Variant report

Variant	rs2844775
Chromosome Location	chr6:30179422-30179423
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:30178310..30184484-chr6:30311860..30320436,13	MCF-7	breast:
2	chr6:30176086..30179759-chr6:30179877..30183202,4	K562	blood:
3	chr6:30178635..30184988-chr6:30292357..30296104,9	MCF-7	breast:
4	chr6:30177177..30179717-chr6:30228563..30230650,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000231074	Chromatin interaction
ENSG00000204599	Chromatin interaction
ENSG00000224372	Chromatin interaction
ENSG00000270604	Chromatin interaction
ENSG00000234127	Chromatin interaction
ENSG00000241370	Chromatin interaction

Extended variants
information (count: 15 )
Associated
traits (count: 14 )

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs1042338	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13194768	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17194607	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2239530	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2517606	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2517616	0.80[AFR][1000 genomes];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3778622	0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4711211	0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7843	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9261533	0.81[EUR][1000 genomes]
rs9261535	0.81[EUR][1000 genomes]
rs929156	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9357094	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9380159	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs957765	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]

Variant related diseases (count:1)

Disease	PMID	Source
Anger	24489884	GWAS catalog

mRNA abundance (count:13)

SNP	Gene	Cis/trans	Tissue	Source
rs2844775	HIST1H2BN	cis	parietal	SCAN
rs2844775	HIST1H2AM	cis	parietal	SCAN
rs2844775	ZKSCAN3	cis	cerebellum	SCAN
rs2844775	BTN2A1	cis	cerebellum	SCAN
rs2844775	TFG	trans	multi-tissue	Pritchard
rs2844775	HIST1H2AI	cis	parietal	SCAN
rs2844775	HLA-A	cis	multi-tissue	Pritchard
rs2844775	HLA-G	cis	multi-tissue	Pritchard
rs2844775	HLA-A	cis	brain	seeQTL
rs2844775	NDUFS1	trans	multi-tissue	Pritchard
rs2844775	HCG4	cis	multi-tissue	Pritchard
rs2844775	HLA-H	cis	multi-tissue	Pritchard
rs2844775	KIT	trans	multi-tissue	Pritchard

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:30158400-30179600	Weak transcription	Fetal Brain Male	brain
2	chr6:30168800-30179800	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr6:30169000-30179800	Weak transcription	Aorta	Aorta
4	chr6:30170600-30179600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr6:30172600-30179800	Enhancers	Primary T helper cells fromperipheralblood	blood
6	chr6:30173400-30179600	Enhancers	Primary T helper cells PMA-I stimulated	--
7	chr6:30173400-30179800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
8	chr6:30173400-30179800	Enhancers	Rectal Mucosa Donor 31	rectum
9	chr6:30173800-30179800	Enhancers	Primary T helper naive cells from peripheral blood	blood
10	chr6:30173800-30180000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
11	chr6:30174600-30180400	Enhancers	Small Intestine	intestine
12	chr6:30175000-30179800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
13	chr6:30175400-30180000	Enhancers	Primary T killer memory cells from peripheral blood	blood
14	chr6:30175800-30179800	Enhancers	iPS-15b Cell Line	embryonic stem cell
15	chr6:30175800-30179800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
16	chr6:30175800-30180400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
17	chr6:30175800-30180400	Weak transcription	Fetal Muscle Trunk	muscle
18	chr6:30175800-30180600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
19	chr6:30176200-30179800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
20	chr6:30176200-30179800	Weak transcription	H9 Cell Line	embryonic stem cell
21	chr6:30176200-30179800	Weak transcription	Brain Inferior Temporal Lobe	brain
22	chr6:30176200-30179800	Weak transcription	Right Ventricle	heart
23	chr6:30176200-30180600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
24	chr6:30176200-30180600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr6:30176400-30179800	Weak transcription	Colonic Mucosa	Colon
26	chr6:30176400-30179800	Weak transcription	Fetal Kidney	kidney
27	chr6:30176600-30179800	Weak transcription	H1 Cell Line	embryonic stem cell
28	chr6:30177000-30179600	Weak transcription	HUES48 Cell Line	embryonic stem cell
29	chr6:30177000-30179600	Enhancers	Cortex derived primary cultured neurospheres	brain
30	chr6:30177200-30179600	Genic enhancers	Primary T cells from cord blood	blood
31	chr6:30177200-30180200	Enhancers	Sigmoid Colon	Sigmoid Colon
32	chr6:30177400-30179600	Enhancers	Lung	lung
33	chr6:30177400-30179800	Enhancers	Primary T cells fromperipheralblood	blood
34	chr6:30177400-30179800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
35	chr6:30177400-30180000	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
36	chr6:30178000-30179600	Enhancers	Colon Smooth Muscle	Colon
37	chr6:30178000-30179800	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
38	chr6:30178000-30179800	Enhancers	Brain Angular Gyrus	brain
39	chr6:30178000-30179800	Enhancers	Fetal Brain Female	brain
40	chr6:30178000-30179800	Enhancers	Fetal Heart	heart
41	chr6:30178000-30179800	Enhancers	Skeletal Muscle Female	skeletal muscle
42	chr6:30178000-30180000	Enhancers	Spleen	Spleen
43	chr6:30178000-30180400	Flanking Active TSS	Duodenum Mucosa	Duodenum
44	chr6:30178200-30179600	Enhancers	Fetal Lung	lung
45	chr6:30178200-30179600	Enhancers	Psoas Muscle	Psoas
46	chr6:30178200-30179600	Enhancers	Skeletal Muscle Male	skeletal muscle
47	chr6:30178200-30179800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
48	chr6:30178200-30179800	Enhancers	Brain Anterior Caudate	brain
49	chr6:30178200-30179800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
50	chr6:30178200-30179800	Enhancers	Thymus	Thymus

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