Variant report

Variant	rs1325774
Chromosome Location	chr13:96230279-96230280
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs11070136	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.92[LWK][hapmap];1.00[MEX][hapmap];0.91[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11070138	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11617959	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11841022	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11842014	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17268561	0.92[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2031540	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.95[AFR][1000 genomes];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs35588279	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4077046	0.93[AFR][1000 genomes];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7319952	0.93[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.87[MKK][hapmap];0.97[TSI][hapmap];0.89[YRI][hapmap];0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7321014	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7325180	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7328652	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7330801	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7999322	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9302081	0.92[CEU][hapmap];0.94[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.83[MEX][hapmap];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9561900	0.92[CEU][hapmap]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs1325774	UGGT2	cis	parietal	SCAN
rs1325774	CLDN10	cis	cerebellum	SCAN

Chromatin state (count:77 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:96206600-96231000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr13:96212400-96231000	Weak transcription	Fetal Kidney	kidney
3	chr13:96217000-96231200	Weak transcription	Primary hematopoietic stem cells	blood
4	chr13:96217800-96231400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr13:96222600-96231800	Weak transcription	Placenta	Placenta
6	chr13:96222800-96231000	Weak transcription	A549	lung
7	chr13:96223000-96239400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr13:96223800-96234400	Weak transcription	Brain Cingulate Gyrus	brain
9	chr13:96224200-96254200	Weak transcription	Brain Hippocampus Middle	brain
10	chr13:96224400-96231000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr13:96224400-96239200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
12	chr13:96224400-96248000	Weak transcription	Esophagus	oesophagus
13	chr13:96224800-96230600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
14	chr13:96225200-96230600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
15	chr13:96225200-96230800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr13:96225200-96234200	Weak transcription	Brain Anterior Caudate	brain
17	chr13:96225400-96230600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
18	chr13:96225600-96233800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr13:96225800-96239200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr13:96226000-96230800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr13:96226000-96231200	Weak transcription	HUVEC	blood vessel
22	chr13:96226400-96231000	Weak transcription	Fetal Lung	lung
23	chr13:96226600-96230800	Weak transcription	Stomach Smooth Muscle	stomach
24	chr13:96226800-96231000	Weak transcription	Ovary	ovary
25	chr13:96227000-96231000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr13:96227000-96239400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
27	chr13:96227200-96246400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
28	chr13:96227400-96234600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
29	chr13:96227600-96246000	Strong transcription	Osteobl	bone
30	chr13:96227800-96230600	Weak transcription	Fetal Brain Female	brain
31	chr13:96227800-96231200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
32	chr13:96227800-96246400	Strong transcription	Cortex derived primary cultured neurospheres	brain
33	chr13:96227800-96253600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
34	chr13:96228000-96230600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
35	chr13:96228000-96230800	Weak transcription	Brain Germinal Matrix	brain
36	chr13:96228200-96234400	Weak transcription	Aorta	Aorta
37	chr13:96228200-96246400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
38	chr13:96228400-96230800	Weak transcription	Pancreas	Pancrea
39	chr13:96228400-96232000	Strong transcription	NHDF-Ad	bronchial
40	chr13:96228600-96246200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
41	chr13:96228600-96246400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr13:96228600-96246400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
43	chr13:96228600-96246600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
44	chr13:96228800-96235000	Strong transcription	HSMMtube	muscle
45	chr13:96228800-96243200	Strong transcription	NH-A	brain
46	chr13:96228800-96246600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
47	chr13:96229000-96230800	Weak transcription	HepG2	liver
48	chr13:96229000-96232200	Strong transcription	HMEC	breast
49	chr13:96229000-96240200	Strong transcription	Fetal Muscle Leg	muscle
50	chr13:96229000-96243200	Strong transcription	HUES6 Cell Line	embryonic stem cell

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