Variant report

Variant	rs10508912
Chromosome Location	chr10:50386887-50386888
allele	C/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	MAZ	chr10:50386694-50386891	K562	blood:	n/a	n/a
2	MAX	chr10:50386411-50386943	K562	blood:	n/a	n/a
3	POLR2A	chr10:50383633-50387422	K562	blood:	n/a	n/a
4	JUN	chr10:50384945-50387723	K562	blood:	n/a	chr10:50385735-50385743 chr10:50385644-50385654 chr10:50385645-50385653 chr10:50385195-50385203 chr10:50385981-50385992 chr10:50385641-50385652 chr10:50387566-50387578 chr10:50387116-50387127
5	EP300	chr10:50386572-50386945	K562	blood:	n/a	n/a
6	RCOR1	chr10:50385394-50387250	K562	blood:	n/a	n/a
7	UBTF	chr10:50386814-50387123	K562	blood:	n/a	n/a
8	GTF3C2	chr10:50386519-50386927	K562	blood:	n/a	n/a
9	CBX3	chr10:50386455-50386919	K562	blood:	n/a	n/a
10	ZNF143	chr10:50386530-50386934	K562	blood:	n/a	n/a
11	CUX1	chr10:50386506-50387233	K562	blood:	n/a	n/a
12	ZNF143	chr10:50386578-50386937	GM12878	blood:	n/a	n/a
13	RCOR1	chr10:50386555-50387110	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:50372843..50375654-chr10:50384413..50387038,2	MCF-7	breast:
2	chr10:50384969..50387621-chr10:50504946..50509741,4	K562	blood:

Variant related genes	Relation type
C10orf128	TF binding region
ENSG00000177354	Chromatin interaction
ENSG00000204161	Chromatin interaction
ENSG00000236208	Chromatin interaction

Extended variants
information (count: 7 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs12253763	0.90[JPT][hapmap]
rs17701543	0.90[JPT][hapmap]
rs17701549	0.90[JPT][hapmap]
rs17782982	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17783067	1.00[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv895375	chr10:50306386-51028871	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases
2	nsv534410	chr10:50317458-50826916	Weak transcription Bivalent Enhancer Enhancers Active TSS Strong transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:45 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:50376800-50395200	Enhancers	Primary B cells from peripheral blood	blood
2	chr10:50378000-50388600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
3	chr10:50381800-50394800	Weak transcription	Rectal Mucosa Donor 31	rectum
4	chr10:50382200-50390000	Enhancers	K562	blood
5	chr10:50383400-50395200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr10:50383800-50387200	Genic enhancers	Primary hematopoietic stem cells short term culture	blood
7	chr10:50384200-50387000	Enhancers	Adipose Nuclei	Adipose
8	chr10:50384200-50387000	Enhancers	Brain Substantia Nigra	brain
9	chr10:50384200-50389600	Enhancers	Primary B cells from cord blood	blood
10	chr10:50384400-50396000	Enhancers	Primary neutrophils fromperipheralblood	blood
11	chr10:50384600-50387200	Enhancers	Dnd41	blood
12	chr10:50384800-50387600	Enhancers	Primary monocytes fromperipheralblood	blood
13	chr10:50384800-50388600	Enhancers	Spleen	Spleen
14	chr10:50385200-50388200	Weak transcription	Primary T helper cells PMA-I stimulated	--
15	chr10:50385400-50387400	Enhancers	Monocytes-CD14+_RO01746	blood
16	chr10:50385400-50391800	Weak transcription	Primary T helper cells fromperipheralblood	blood
17	chr10:50385600-50390000	Weak transcription	Fetal Lung	lung
18	chr10:50385800-50389200	Enhancers	GM12878-XiMat	blood
19	chr10:50386000-50387400	Weak transcription	Small Intestine	intestine
20	chr10:50386000-50388000	Weak transcription	Fetal Thymus	thymus
21	chr10:50386000-50388400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
22	chr10:50386000-50390800	Weak transcription	Primary hematopoietic stem cells	blood
23	chr10:50386000-50394800	Weak transcription	Brain Anterior Caudate	brain
24	chr10:50386000-50395200	Weak transcription	Psoas Muscle	Psoas
25	chr10:50386200-50387800	Weak transcription	Colonic Mucosa	Colon
26	chr10:50386200-50388000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
27	chr10:50386200-50388000	Weak transcription	Right Atrium	heart
28	chr10:50386200-50389200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
29	chr10:50386200-50391600	Weak transcription	HUVEC	blood vessel
30	chr10:50386200-50392800	Weak transcription	Brain Cingulate Gyrus	brain
31	chr10:50386200-50396000	Weak transcription	Placenta	Placenta
32	chr10:50386400-50387800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
33	chr10:50386400-50392400	Weak transcription	Brain Hippocampus Middle	brain
34	chr10:50386400-50395200	Weak transcription	Skeletal Muscle Female	skeletal muscle
35	chr10:50386600-50387800	Weak transcription	Primary T cells fromperipheralblood	blood
36	chr10:50386600-50387800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
37	chr10:50386600-50388200	Weak transcription	Left Ventricle	heart
38	chr10:50386600-50391000	Weak transcription	Rectal Mucosa Donor 29	rectum
39	chr10:50386600-50391600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
40	chr10:50386600-50391800	Weak transcription	Skeletal Muscle Male	skeletal muscle
41	chr10:50386600-50395200	Weak transcription	Lung	lung
42	chr10:50386600-50395200	Weak transcription	Right Ventricle	heart
43	chr10:50386800-50387400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
44	chr10:50386800-50387800	Weak transcription	Duodenum Mucosa	Duodenum
45	chr10:50386800-50395200	Weak transcription	Brain Inferior Temporal Lobe	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links