Variant report

Variant	rs2915887
Chromosome Location	chr5:151205504-151205505
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:12)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:12 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr5:151204595..151205535-chr5:151522142..151523020,2	K562	blood:
2	chr5:151199961..151202793-chr5:151205309..151207059,2	K562	blood:
3	chr5:151204608..151205517-chr5:151728966..151729819,3	MCF-7	breast:
4	chr5:151204602..151205567-chr5:151884635..151885219,2	K562	blood:
5	chr5:151204736..151205618-chr5:151521905..151522989,3	MCF-7	breast:
6	chr5:151204659..151205617-chr5:151544194..151544853,2	MCF-7	breast:
7	chr5:151204677..151205872-chr5:151522532..151523052,3	MCF-7	breast:
8	chr5:151200829..151202793-chr5:151205309..151207571,2	K562	blood:
9	chr5:151150433..151152215-chr5:151203690..151206596,2	MCF-7	breast:
10	chr5:151204622..151206484-chr5:151650636..151651662,12	MCF-7	breast:
11	chr5:151204730..151205623-chr5:151885147..151885688,2	MCF-7	breast:
12	chr5:151205027..151205654-chr5:151893657..151894608,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000145907	Chromatin interaction
ENSG00000177556	Chromatin interaction

Extended variants
information (count: 95 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:95)

rs_ID	r²[population]
rs10044368	0.82[ASN][1000 genomes]
rs10075101	0.82[ASN][1000 genomes]
rs1042877	0.82[ASN][1000 genomes]
rs1062177	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10875569	0.81[ASN][1000 genomes]
rs12515762	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12518238	0.83[EUR][1000 genomes]
rs12518722	1.00[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs12522670	0.82[AMR][1000 genomes]
rs12653926	0.83[EUR][1000 genomes]
rs12654573	0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12654877	0.82[ASN][1000 genomes]
rs1433041	0.82[ASN][1000 genomes]
rs1549920	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17741826	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17804178	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1972780	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1978710	0.80[ASN][1000 genomes]
rs2016409	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2053063	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2347596	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2347597	0.82[ASN][1000 genomes]
rs2915815	0.87[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs2915816	0.83[ASN][1000 genomes]
rs2915817	0.87[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs2915818	0.92[ASN][1000 genomes]
rs2915820	0.88[ASN][1000 genomes]
rs2915822	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2915826	0.85[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs2915827	0.87[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs2915828	0.87[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2915868	0.82[ASN][1000 genomes]
rs2915869	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2915870	0.82[ASN][1000 genomes]
rs2915872	0.81[ASN][1000 genomes]
rs2915873	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2915876	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2915877	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2915878	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2915879	0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2915880	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2915881	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2915882	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2915888	0.87[ASN][1000 genomes]
rs2915890	0.87[ASN][1000 genomes]
rs2915891	0.82[ASN][1000 genomes]
rs2915892	0.82[ASN][1000 genomes]
rs2915893	0.82[ASN][1000 genomes]
rs2915894	0.82[ASN][1000 genomes]
rs2964568	0.81[ASN][1000 genomes]
rs2964570	0.82[ASN][1000 genomes]
rs2964571	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2964572	0.82[ASN][1000 genomes]
rs2964573	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2964574	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2964576	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2964578	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2964582	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2964583	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2964584	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2964585	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2964587	0.85[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs2964588	0.86[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2964589	0.87[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2964590	0.87[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2964591	0.80[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs2964592	0.80[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs2964593	0.91[ASN][1000 genomes]
rs2964594	0.83[ASN][1000 genomes]
rs2964595	0.84[ASN][1000 genomes]
rs2964610	0.87[ASN][1000 genomes]
rs2964611	0.87[ASN][1000 genomes]
rs2964612	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2964613	0.86[ASN][1000 genomes]
rs4472253	0.82[ASN][1000 genomes]
rs4571461	0.82[ASN][1000 genomes]
rs4629586	0.82[ASN][1000 genomes]
rs59580263	0.81[EUR][1000 genomes]
rs62377931	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs62377945	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs62394146	1.00[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs62394155	1.00[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs62395861	0.81[EUR][1000 genomes]
rs6579897	0.84[ASN][1000 genomes]
rs6579901	0.87[ASN][1000 genomes]
rs6878198	0.82[ASN][1000 genomes]
rs6879461	0.82[ASN][1000 genomes]
rs6884630	0.80[EUR][1000 genomes]
rs6890099	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs72802204	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7720579	0.82[ASN][1000 genomes]
rs7734314	0.82[ASN][1000 genomes]
rs892005	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs892006	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs973529	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs2915887	RP11-54C4.1	cis	Thyroid	GTEx
rs2915887	RP11-54C4.1	cis	Nerve Tibial	GTEx

Chromatin state (count:70 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:151164000-151207600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr5:151179800-151208400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr5:151183600-151210600	Weak transcription	Lung	lung
4	chr5:151183800-151206000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr5:151183800-151208400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr5:151183800-151209600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr5:151183800-151213400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
8	chr5:151188200-151210400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
9	chr5:151190400-151210400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
10	chr5:151192200-151208200	Weak transcription	H9 Cell Line	embryonic stem cell
11	chr5:151192400-151209800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
12	chr5:151192400-151210000	Weak transcription	Aorta	Aorta
13	chr5:151192400-151211200	Weak transcription	NHLF	lung
14	chr5:151192600-151206000	Weak transcription	Thymus	Thymus
15	chr5:151192600-151206200	Weak transcription	Psoas Muscle	Psoas
16	chr5:151192600-151209800	Weak transcription	Primary T helper cells PMA-I stimulated	--
17	chr5:151192800-151208400	Weak transcription	H1 Cell Line	embryonic stem cell
18	chr5:151192800-151209600	Weak transcription	Sigmoid Colon	Sigmoid Colon
19	chr5:151192800-151209800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr5:151193000-151205600	Weak transcription	Duodenum Smooth Muscle	Duodenum
21	chr5:151193000-151207600	Weak transcription	Rectal Mucosa Donor 29	rectum
22	chr5:151193000-151210400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
23	chr5:151193200-151210600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
24	chr5:151193600-151211400	Weak transcription	Pancreatic Islets	Pancreatic Islet
25	chr5:151194400-151207800	Weak transcription	Primary B cells from cord blood	blood
26	chr5:151194800-151206000	Weak transcription	Dnd41	blood
27	chr5:151194800-151206600	Weak transcription	Placenta	Placenta
28	chr5:151194800-151209000	Weak transcription	Brain Anterior Caudate	brain
29	chr5:151194800-151209600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
30	chr5:151194800-151210400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
31	chr5:151195400-151206000	Weak transcription	K562	blood
32	chr5:151196600-151205600	Weak transcription	Hela-S3	cervix
33	chr5:151196600-151210400	Weak transcription	Primary T cells fromperipheralblood	blood
34	chr5:151196800-151208000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
35	chr5:151196800-151209400	Weak transcription	Liver	Liver
36	chr5:151196800-151211400	Weak transcription	GM12878-XiMat	blood
37	chr5:151197000-151208000	Weak transcription	HUES48 Cell Line	embryonic stem cell
38	chr5:151197000-151208200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
39	chr5:151197000-151211400	Weak transcription	NH-A	brain
40	chr5:151198200-151210600	Weak transcription	Muscle Satellite Cultured Cells	--
41	chr5:151200200-151208800	Strong transcription	A549	lung
42	chr5:151200200-151211400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
43	chr5:151200600-151208200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
44	chr5:151200600-151208600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
45	chr5:151200800-151208000	Weak transcription	Adipose Nuclei	Adipose
46	chr5:151201800-151207200	Weak transcription	HepG2	liver
47	chr5:151202600-151206400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
48	chr5:151202600-151208800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
49	chr5:151203200-151205600	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
50	chr5:151203400-151206200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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