Variant report

Variant	rs9496642
Chromosome Location	chr6:143778674-143778675
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:143777826..143779334-chr6:143832308..143834105,2	MCF-7	breast:
2	chr6:143771894..143773645-chr6:143774533..143780874,5	MCF-7	breast:

Variant related genes	Relation type
ENSG00000034693	Chromatin interaction
ENSG00000001036	Chromatin interaction

Extended variants
information (count: 77 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:77)

rs_ID	r²[population]
rs1138410	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[YRI][hapmap];0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12215708	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12215709	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17072606	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2432871	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2432872	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2432873	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2473453	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2473454	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2496586	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2496587	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2496588	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2496589	0.89[EUR][1000 genomes]
rs2496591	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2496594	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2496595	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2496596	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2496597	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3748071	1.00[JPT][hapmap]
rs4605902	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55865962	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56336947	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6570561	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6915676	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6915856	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6921292	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6921520	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6921706	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72988621	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72988635	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7740441	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7744361	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7755370	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7761741	1.00[CEU][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9321907	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9321908	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9321909	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9321910	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9321911	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9321912	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9399444	1.00[CHB][hapmap]
rs9484744	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9484745	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9484746	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9484747	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9484748	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9484749	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9484750	1.00[CEU][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9484752	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9484753	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs9496616	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9496617	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9496618	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9496619	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9496620	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9496621	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9496622	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9496624	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9496625	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9496627	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9496628	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9496629	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9496630	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9496631	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9496632	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9496633	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9496634	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9496635	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9496636	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9496637	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9496638	0.88[EUR][1000 genomes]
rs9496639	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9496640	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9496643	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9496644	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs9496649	1.00[CHB][hapmap];1.00[YRI][hapmap]
rs9496650	1.00[YRI][hapmap]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9496642	ADAT2	cis	Esophagus Muscularis	GTEx

Chromatin state (count:113 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:143772400-143778800	Weak transcription	Small Intestine	intestine
2	chr6:143772600-143780600	Weak transcription	Left Ventricle	heart
3	chr6:143772600-143780800	Weak transcription	Esophagus	oesophagus
4	chr6:143772600-143790000	Weak transcription	Pancreas	Pancrea
5	chr6:143772600-143790000	Weak transcription	Spleen	Spleen
6	chr6:143772600-143791200	Weak transcription	Lung	lung
7	chr6:143772600-143811600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr6:143772600-143832000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr6:143772800-143780600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
10	chr6:143772800-143780600	Weak transcription	Fetal Muscle Trunk	muscle
11	chr6:143772800-143780600	Weak transcription	Placenta	Placenta
12	chr6:143772800-143780800	Weak transcription	Fetal Thymus	thymus
13	chr6:143772800-143784000	Weak transcription	HUES48 Cell Line	embryonic stem cell
14	chr6:143772800-143796600	Weak transcription	Sigmoid Colon	Sigmoid Colon
15	chr6:143772800-143798600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
16	chr6:143772800-143815000	Weak transcription	HUES6 Cell Line	embryonic stem cell
17	chr6:143772800-143821200	Weak transcription	Psoas Muscle	Psoas
18	chr6:143773000-143778800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr6:143773000-143780400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr6:143773000-143780600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
21	chr6:143773000-143780600	Weak transcription	Fetal Intestine Large	intestine
22	chr6:143773000-143780600	Weak transcription	Monocytes-CD14+_RO01746	blood
23	chr6:143773000-143781800	Weak transcription	Fetal Stomach	stomach
24	chr6:143773000-143782000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
25	chr6:143773000-143782000	Weak transcription	Ovary	ovary
26	chr6:143773000-143784000	Weak transcription	Rectal Mucosa Donor 29	rectum
27	chr6:143773000-143791400	Weak transcription	Thymus	Thymus
28	chr6:143773000-143793400	Weak transcription	Rectal Mucosa Donor 31	rectum
29	chr6:143773000-143793600	Weak transcription	HSMMtube	muscle
30	chr6:143773000-143797400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
31	chr6:143773000-143801400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
32	chr6:143773000-143811600	Weak transcription	Right Ventricle	heart
33	chr6:143773000-143814600	Weak transcription	Rectal Smooth Muscle	rectum
34	chr6:143773000-143814800	Weak transcription	HUES64 Cell Line	embryonic stem cell
35	chr6:143773000-143815000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
36	chr6:143773000-143815000	Weak transcription	Colonic Mucosa	Colon
37	chr6:143773200-143780200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
38	chr6:143773200-143780600	Weak transcription	Adipose Nuclei	Adipose
39	chr6:143773200-143793000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
40	chr6:143773200-143793000	Weak transcription	Brain Substantia Nigra	brain
41	chr6:143773200-143793600	Weak transcription	Primary neutrophils fromperipheralblood	blood
42	chr6:143773200-143827000	Weak transcription	Brain Germinal Matrix	brain
43	chr6:143773400-143778800	Weak transcription	Fetal Heart	heart
44	chr6:143773400-143778800	Weak transcription	NH-A	brain
45	chr6:143773400-143778800	Weak transcription	NHLF	lung
46	chr6:143773400-143778800	Weak transcription	Osteobl	bone
47	chr6:143773400-143780200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
48	chr6:143773400-143780200	Weak transcription	Colon Smooth Muscle	Colon
49	chr6:143773400-143780400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
50	chr6:143773400-143780600	Weak transcription	Primary monocytes fromperipheralblood	blood

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