Variant report

Variant	rs2915878
Chromosome Location	chr5:151149662-151149663
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:26)
CpG islands
(count:0)
Chromatin interactive
region (count:7)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:26 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	E2F6	chr5:151149631-151151710	H1-hESC	embryonic stem cell:	n/a	n/a
2	POLR2A	chr5:151149638-151153076	GM12878	blood:	n/a	n/a
3	POLR2A	chr5:151148547-151149867	HepG2	liver:	n/a	n/a
4	POLR2A	chr5:151149627-151149996	K562	blood:	n/a	n/a
5	ZNF384	chr5:151149513-151149947	K562	blood:	n/a	n/a
6	POLR2A	chr5:151148376-151153894	K562	blood:	n/a	n/a
7	POLR2A	chr5:151149612-151153471	K562	blood:	n/a	n/a
8	YY1	chr5:151149638-151149797	K562	blood:	n/a	n/a
9	HCFC1	chr5:151149652-151154049	Hela-S3	cervix:	n/a	n/a
10	POLR2A	chr5:151149583-151149667	K562	blood:	n/a	n/a
11	POLR2A	chr5:151149634-151152839	H1-hESC	embryonic stem cell:	n/a	n/a
12	POLR2A	chr5:151149643-151152543	GM18951	blood:	n/a	n/a
13	POLR2A	chr5:151149609-151149668	H1-hESC	embryonic stem cell:	n/a	n/a
14	POLR2A	chr5:151149591-151153083	K562	blood:	n/a	n/a
15	POLR2A	chr5:151149476-151152788	K562	blood:	n/a	n/a
16	POLR2A	chr5:151149524-151149676	H1-hESC	embryonic stem cell:	n/a	n/a
17	TBP	chr5:151149610-151152711	K562	blood:	n/a	n/a
18	E2F6	chr5:151149621-151152472	K562	blood:	n/a	chr5:151151923-151151935 chr5:151151924-151151931 chr5:151151924-151151931 chr5:151151924-151151931 chr5:151151923-151151932
19	POLR2A	chr5:151149601-151153858	MCF10A-Er-Src	breast:	n/a	n/a
20	POLR2A	chr5:151149017-151153094	Hela-S3	cervix:	n/a	n/a
21	MAX	chr5:151149573-151149854	K562	blood:	n/a	n/a
22	RFX5	chr5:151149631-151149831	K562	blood:	n/a	n/a
23	POLR2A	chr5:151149657-151153884	GM12891	blood:	n/a	n/a
24	MAFK	chr5:151149657-151149831	K562	blood:	n/a	n/a
25	POLR2A	chr5:151149565-151153397	GM18505	blood:	n/a	n/a
26	POLR2A	chr5:151149636-151152059	PANC-1	pancreas:	n/a	n/a

No data

(count:7 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr5:151141912..151146351-chr5:151146659..151152863,9	MCF-7	breast:
2	chr5:150458984..150462582-chr5:151149655..151151934,4	K562	blood:
3	chr5:150861725..150863325-chr5:151147345..151150337,2	K562	blood:
4	chr5:151133870..151141079-chr5:151148554..151154544,14	MCF-7	breast:
5	chr19:2050333..2052576-chr5:151149365..151151441,2	K562	blood:
6	chr5:151146976..151149918-chr5:151242837..151245370,2	K562	blood:
7	chr5:151136180..151141661-chr5:151146894..151154161,25	MCF-7	breast:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-GLRA1-1	chr5:151149191-151150353	NONHSAT104635

No data

Variant related genes	Relation type
ENSG00000213433	TF binding region
G3BP1	TF binding region
ENSG00000099875	Chromatin interaction
ENSG00000177556	Chromatin interaction
ENSG00000145901	Chromatin interaction
ENSG00000213433	Chromatin interaction

Extended variants
information (count: 88 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:88)

rs_ID	r²[population]
rs10044368	0.94[CHB][hapmap]
rs1042877	0.94[CHB][hapmap]
rs1062177	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10875569	0.81[ASN][1000 genomes]
rs12108921	0.87[CHB][hapmap]
rs12109022	0.88[CHB][hapmap]
rs12515762	0.88[EUR][1000 genomes]
rs12654573	0.86[EUR][1000 genomes]
rs1433041	0.94[CHB][hapmap]
rs1549920	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1549921	0.81[ASN][1000 genomes]
rs17741826	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17804178	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1972780	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1978710	0.80[ASN][1000 genomes]
rs2016409	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2053063	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2347596	0.86[AMR][1000 genomes];0.92[EUR][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];0.81[JPT][hapmap]
rs2915815	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2915816	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2915817	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2915818	0.93[ASN][1000 genomes]
rs2915820	0.90[ASN][1000 genomes]
rs2915822	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2915826	1.00[CHB][hapmap];0.92[JPT][hapmap];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2915827	1.00[CHB][hapmap];0.93[JPT][hapmap];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2915828	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2915829	0.83[ASN][1000 genomes]
rs2915868	0.94[CHB][hapmap]
rs2915869	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2915872	0.94[CHB][hapmap]
rs2915873	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2915874	0.85[ASN][1000 genomes]
rs2915876	1.00[CHB][hapmap];0.93[JPT][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2915877	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2915879	1.00[CHB][hapmap];0.93[JPT][hapmap];0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2915880	1.00[CHB][hapmap];0.93[JPT][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2915881	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2915882	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2915883	0.81[ASN][1000 genomes]
rs2915886	0.88[CHB][hapmap]
rs2915887	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2915888	0.94[CHB][hapmap];0.81[JPT][hapmap]
rs2915890	0.93[CHB][hapmap]
rs2964570	0.94[CHB][hapmap]
rs2964571	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2964573	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2964574	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2964576	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2964577	0.85[ASN][1000 genomes]
rs2964578	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2964580	0.81[ASN][1000 genomes]
rs2964581	0.81[ASN][1000 genomes]
rs2964582	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2964583	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2964584	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2964585	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2964587	1.00[CHB][hapmap];0.93[JPT][hapmap];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2964588	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2964589	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2964590	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2964591	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2964592	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2964593	0.92[ASN][1000 genomes]
rs2964594	0.84[ASN][1000 genomes]
rs2964595	0.86[ASN][1000 genomes]
rs2964612	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2964613	0.81[ASN][1000 genomes]
rs4571461	0.94[CHB][hapmap]
rs62377931	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62377945	0.88[EUR][1000 genomes]
rs6579897	1.00[CHB][hapmap];0.93[JPT][hapmap];0.86[ASN][1000 genomes]
rs6579901	0.89[ASN][1000 genomes]
rs6878198	0.84[ASN][1000 genomes]
rs6890099	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72802204	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7719617	0.94[CHB][hapmap]
rs7728956	0.86[CHB][hapmap]
rs7733241	0.87[CHB][hapmap]
rs7734314	0.94[CHB][hapmap]
rs892005	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs892006	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs973529	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs2915878	RP11-54C4.1	cis	Nerve Tibial	GTEx
rs2915878	RP11-54C4.1	cis	Thyroid	GTEx

Chromatin state (count:99 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:151138800-151149800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr5:151139400-151149800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr5:151139400-151149800	Weak transcription	Right Atrium	heart
4	chr5:151143200-151149800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr5:151145600-151150000	Weak transcription	Pancreas	Pancrea
6	chr5:151145800-151150000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr5:151146000-151149800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr5:151147200-151149800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
9	chr5:151148600-151149800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr5:151148800-151149800	Enhancers	Primary T helper cells fromperipheralblood	blood
11	chr5:151148800-151149800	Weak transcription	Cortex derived primary cultured neurospheres	brain
12	chr5:151148800-151149800	Weak transcription	A549	lung
13	chr5:151149000-151149800	Enhancers	Primary B cells from peripheral blood	blood
14	chr5:151149000-151149800	Enhancers	Primary T cells fromperipheralblood	blood
15	chr5:151149000-151149800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
16	chr5:151149000-151149800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
17	chr5:151149000-151150000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr5:151149000-151150000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
19	chr5:151149000-151150000	Enhancers	Placenta	Placenta
20	chr5:151149000-151150000	Enhancers	Spleen	Spleen
21	chr5:151149000-151153200	Active TSS	Rectal Smooth Muscle	rectum
22	chr5:151149200-151149800	Enhancers	Primary neutrophils fromperipheralblood	blood
23	chr5:151149200-151149800	Enhancers	Primary T helper naive cells from peripheral blood	blood
24	chr5:151149200-151149800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
25	chr5:151149200-151149800	Enhancers	Primary T helper cells PMA-I stimulated	--
26	chr5:151149200-151149800	Enhancers	Primary T regulatory cells fromperipheralblood	blood
27	chr5:151149200-151149800	Enhancers	Fetal Muscle Leg	muscle
28	chr5:151149200-151150000	Enhancers	Primary hematopoietic stem cells	blood
29	chr5:151149200-151150200	Enhancers	Fetal Heart	heart
30	chr5:151149400-151149800	Enhancers	Primary monocytes fromperipheralblood	blood
31	chr5:151149400-151149800	Enhancers	Fetal Thymus	thymus
32	chr5:151149400-151150800	Enhancers	Fetal Brain Male	brain
33	chr5:151149600-151149800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
34	chr5:151149600-151149800	Enhancers	Primary T cells from cord blood	blood
35	chr5:151149600-151149800	Active TSS	Primary hematopoietic stem cells short term culture	blood
36	chr5:151149600-151149800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
37	chr5:151149600-151149800	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
38	chr5:151149600-151149800	Flanking Active TSS	Primary T killer memory cells from peripheral blood	blood
39	chr5:151149600-151149800	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
40	chr5:151149600-151149800	Enhancers	Muscle Satellite Cultured Cells	--
41	chr5:151149600-151149800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
42	chr5:151149600-151149800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
43	chr5:151149600-151149800	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
44	chr5:151149600-151149800	Enhancers	Aorta	Aorta
45	chr5:151149600-151149800	Enhancers	Liver	Liver
46	chr5:151149600-151149800	Enhancers	Brain Anterior Caudate	brain
47	chr5:151149600-151149800	Enhancers	Brain Cingulate Gyrus	brain
48	chr5:151149600-151149800	Flanking Active TSS	Brain Germinal Matrix	brain
49	chr5:151149600-151149800	Enhancers	Colon Smooth Muscle	Colon
50	chr5:151149600-151149800	Enhancers	Duodenum Smooth Muscle	Duodenum

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