A	brain
38	chr10:89495200-89498400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
39	chr10:89495200-89499000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
40	chr10:89495200-89499000	Weak transcription	Monocytes-CD14+_RO01746	blood
41	chr10:89495200-89499200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
42	chr10:89495200-89499400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
43	chr10:89495200-89499400	Weak transcription	Hela-S3	cervix
44	chr10:89495200-89499600	Weak transcription	Adipose Nuclei	Adipose
45	chr10:89495200-89499800	Weak transcription	Muscle Satellite Cultured Cells	--
46	chr10:89495200-89499800	Weak transcription	A549	lung
47	chr10:89495200-89500000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
48	chr10:89495200-89501000	Weak transcription	Fetal Intestine Small	intestine
49	chr10:89495200-89501400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
50	chr10:89495200-89502400	Weak transcription	Ovary	ovary

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