Variant report

Variant	rs12261029
Chromosome Location	chr10:97849786-97849787
allele	C/G
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:17)
LncRNA
region (count:9)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:17 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr10:97849316..97850266-chr10:97888828..97890559,6	MCF-7	breast:
2	chr10:97845791..97859010-chr10:97880529..97895862,76	K562	blood:
3	chr1:180991526..180992387-chr10:97849546..97850515,2	Hela-S3	cervix:
4	chr10:97848038..97851071-chr10:97871743..97873669,3	MCF-7	breast:
5	chr10:97847100..97852766-chr10:97886402..97893071,22	MCF-7	breast:
6	chr10:97849137..97850103-chr16:88729017..88729956,2	Hela-S3	cervix:
7	chr10:97800624..97806520-chr10:97847575..97852414,10	K562	blood:
8	chr10:97849403..97850506-chr10:97889252..97890588,8	NB4	blood:
9	chr10:97849360..97850496-chr10:97889363..97891052,12	MCF-7	breast:
10	chr10:97848840..97850347-chr10:98030578..98032838,2	MCF-7	breast:
11	chr10:97803257..97805604-chr10:97849531..97852092,3	MCF-7	breast:
12	chr10:97849703..97850208-chr11:68038903..68039449,2	Hela-S3	cervix:
13	chr10:97802232..97804620-chr10:97847329..97851017,4	K562	blood:
14	chr1:161719154..161719824-chr10:97849699..97850320,2	Hela-S3	cervix:
15	chr10:97849709..97850473-chr10:97889478..97890662,4	HCT-116	colon:
16	chr10:97847401..97854280-chr10:97883753..97891876,34	MCF-7	breast:
17	chr10:97838555..97859010-chr10:97880529..97894933,78	K562	blood:

(count:9 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-TCTN3-1	chr10:97849739-97849956	XLOC_008914
2	lnc-TCTN3-1	chr10:97849739-97849969	ENSG00000226688.1
3	lnc-TCTN3-1	chr10:97849739-97849971	ENSG00000226688.1
4	lnc-TCTN3-1	chr10:97849739-97849912	ENSG00000226688.1
5	lnc-TCTN3-1	chr10:97849739-97849995	ENSG00000226688.1
6	lnc-TCTN3-1	chr10:97849739-97849992	NONHSAT015766
7	lnc-TCTN3-1	chr10:97849739-97849986	NONHSAT015782
8	lnc-CCNJ-4	chr10:97849288-97850240	NONHSAT015791
9	lnc-TCTN3-1	chr10:97849739-97849982	ENSG00000226688.1

No data

Variant related genes	Relation type
ENSG00000095585	Chromatin interaction
ENSG00000135823	Chromatin interaction
ENSG00000226688	Chromatin interaction
ENSG00000171067	Chromatin interaction
ENSG00000167508	Chromatin interaction
ENSG00000081721	Chromatin interaction
ENSG00000107443	Chromatin interaction
ENSG00000200728	Chromatin interaction
ENSG00000260630	Chromatin interaction
ENSG00000177853	Chromatin interaction

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs11188592	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11188600	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11188654	0.88[EUR][1000 genomes]
rs1172942	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1172944	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1172945	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1172949	0.84[EUR][1000 genomes]
rs12255700	0.88[EUR][1000 genomes]
rs12261332	0.88[ASN][1000 genomes]
rs12263592	0.94[ASN][1000 genomes]
rs12413222	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12414619	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1336456	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1981151	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2125061	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2446024	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2484914	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2484915	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3762091	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs41291599	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs41291604	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs45564037	0.87[EUR][1000 genomes]
rs4918985	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7087644	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]

No data

Chromatin state (count:117 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:97848400-97850200	Active TSS	GM12878-XiMat	blood
2	chr10:97848400-97850200	Active TSS	K562	blood
3	chr10:97849000-97850000	Active TSS	Rectal Mucosa Donor 31	rectum
4	chr10:97849000-97850000	Active TSS	HMEC	breast
5	chr10:97849000-97850200	Active TSS	iPS-15b Cell Line	embryonic stem cell
6	chr10:97849000-97850200	Active TSS	Primary hematopoietic stem cells	blood
7	chr10:97849000-97850200	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr10:97849000-97850200	Active TSS	Liver	Liver
9	chr10:97849000-97850200	Active TSS	Brain Substantia Nigra	brain
10	chr10:97849000-97850200	Active TSS	Duodenum Smooth Muscle	Duodenum
11	chr10:97849000-97850200	Active TSS	Fetal Intestine Large	intestine
12	chr10:97849000-97850200	Active TSS	Stomach Smooth Muscle	stomach
13	chr10:97849000-97850200	Active TSS	A549	lung
14	chr10:97849000-97850200	Active TSS	NHEK	skin
15	chr10:97849000-97850400	Active TSS	ES-I3 Cell Line	embryonic stem cell
16	chr10:97849000-97850400	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr10:97849000-97850400	Active TSS	Fetal Brain Female	brain
18	chr10:97849000-97850400	Active TSS	Fetal Kidney	kidney
19	chr10:97849000-97850400	Active TSS	Pancreatic Islets	Pancreatic Islet
20	chr10:97849000-97850600	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr10:97849000-97850600	Active TSS	HSMMtube	muscle
22	chr10:97849000-97850800	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
23	chr10:97849000-97850800	Active TSS	Rectal Mucosa Donor 29	rectum
24	chr10:97849200-97850000	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
25	chr10:97849200-97850000	Active TSS	Primary monocytes fromperipheralblood	blood
26	chr10:97849200-97850000	Active TSS	Primary B cells from peripheral blood	blood
27	chr10:97849200-97850000	Active TSS	Primary T helper naive cells from peripheral blood	blood
28	chr10:97849200-97850000	Active TSS	Adipose Nuclei	Adipose
29	chr10:97849200-97850200	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
30	chr10:97849200-97850200	Active TSS	Breast Myoepithelial Primary Cells	Breast
31	chr10:97849200-97850200	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
32	chr10:97849200-97850200	Active TSS	Primary T cells from cord blood	blood
33	chr10:97849200-97850200	Active TSS	Primary hematopoietic stem cells short term culture	blood
34	chr10:97849200-97850200	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
35	chr10:97849200-97850200	Active TSS	Brain Angular Gyrus	brain
36	chr10:97849200-97850200	Active TSS	Brain Anterior Caudate	brain
37	chr10:97849200-97850200	Active TSS	Brain Cingulate Gyrus	brain
38	chr10:97849200-97850200	Active TSS	Brain Hippocampus Middle	brain
39	chr10:97849200-97850200	Active TSS	Brain Inferior Temporal Lobe	brain
40	chr10:97849200-97850200	Active TSS	Colonic Mucosa	Colon
41	chr10:97849200-97850200	Active TSS	Colon Smooth Muscle	Colon
42	chr10:97849200-97850200	Active TSS	Fetal Adrenal Gland	Adrenal Gland
43	chr10:97849200-97850200	Active TSS	Fetal Intestine Small	intestine
44	chr10:97849200-97850200	Active TSS	Fetal Muscle Trunk	muscle
45	chr10:97849200-97850200	Active TSS	Fetal Muscle Leg	muscle
46	chr10:97849200-97850200	Active TSS	Fetal Thymus	thymus
47	chr10:97849200-97850200	Active TSS	Psoas Muscle	Psoas
48	chr10:97849200-97850200	Active TSS	Rectal Smooth Muscle	rectum
49	chr10:97849200-97850200	Active TSS	Right Atrium	heart
50	chr10:97849200-97850200	Active TSS	Skeletal Muscle Male	skeletal muscle

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