Variant report

Variant	rs885913
Chromosome Location	chr6:30174428-30174429
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	FOXA2	chr6:30174418-30175442	HepG2	liver:	n/a	n/a
2	POLR2A	chr6:30174329-30175926	HepG2	liver:	n/a	n/a
3	MYBL2	chr6:30174205-30176177	HepG2	liver:	n/a	n/a
4	STAT3	chr6:30174380-30175066	MCF10A-Er-Src	breast:	n/a	chr6:30174785-30174797
5	MAX	chr6:30174368-30175889	HepG2	liver:	n/a	chr6:30175301-30175310 chr6:30175303-30175310
6	FOXA1	chr6:30174362-30175506	HepG2	liver:	n/a	n/a
7	FOXA1	chr6:30174310-30175509	HepG2	liver:	n/a	n/a
8	FOXA1	chr6:30174328-30175465	HepG2	liver:	n/a	n/a
9	FOXA1	chr6:30174420-30175517	HepG2	liver:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr6:30112108..30113874-chr6:30174193..30176985,2	K562	blood:
2	chr6:30170611..30172995-chr6:30173743..30176690,2	MCF-7	breast:
3	chr6:30172695..30175243-chr6:30183856..30185988,2	K562	blood:

Variant related genes	Relation type
TRIM26	TF binding region
ENSG00000234127	Chromatin interaction

Extended variants
information (count: 48 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs2188100	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2517612	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2517613	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2517615	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2517618	0.93[EUR][1000 genomes]
rs2523715	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2523719	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2523720	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2844770	0.84[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs2844771	0.84[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs2844772	0.92[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs2844773	0.84[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs2844785	0.88[EUR][1000 genomes]
rs3094070	0.80[EUR][1000 genomes]
rs3094071	0.80[EUR][1000 genomes]
rs3094072	0.80[EUR][1000 genomes]
rs3094073	0.80[EUR][1000 genomes]
rs3094074	0.80[EUR][1000 genomes]
rs3094077	0.80[EUR][1000 genomes]
rs3094629	0.80[EUR][1000 genomes]
rs3094630	0.80[EUR][1000 genomes]
rs3094632	0.80[EUR][1000 genomes]
rs3129697	0.80[EUR][1000 genomes]
rs3129699	0.80[EUR][1000 genomes]
rs3129700	0.80[EUR][1000 genomes]
rs3129701	0.80[EUR][1000 genomes]
rs3129702	0.80[EUR][1000 genomes]
rs3129703	0.80[EUR][1000 genomes]
rs3129705	0.80[EUR][1000 genomes]
rs3129706	0.82[EUR][1000 genomes]
rs3129707	0.80[EUR][1000 genomes]
rs3129835	0.82[EUR][1000 genomes]
rs3129836	0.82[EUR][1000 genomes]
rs3130398	0.80[EUR][1000 genomes]
rs3130400	0.80[EUR][1000 genomes]
rs3130401	0.80[EUR][1000 genomes]
rs3130403	0.80[EUR][1000 genomes]
rs3130404	0.80[EUR][1000 genomes]
rs3130405	0.80[EUR][1000 genomes]
rs3132655	0.80[EUR][1000 genomes]
rs3132656	0.80[EUR][1000 genomes]
rs3132657	0.80[EUR][1000 genomes]
rs3132658	0.80[EUR][1000 genomes]
rs3132659	0.80[EUR][1000 genomes]
rs885916	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9261629	0.80[EUR][1000 genomes]
rs9261630	0.80[EUR][1000 genomes]
rs929157	0.88[EUR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs885913	HLA-C	Cis_chr	lymphoblastoid	RTeQTL

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:30150600-30179200	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr6:30156800-30174600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr6:30158400-30179600	Weak transcription	Fetal Brain Male	brain
4	chr6:30167000-30178000	Weak transcription	Fetal Brain Female	brain
5	chr6:30168800-30174800	Weak transcription	Rectal Smooth Muscle	rectum
6	chr6:30168800-30179800	Weak transcription	Placenta Amnion	Placenta Amnion
7	chr6:30169000-30174600	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr6:30169000-30174600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr6:30169000-30174600	Weak transcription	Colonic Mucosa	Colon
10	chr6:30169000-30174600	Weak transcription	Fetal Lung	lung
11	chr6:30169000-30174800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
12	chr6:30169000-30175000	Weak transcription	Ovary	ovary
13	chr6:30169000-30175000	Weak transcription	HUVEC	blood vessel
14	chr6:30169000-30175200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr6:30169000-30175400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
16	chr6:30169000-30179800	Weak transcription	Aorta	Aorta
17	chr6:30169400-30175200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr6:30170000-30174600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
19	chr6:30170200-30175000	Strong transcription	Fetal Stomach	stomach
20	chr6:30170200-30179200	Weak transcription	Primary hematopoietic stem cells	blood
21	chr6:30170400-30174600	Weak transcription	H1 Cell Line	embryonic stem cell
22	chr6:30170400-30174600	Weak transcription	HUES64 Cell Line	embryonic stem cell
23	chr6:30170400-30174600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
24	chr6:30170400-30174600	Weak transcription	Placenta	Placenta
25	chr6:30170400-30174600	Weak transcription	Small Intestine	intestine
26	chr6:30170400-30174600	Weak transcription	Spleen	Spleen
27	chr6:30170400-30175000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
28	chr6:30170600-30174600	Weak transcription	Fetal Thymus	thymus
29	chr6:30170600-30174800	Weak transcription	HUES48 Cell Line	embryonic stem cell
30	chr6:30170600-30179600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
31	chr6:30171600-30176200	Strong transcription	Primary T cells from cord blood	blood
32	chr6:30172000-30174800	Genic enhancers	Fetal Intestine Small	intestine
33	chr6:30172000-30176000	Enhancers	Primary neutrophils fromperipheralblood	blood
34	chr6:30172200-30174600	Weak transcription	Brain Substantia Nigra	brain
35	chr6:30172200-30174800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
36	chr6:30172400-30174600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
37	chr6:30172400-30174600	Weak transcription	HSMM	muscle
38	chr6:30172400-30174600	Weak transcription	Monocytes-CD14+_RO01746	blood
39	chr6:30172400-30174800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
40	chr6:30172400-30174800	Weak transcription	Brain Inferior Temporal Lobe	brain
41	chr6:30172400-30175000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
42	chr6:30172400-30175200	Weak transcription	Primary monocytes fromperipheralblood	blood
43	chr6:30172400-30179200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
44	chr6:30172600-30176800	Weak transcription	Dnd41	blood
45	chr6:30172600-30178400	Enhancers	Esophagus	oesophagus
46	chr6:30172600-30179800	Enhancers	Primary T helper cells fromperipheralblood	blood
47	chr6:30172800-30174600	Weak transcription	Brain Hippocampus Middle	brain
48	chr6:30172800-30174600	Weak transcription	Hela-S3	cervix
49	chr6:30172800-30175200	Weak transcription	Cortex derived primary cultured neurospheres	brain
50	chr6:30173000-30174600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood

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