Variant report

Variant	rs74018416
Chromosome Location	chr15:57178670-57178671
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:12)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:12 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr15:57176057..57187872-chr15:57206946..57217524,36	K562	blood:
2	chr15:57178056..57181492-chr15:57182204..57185235,4	MCF-7	breast:
3	chr15:57177826..57180634-chr15:57614648..57617463,2	K562	blood:
4	chr15:57178290..57182491-chr15:57208958..57213003,14	K562	blood:
5	chr15:57178055..57182351-chr15:57208260..57213543,21	MCF-7	breast:
6	chr15:57178054..57181022-chr15:57209016..57212878,5	MCF-7	breast:
7	chr15:57169281..57172339-chr15:57176856..57178790,3	K562	blood:
8	chr15:56536601..56538445-chr15:57177718..57180315,2	K562	blood:
9	chr15:57178197..57180890-chr6:86114463..86117112,2	MCF-7	breast:
10	chr15:57173403..57176748-chr15:57177855..57180719,3	MCF-7	breast:
11	chr15:56773647..56776313-chr15:57177229..57179430,2	K562	blood:
12	chr15:57175109..57176620-chr15:57178319..57180528,2	MCF-7	breast:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-MNS1-3	chr15:57178368-57180122	ENSG00000248500

No data

Variant related genes	Relation type
ENSG00000137871	Chromatin interaction
ENSG00000140262	Chromatin interaction

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs11071295	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11071298	0.91[ASN][1000 genomes]
rs12591688	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1619662	0.83[ASN][1000 genomes]
rs1624705	0.82[ASN][1000 genomes]
rs1652742	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1657948	0.86[ASN][1000 genomes]
rs1660962	1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs60088657	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs61731444	1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs74018413	0.98[ASN][1000 genomes]
rs74018418	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][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	esv3422474	chr15:56867190-57244330	Strong transcription ZNF genes & repeats Active TSS Enhancers Weak transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	nsv833020	chr15:57055947-57216068	Enhancers Flanking Active TSS Weak transcription Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
3	nsv457162	chr15:57083006-57225766	Flanking Active TSS Weak transcription Active TSS Enhancers Genic enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
4	nsv569577	chr15:57083006-57225766	Enhancers Strong transcription Active TSS Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer 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	19 gene(s)	inside rSNPs	diseases
5	nsv1042486	chr15:57094598-57505992	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
6	nsv542393	chr15:57115116-57341363	Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:108 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:57177000-57178800	Enhancers	Fetal Heart	heart
2	chr15:57177400-57179000	Enhancers	Fetal Thymus	thymus
3	chr15:57177800-57178800	Enhancers	Primary monocytes fromperipheralblood	blood
4	chr15:57177800-57178800	Enhancers	Primary neutrophils fromperipheralblood	blood
5	chr15:57177800-57178800	Enhancers	Primary B cells from cord blood	blood
6	chr15:57177800-57178800	Enhancers	Primary B cells from peripheral blood	blood
7	chr15:57177800-57178800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
8	chr15:57177800-57179000	Enhancers	Spleen	Spleen
9	chr15:57178000-57178800	Enhancers	Primary T cells fromperipheralblood	blood
10	chr15:57178000-57178800	Enhancers	Primary hematopoietic stem cells short term culture	blood
11	chr15:57178000-57178800	Enhancers	Primary T helper cells fromperipheralblood	blood
12	chr15:57178000-57178800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
13	chr15:57178000-57178800	Enhancers	Fetal Muscle Leg	muscle
14	chr15:57178000-57179000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
15	chr15:57178000-57179000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
16	chr15:57178200-57178800	Enhancers	Primary T cells from cord blood	blood
17	chr15:57178200-57178800	Enhancers	Primary T helper cells PMA-I stimulated	--
18	chr15:57178200-57178800	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
19	chr15:57178200-57178800	Enhancers	Fetal Brain Male	brain
20	chr15:57178200-57178800	Enhancers	Dnd41	blood
21	chr15:57178200-57179000	Enhancers	Primary T regulatory cells fromperipheralblood	blood
22	chr15:57178200-57179000	Flanking Active TSS	Colon Smooth Muscle	Colon
23	chr15:57178200-57180200	Active TSS	HUES6 Cell Line	embryonic stem cell
24	chr15:57178400-57178800	Enhancers	Brain Germinal Matrix	brain
25	chr15:57178400-57178800	Enhancers	Fetal Intestine Large	intestine
26	chr15:57178400-57178800	Enhancers	Fetal Intestine Small	intestine
27	chr15:57178600-57178800	Flanking Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
28	chr15:57178600-57178800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
29	chr15:57178600-57178800	Flanking Active TSS	iPS-15b Cell Line	embryonic stem cell
30	chr15:57178600-57178800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
31	chr15:57178600-57178800	Enhancers	Breast Myoepithelial Primary Cells	Breast
32	chr15:57178600-57178800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
33	chr15:57178600-57178800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
34	chr15:57178600-57178800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
35	chr15:57178600-57178800	Enhancers	Primary T killer memory cells from peripheral blood	blood
36	chr15:57178600-57178800	Enhancers	Muscle Satellite Cultured Cells	--
37	chr15:57178600-57178800	Enhancers	Cortex derived primary cultured neurospheres	brain
38	chr15:57178600-57178800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
39	chr15:57178600-57178800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
40	chr15:57178600-57178800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
41	chr15:57178600-57178800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
42	chr15:57178600-57178800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
43	chr15:57178600-57178800	Active TSS	Fetal Brain Female	brain
44	chr15:57178600-57178800	Enhancers	Fetal Muscle Trunk	muscle
45	chr15:57178600-57178800	Enhancers	Placenta	Placenta
46	chr15:57178600-57178800	Enhancers	Fetal Stomach	stomach
47	chr15:57178600-57178800	Enhancers	Pancreas	Pancrea
48	chr15:57178600-57178800	Active TSS	Rectal Mucosa Donor 29	rectum
49	chr15:57178600-57178800	Enhancers	Right Atrium	heart
50	chr15:57178600-57178800	Enhancers	HMEC	breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links