Variant report

Variant	rs10796957
Chromosome Location	chr1:156021891-156021892
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:15)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:15 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr1:156021331..156026057-chr1:156049736..156053911,15	MCF-7	breast:
2	chr1:155902799..155907084-chr1:156021354..156025347,11	K562	blood:
3	chr1:155971131..155973641-chr1:156021735..156024231,2	MCF-7	breast:
4	chr1:156020742..156022293-chr1:156182023..156184526,2	K562	blood:
5	chr1:155988173..156003032-chr1:156020965..156026206,23	MCF-7	breast:
6	chr1:156020921..156027711-chr1:156049923..156054443,13	MCF-7	breast:
7	chr1:155994840..155997180-chr1:156020881..156023261,2	K562	blood:
8	chr1:156019770..156022160-chr1:156025099..156027849,3	K562	blood:
9	chr1:155987340..155997180-chr1:156020881..156026682,16	K562	blood:
10	chr1:156021326..156025416-chr1:156250593..156254083,4	K562	blood:
11	chr1:156019900..156022370-chr1:156251912..156253578,2	K562	blood:
12	chr1:156021824..156029449-chr1:156048211..156054505,9	K562	blood:
13	chr1:155989047..155993552-chr1:156021675..156026301,17	MCF-7	breast:
14	chr1:155879790..155882420-chr1:156020519..156022894,2	K562	blood:
15	chr1:156000107..156002837-chr1:156019782..156022957,3	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000163472	Chromatin interaction
ENSG00000160789	Chromatin interaction
ENSG00000143622	Chromatin interaction
ENSG00000260238	Chromatin interaction
ENSG00000116586	Chromatin interaction
ENSG00000116584	Chromatin interaction
ENSG00000163479	Chromatin interaction
ENSG00000198952	Chromatin interaction
ENSG00000132680	Chromatin interaction
ENSG00000254726	Chromatin interaction
ENSG00000160783	Chromatin interaction

Extended variants
information (count: 8 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs10158536	1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10752614	1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10908487	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12080245	1.00[GIH][hapmap];1.00[TSI][hapmap];1.00[ASN][1000 genomes]
rs12138913	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1804478	1.00[TSI][hapmap];1.00[ASN][1000 genomes]
rs4661096	1.00[GIH][hapmap];1.00[TSI][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv916198	chr1:155804210-156403997	Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	428 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10796957	CSNK2A2	trans	lymphoblastoid	seeQTL

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:155996200-156022400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr1:156001200-156022400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
3	chr1:156005200-156022400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
4	chr1:156005400-156022000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr1:156005800-156022000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr1:156005800-156022000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr1:156005800-156022000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr1:156005800-156022000	Strong transcription	Fetal Stomach	stomach
9	chr1:156009000-156022400	Weak transcription	Primary neutrophils fromperipheralblood	blood
10	chr1:156009200-156022400	Weak transcription	Small Intestine	intestine
11	chr1:156012600-156022400	Weak transcription	Primary monocytes fromperipheralblood	blood
12	chr1:156012800-156022000	Weak transcription	Placenta Amnion	Placenta Amnion
13	chr1:156013600-156022600	Weak transcription	Ovary	ovary
14	chr1:156015000-156022400	Weak transcription	Rectal Smooth Muscle	rectum
15	chr1:156015400-156022400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
16	chr1:156015400-156022400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
17	chr1:156015600-156022600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
18	chr1:156016600-156022400	Weak transcription	Duodenum Smooth Muscle	Duodenum
19	chr1:156017200-156022600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
20	chr1:156018800-156022600	Weak transcription	Right Atrium	heart
21	chr1:156019000-156022600	Weak transcription	Aorta	Aorta
22	chr1:156019400-156022400	Weak transcription	Adipose Nuclei	Adipose
23	chr1:156019600-156022000	Genic enhancers	Fetal Muscle Trunk	muscle
24	chr1:156019600-156022200	Weak transcription	Fetal Kidney	kidney
25	chr1:156019600-156022400	Weak transcription	Primary B cells from peripheral blood	blood
26	chr1:156019800-156022400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
27	chr1:156019800-156022600	Weak transcription	Primary B cells from cord blood	blood
28	chr1:156020000-156022200	Strong transcription	Cortex derived primary cultured neurospheres	brain
29	chr1:156020000-156022400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
30	chr1:156020000-156022400	Weak transcription	NHDF-Ad	bronchial
31	chr1:156020000-156022600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
32	chr1:156020200-156022200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
33	chr1:156020200-156022200	Weak transcription	Spleen	Spleen
34	chr1:156020200-156022400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
35	chr1:156020200-156022400	Weak transcription	Primary hematopoietic stem cells	blood
36	chr1:156020200-156022400	Weak transcription	Rectal Mucosa Donor 31	rectum
37	chr1:156020200-156022400	Weak transcription	NH-A	brain
38	chr1:156020200-156022400	Weak transcription	Osteobl	bone
39	chr1:156020200-156022600	Weak transcription	Liver	Liver
40	chr1:156020200-156022600	Enhancers	Right Ventricle	heart
41	chr1:156020400-156022200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
42	chr1:156020400-156022200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
43	chr1:156020400-156022200	Weak transcription	GM12878-XiMat	blood
44	chr1:156020400-156022400	Weak transcription	H9 Cell Line	embryonic stem cell
45	chr1:156020400-156022400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
46	chr1:156020400-156022400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
47	chr1:156020400-156022400	Weak transcription	Colon Smooth Muscle	Colon
48	chr1:156020400-156022400	Weak transcription	Duodenum Mucosa	Duodenum
49	chr1:156020400-156022400	Weak transcription	Sigmoid Colon	Sigmoid Colon
50	chr1:156020400-156022400	Weak transcription	HUVEC	blood vessel

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links