Variant report

Variant	rs10882927
Chromosome Location	chr10:99161905-99161906
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:99159358..99162440-chr10:99256931..99260180,3	MCF-7	breast:
2	chr10:99158229..99164055-chr10:99184399..99190088,9	MCF-7	breast:
3	chr10:99159690..99162699-chr10:99184060..99186818,5	K562	blood:
4	chr10:99158602..99162553-chr10:99184335..99188453,6	MCF-7	breast:
5	chr10:99159614..99162570-chr10:99184923..99189339,4	K562	blood:

Variant related genes	Relation type
ENSG00000155229	Chromatin interaction
ENSG00000224474	Chromatin interaction
ENSG00000171314	Chromatin interaction
ENSG00000165886	Chromatin interaction

Extended variants
information (count: 10 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs7895646	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7898743	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7919862	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs954148	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv467437	chr10:99115683-99167436	Flanking Active TSS Active TSS Strong transcription Weak transcription Transcr. at gene 5' and 3' Genic enhancers Enhancers ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
2	nsv552023	chr10:99115683-99167436	Strong transcription Active TSS Weak transcription Genic enhancers Enhancers Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
3	nsv467438	chr10:99126249-99173870	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
4	nsv552024	chr10:99126249-99173870	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
5	nsv467440	chr10:99134784-99204791	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
6	nsv552025	chr10:99134784-99204791	Strong transcription Genic enhancers Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10882927	RRP12	cis	Muscle Skeletal	GTEx
rs10882927	RRP12	cis	Heart Left Ventricle	GTEx

Chromatin state (count:60 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:99161000-99162800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr10:99161200-99163000	Enhancers	Primary monocytes fromperipheralblood	blood
3	chr10:99161200-99167000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr10:99161200-99167000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr10:99161400-99162000	Enhancers	Primary B cells from cord blood	blood
6	chr10:99161400-99162400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr10:99161400-99163200	Enhancers	Monocytes-CD14+_RO01746	blood
8	chr10:99161400-99163800	Weak transcription	HepG2	liver
9	chr10:99161400-99165800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr10:99161400-99165800	Weak transcription	K562	blood
11	chr10:99161400-99166000	Weak transcription	NHEK	skin
12	chr10:99161400-99166400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
13	chr10:99161400-99166400	Weak transcription	A549	lung
14	chr10:99161400-99167000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr10:99161400-99167000	Weak transcription	Liver	Liver
16	chr10:99161600-99165200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr10:99161600-99165400	Weak transcription	Primary hematopoietic stem cells	blood
18	chr10:99161600-99165600	Weak transcription	Adipose Nuclei	Adipose
19	chr10:99161600-99165800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
20	chr10:99161600-99166000	Weak transcription	Primary B cells from peripheral blood	blood
21	chr10:99161600-99166000	Weak transcription	Hela-S3	cervix
22	chr10:99161600-99166400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
23	chr10:99161600-99166400	Weak transcription	Duodenum Mucosa	Duodenum
24	chr10:99161600-99166800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
25	chr10:99161600-99166800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
26	chr10:99161600-99166800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
27	chr10:99161600-99166800	Weak transcription	Primary T helper cells PMA-I stimulated	--
28	chr10:99161600-99166800	Weak transcription	Cortex derived primary cultured neurospheres	brain
29	chr10:99161600-99166800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
30	chr10:99161600-99166800	Weak transcription	Fetal Intestine Small	intestine
31	chr10:99161600-99167000	Weak transcription	H1 Cell Line	embryonic stem cell
32	chr10:99161600-99167000	Weak transcription	Muscle Satellite Cultured Cells	--
33	chr10:99161600-99167000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
34	chr10:99161600-99167000	Weak transcription	Brain Substantia Nigra	brain
35	chr10:99161600-99167000	Weak transcription	Fetal Muscle Leg	muscle
36	chr10:99161600-99167000	Weak transcription	Skeletal Muscle Male	skeletal muscle
37	chr10:99161600-99167000	Weak transcription	Skeletal Muscle Female	skeletal muscle
38	chr10:99161600-99167000	Weak transcription	Dnd41	blood
39	chr10:99161600-99167200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
40	chr10:99161600-99167200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
41	chr10:99161600-99167200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
42	chr10:99161600-99167200	Weak transcription	Primary T helper cells fromperipheralblood	blood
43	chr10:99161600-99167200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
44	chr10:99161600-99167200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
45	chr10:99161600-99167200	Weak transcription	Colon Smooth Muscle	Colon
46	chr10:99161600-99167200	Weak transcription	Fetal Heart	heart
47	chr10:99161600-99167200	Weak transcription	Left Ventricle	heart
48	chr10:99161600-99167200	Weak transcription	Right Atrium	heart
49	chr10:99161600-99167200	Weak transcription	Spleen	Spleen
50	chr10:99161600-99178800	Weak transcription	Fetal Stomach	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links