Variant report

Variant	rs2915827
Chromosome Location	chr5:151119705-151119706
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:151118929..151121871-chr5:151122174..151125024,4	K562	blood:
2	chr5:151119267..151125823-chr5:151135086..151139341,8	K562	blood:
3	chr5:151035465..151036321-chr5:151119618..151120500,2	MCF-7	breast:
4	chr5:151040070..151041858-chr5:151118725..151120668,2	K562	blood:
5	chr5:151115125..151118299-chr5:151118871..151121711,3	K562	blood:

Variant related genes	Relation type
ENSG00000177556	Chromatin interaction

Extended variants
information (count: 85 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:85)

rs_ID	r²[population]
rs10044368	0.94[CHB][hapmap]
rs1042877	0.94[CHB][hapmap]
rs1062177	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs10875569	0.86[ASN][1000 genomes]
rs12108921	0.87[CHB][hapmap]
rs12109022	0.88[CHB][hapmap]
rs12515762	0.84[AMR][1000 genomes]
rs1433041	0.94[CHB][hapmap]
rs1549920	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1549921	0.81[ASN][1000 genomes]
rs17741826	0.86[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap];0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17804178	0.87[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs1972780	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1978710	0.80[ASN][1000 genomes]
rs2016409	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2053063	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2347596	0.82[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs2347597	0.94[CHB][hapmap]
rs2913889	0.88[CHB][hapmap]
rs2913892	0.87[CHB][hapmap]
rs2913893	0.88[CHB][hapmap]
rs2913894	0.87[CHB][hapmap];0.82[JPT][hapmap]
rs2915815	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2915816	0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2915817	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2915818	0.98[ASN][1000 genomes]
rs2915820	0.95[ASN][1000 genomes]
rs2915822	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2915824	0.80[ASN][1000 genomes]
rs2915826	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2915828	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2915868	0.94[CHB][hapmap]
rs2915869	0.82[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs2915872	0.94[CHB][hapmap]
rs2915873	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2915876	0.85[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap];0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2915877	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2915878	1.00[CHB][hapmap];0.93[JPT][hapmap];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2915879	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2915880	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2915881	0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2915882	0.86[CEU][hapmap];0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2915883	0.81[ASN][1000 genomes]
rs2915886	0.88[CHB][hapmap]
rs2915887	0.87[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs2915888	0.94[CHB][hapmap];0.82[JPT][hapmap]
rs2915890	0.94[CHB][hapmap];0.82[JPT][hapmap]
rs2964570	0.94[CHB][hapmap]
rs2964571	0.82[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs2964573	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2964574	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2964576	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2964578	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2964580	0.81[ASN][1000 genomes]
rs2964581	0.81[ASN][1000 genomes]
rs2964582	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2964583	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2964584	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2964585	0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2964587	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2964588	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2964589	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2964590	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2964591	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2964592	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2964593	0.97[ASN][1000 genomes]
rs2964594	0.89[ASN][1000 genomes]
rs2964595	0.91[ASN][1000 genomes]
rs2964612	0.87[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2964613	0.81[ASN][1000 genomes]
rs4571461	0.94[CHB][hapmap]
rs62377931	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62377945	0.82[AMR][1000 genomes]
rs6579897	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs6579901	0.94[ASN][1000 genomes]
rs6878198	0.88[ASN][1000 genomes]
rs6890099	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs72802204	0.82[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs7719617	0.94[CHB][hapmap]
rs7728956	0.86[CHB][hapmap];0.80[JPT][hapmap]
rs7733241	0.87[CHB][hapmap]
rs7734314	0.94[CHB][hapmap]
rs892005	0.87[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs892006	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs973529	0.87[AMR][1000 genomes];0.92[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs2915827	RP11-54C4.1	cis	Nerve Tibial	GTEx
rs2915827	RP11-54C4.1	cis	Thyroid	GTEx

Chromatin state (count:117 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:151098000-151120200	Weak transcription	Duodenum Mucosa	Duodenum
2	chr5:151098000-151124800	Weak transcription	Aorta	Aorta
3	chr5:151101800-151124800	Weak transcription	Gastric	stomach
4	chr5:151103000-151120000	Weak transcription	Primary B cells from peripheral blood	blood
5	chr5:151107600-151120200	Weak transcription	Primary T helper cells fromperipheralblood	blood
6	chr5:151108000-151122600	Weak transcription	Pancreatic Islets	Pancreatic Islet
7	chr5:151108600-151122800	Weak transcription	Thymus	Thymus
8	chr5:151109600-151120400	Weak transcription	Rectal Mucosa Donor 29	rectum
9	chr5:151110400-151119800	Weak transcription	Fetal Intestine Small	intestine
10	chr5:151110800-151122200	Weak transcription	Dnd41	blood
11	chr5:151110800-151122400	Weak transcription	Sigmoid Colon	Sigmoid Colon
12	chr5:151111400-151121200	Weak transcription	Primary hematopoietic stem cells	blood
13	chr5:151111800-151120200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
14	chr5:151112400-151120200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
15	chr5:151112400-151125000	Weak transcription	Esophagus	oesophagus
16	chr5:151113200-151120000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
17	chr5:151113400-151120200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
18	chr5:151114000-151120000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
19	chr5:151116000-151121400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
20	chr5:151116200-151121600	Weak transcription	Liver	Liver
21	chr5:151116600-151119800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
22	chr5:151116600-151121200	Enhancers	Placenta Amnion	Placenta Amnion
23	chr5:151116800-151122200	Weak transcription	Spleen	Spleen
24	chr5:151117200-151122200	Weak transcription	HepG2	liver
25	chr5:151117800-151120000	Weak transcription	Primary T cells fromperipheralblood	blood
26	chr5:151117800-151122200	Weak transcription	Primary B cells from cord blood	blood
27	chr5:151117800-151122400	Enhancers	HUVEC	blood vessel
28	chr5:151118000-151121800	Weak transcription	Monocytes-CD14+_RO01746	blood
29	chr5:151118200-151119800	Weak transcription	Pancreas	Pancrea
30	chr5:151118200-151120000	Weak transcription	Fetal Thymus	thymus
31	chr5:151118200-151120200	Weak transcription	Primary T helper cells PMA-I stimulated	--
32	chr5:151118400-151120600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
33	chr5:151118400-151121400	Weak transcription	Primary T cells from cord blood	blood
34	chr5:151118400-151123000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
35	chr5:151118600-151121400	Enhancers	Fetal Muscle Trunk	muscle
36	chr5:151118800-151120200	Enhancers	Ovary	ovary
37	chr5:151118800-151120400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
38	chr5:151119000-151119800	Enhancers	Colon Smooth Muscle	Colon
39	chr5:151119000-151119800	Enhancers	Skeletal Muscle Female	skeletal muscle
40	chr5:151119000-151119800	Enhancers	Stomach Smooth Muscle	stomach
41	chr5:151119000-151120000	Enhancers	HUES64 Cell Line	embryonic stem cell
42	chr5:151119000-151120000	Enhancers	Lung	lung
43	chr5:151119000-151120000	Enhancers	NHEK	skin
44	chr5:151119000-151120200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
45	chr5:151119000-151120200	Enhancers	Left Ventricle	heart
46	chr5:151119000-151120200	Enhancers	Right Ventricle	heart
47	chr5:151119000-151120600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
48	chr5:151119000-151120600	Enhancers	HUES48 Cell Line	embryonic stem cell
49	chr5:151119000-151120600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
50	chr5:151119000-151120600	Enhancers	Fetal Lung	lung

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