Variant report

Variant	rs8035485
Chromosome Location	chr15:57236325-57236326
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 61 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs10467927	0.85[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap]
rs10851612	0.86[CHB][hapmap];0.81[JPT][hapmap]
rs1115019	0.86[CHB][hapmap];0.81[JPT][hapmap]
rs11856338	0.84[YRI][hapmap]
rs11856411	0.85[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs12440219	0.86[YRI][hapmap]
rs12902058	1.00[YRI][hapmap];0.82[AFR][1000 genomes]
rs12906025	1.00[YRI][hapmap];0.80[AFR][1000 genomes]
rs13313455	0.81[YRI][hapmap]
rs13379847	0.82[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap]
rs1430820	0.85[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.88[ASN][1000 genomes]
rs1430822	0.84[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.87[ASN][1000 genomes]
rs1441236	0.86[CHB][hapmap];0.81[JPT][hapmap]
rs1657922	0.86[CHB][hapmap];0.81[JPT][hapmap]
rs16977153	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs16977243	0.85[CEU][hapmap];0.95[CHB][hapmap]
rs17415731	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.89[AFR][1000 genomes];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1820994	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2111890	1.00[YRI][hapmap];0.82[AFR][1000 genomes]
rs2169467	0.84[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap]
rs2278613	0.86[CHB][hapmap];0.81[JPT][hapmap]
rs2733333	0.85[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap]
rs28360967	0.88[ASN][1000 genomes]
rs28612876	0.86[ASN][1000 genomes]
rs28639536	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs28648577	0.88[ASN][1000 genomes]
rs28649108	0.88[ASN][1000 genomes]
rs28654848	0.88[ASN][1000 genomes]
rs28677775	0.89[ASN][1000 genomes]
rs28756149	0.91[ASN][1000 genomes]
rs28814080	0.99[ASN][1000 genomes]
rs4774245	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4774246	1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs6493900	0.86[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap]
rs7162194	0.85[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.89[ASN][1000 genomes]
rs7163267	0.86[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap]
rs7164655	0.86[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs7168945	0.85[YRI][hapmap]
rs7171073	1.00[CHB][hapmap];0.95[JPT][hapmap]
rs7171304	0.88[CEU][hapmap]
rs7175191	0.86[CHB][hapmap];0.81[JPT][hapmap]
rs7176873	0.90[CHB][hapmap];0.95[JPT][hapmap]
rs7178833	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs8023343	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.92[YRI][hapmap];0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs8023816	0.88[ASN][1000 genomes]
rs8031516	0.86[ASN][1000 genomes]
rs8031640	0.86[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs8032615	0.86[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs8033010	0.81[ASN][1000 genomes]
rs8034066	0.85[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.87[ASN][1000 genomes]
rs8035916	0.95[CHB][hapmap];0.94[JPT][hapmap]
rs8039899	0.86[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.88[ASN][1000 genomes]
rs9302200	0.85[CEU][hapmap];0.82[CHB][hapmap];0.89[JPT][hapmap]
rs9806170	0.85[CEU][hapmap];1.00[CHB][hapmap]
rs9806199	0.86[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3422474	chr15:56867190-57244330	Strong transcription ZNF genes & repeats Active TSS Enhancers Weak transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	nsv1042486	chr15:57094598-57505992	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
3	nsv542393	chr15:57115116-57341363	Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
4	nsv904250	chr15:57225766-57294085	ZNF genes & repeats Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
5	nsv1052052	chr15:57232111-57344561	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
6	nsv542394	chr15:57232111-57344561	Enhancers Weak transcription Genic enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs8035485	LOC283663	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:87 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:57212400-57256000	Weak transcription	Pancreas	Pancrea
2	chr15:57212600-57241000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr15:57213200-57256000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr15:57216400-57241800	Weak transcription	Fetal Brain Male	brain
5	chr15:57220400-57236400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr15:57222600-57250200	Weak transcription	NH-A	brain
7	chr15:57222800-57240800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
8	chr15:57222800-57255000	Weak transcription	HMEC	breast
9	chr15:57223000-57236800	Weak transcription	HUES64 Cell Line	embryonic stem cell
10	chr15:57223200-57240400	Weak transcription	Aorta	Aorta
11	chr15:57224400-57238000	Weak transcription	Fetal Lung	lung
12	chr15:57224600-57248600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
13	chr15:57225000-57239400	Weak transcription	Left Ventricle	heart
14	chr15:57225000-57244200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
15	chr15:57225000-57249000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
16	chr15:57225200-57238000	Weak transcription	Primary T cells fromperipheralblood	blood
17	chr15:57226400-57242000	Weak transcription	HUVEC	blood vessel
18	chr15:57227000-57249800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
19	chr15:57227200-57236800	Weak transcription	A549	lung
20	chr15:57227600-57260600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr15:57228000-57237600	Weak transcription	Primary B cells from peripheral blood	blood
22	chr15:57228000-57237600	Weak transcription	Fetal Intestine Large	intestine
23	chr15:57228000-57238000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
24	chr15:57228000-57242400	Weak transcription	Fetal Intestine Small	intestine
25	chr15:57228200-57236800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr15:57228200-57238000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr15:57228200-57260600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
28	chr15:57228400-57236800	Weak transcription	Primary B cells from cord blood	blood
29	chr15:57228400-57237600	Weak transcription	Cortex derived primary cultured neurospheres	brain
30	chr15:57229200-57237400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
31	chr15:57229200-57237600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
32	chr15:57229400-57255800	Weak transcription	Fetal Stomach	stomach
33	chr15:57229800-57237800	Weak transcription	Fetal Muscle Leg	muscle
34	chr15:57231200-57238000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
35	chr15:57231200-57240800	Weak transcription	HUES48 Cell Line	embryonic stem cell
36	chr15:57232000-57236600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr15:57232000-57256000	Weak transcription	Skeletal Muscle Male	skeletal muscle
38	chr15:57232200-57238000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
39	chr15:57232200-57238000	Weak transcription	Sigmoid Colon	Sigmoid Colon
40	chr15:57232200-57238000	Weak transcription	Skeletal Muscle Female	skeletal muscle
41	chr15:57232200-57238000	Weak transcription	NHDF-Ad	bronchial
42	chr15:57232200-57238200	Weak transcription	Small Intestine	intestine
43	chr15:57232200-57240000	Weak transcription	NHLF	lung
44	chr15:57232400-57238000	Weak transcription	Adipose Nuclei	Adipose
45	chr15:57232600-57239200	Weak transcription	Primary monocytes fromperipheralblood	blood
46	chr15:57233000-57250200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
47	chr15:57233200-57238800	Weak transcription	HepG2	liver
48	chr15:57233400-57236600	Enhancers	Brain Cingulate Gyrus	brain
49	chr15:57233800-57239400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
50	chr15:57233800-57242000	Weak transcription	Ovary	ovary

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