Variant report

Variant	rs59876709
Chromosome Location	chr10:21854738-21854739
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	POLR2A	chr10:21854500-21854784	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:21822224..21824200-chr10:21854065..21856525,2	K562	blood:

Variant related genes	Relation type
RNU6-306P	TF binding region
ENSG00000078403	Chromatin interaction

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10047405	1.00[EUR][1000 genomes]
rs10218956	1.00[EUR][1000 genomes]
rs11012731	1.00[EUR][1000 genomes]
rs11012742	1.00[EUR][1000 genomes]
rs12245121	1.00[EUR][1000 genomes]
rs12245234	1.00[EUR][1000 genomes]
rs12249032	1.00[EUR][1000 genomes]
rs12250810	1.00[EUR][1000 genomes]
rs12251567	1.00[EUR][1000 genomes]
rs12251847	1.00[EUR][1000 genomes]
rs12260551	1.00[EUR][1000 genomes]
rs12266450	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs2183270	1.00[EUR][1000 genomes]
rs7068942	1.00[EUR][1000 genomes]
rs7083214	1.00[EUR][1000 genomes]
rs7904218	1.00[EUR][1000 genomes]
rs7910760	1.00[EUR][1000 genomes]
rs7911585	1.00[EUR][1000 genomes]
rs9971055	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv825285	chr10:21742026-21874334	Strong transcription Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	34 gene(s)	inside rSNPs	diseases
2	nsv1052477	chr10:21810270-21889726	Active TSS Genic enhancers Enhancers Weak transcription Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
3	nsv1036585	chr10:21833717-21998042	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
4	nsv947765	chr10:21845377-21874408	Genic enhancers Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:21824600-21864600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr10:21824600-21930400	Weak transcription	Gastric	stomach
3	chr10:21824800-21860200	Weak transcription	Psoas Muscle	Psoas
4	chr10:21825200-21854800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr10:21825600-21857800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
6	chr10:21825800-21856200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr10:21828000-21856600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
8	chr10:21832000-21856400	Weak transcription	Colonic Mucosa	Colon
9	chr10:21832000-21876400	Weak transcription	Aorta	Aorta
10	chr10:21832800-21856200	Weak transcription	Pancreas	Pancrea
11	chr10:21833400-21856200	Weak transcription	Small Intestine	intestine
12	chr10:21833400-21856400	Weak transcription	Colon Smooth Muscle	Colon
13	chr10:21839000-21864200	Weak transcription	Fetal Heart	heart
14	chr10:21839200-21859000	Weak transcription	Right Atrium	heart
15	chr10:21839400-21856200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
16	chr10:21839400-21878200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
17	chr10:21839600-21855000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr10:21839600-21860600	Weak transcription	Brain Substantia Nigra	brain
19	chr10:21839800-21880200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
20	chr10:21840000-21877200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
21	chr10:21841200-21861600	Weak transcription	Skeletal Muscle Male	skeletal muscle
22	chr10:21841200-21897200	Weak transcription	Fetal Kidney	kidney
23	chr10:21841400-21859800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
24	chr10:21841600-21870000	Weak transcription	Right Ventricle	heart
25	chr10:21842200-21897200	Weak transcription	Fetal Brain Male	brain
26	chr10:21842600-21858600	Weak transcription	Spleen	Spleen
27	chr10:21844000-21856200	Weak transcription	NHLF	lung
28	chr10:21844000-21862200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
29	chr10:21844600-21896600	Weak transcription	Hela-S3	cervix
30	chr10:21845800-21862000	Weak transcription	Stomach Smooth Muscle	stomach
31	chr10:21846600-21860800	Weak transcription	Brain Cingulate Gyrus	brain
32	chr10:21846800-21861400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
33	chr10:21846800-21874000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
34	chr10:21846800-21874800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
35	chr10:21846800-21882200	Weak transcription	Brain Germinal Matrix	brain
36	chr10:21846800-21889600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
37	chr10:21846800-21892800	Weak transcription	HSMMtube	muscle
38	chr10:21846800-21913600	Weak transcription	Rectal Smooth Muscle	rectum
39	chr10:21847000-21901200	Weak transcription	HUVEC	blood vessel
40	chr10:21848200-21860400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
41	chr10:21848400-21855400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
42	chr10:21848400-21865000	Weak transcription	Sigmoid Colon	Sigmoid Colon
43	chr10:21848600-21855600	Weak transcription	Placenta Amnion	Placenta Amnion
44	chr10:21848600-21856200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
45	chr10:21848800-21856400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
46	chr10:21848800-21861200	Weak transcription	Muscle Satellite Cultured Cells	--
47	chr10:21848800-21861600	Weak transcription	Brain Inferior Temporal Lobe	brain
48	chr10:21848800-21914200	Weak transcription	Duodenum Smooth Muscle	Duodenum
49	chr10:21849000-21856200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
50	chr10:21849200-21870400	Weak transcription	NH-A	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links