Variant report

Variant	rs1615190
Chromosome Location	chr2:231337960-231337961
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SP140L-5	chr2:231337832-231338155	NONHSAT077289

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

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs1050224	1.00[CHB][hapmap];1.00[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs1622283	0.99[ASN][1000 genomes]
rs1622822	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1622980	0.86[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.97[AMR][1000 genomes];0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1649869	1.00[CHB][hapmap];1.00[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs1649884	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs1649890	1.00[CHB][hapmap];1.00[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs1649921	0.93[CEU][hapmap]
rs1649925	0.88[AMR][1000 genomes]
rs1649929	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1678151	0.88[AMR][1000 genomes]
rs1678199	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1678205	0.93[CEU][hapmap]
rs1678210	0.94[AMR][1000 genomes]
rs1678211	0.88[AMR][1000 genomes]
rs2219811	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4972955	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4973324	0.93[AMR][1000 genomes]
rs4973325	0.88[AMR][1000 genomes]
rs6436942	0.86[AMR][1000 genomes]
rs6436944	0.92[CEU][hapmap]
rs6436945	0.93[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv18000	chr2:231072978-231467847	Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv584672	chr2:231289976-231348888	Enhancers Strong transcription Weak transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Active TSS	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:88 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:231288800-231356000	Weak transcription	Stomach Mucosa	stomach
2	chr2:231301800-231345000	Weak transcription	A549	lung
3	chr2:231321800-231338600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr2:231322200-231340200	Strong transcription	Liver	Liver
5	chr2:231322600-231338200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
6	chr2:231325800-231338400	Strong transcription	Left Ventricle	heart
7	chr2:231325800-231338600	Strong transcription	Lung	lung
8	chr2:231325800-231338800	Strong transcription	Sigmoid Colon	Sigmoid Colon
9	chr2:231328200-231338400	Strong transcription	Fetal Muscle Leg	muscle
10	chr2:231329600-231343800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr2:231331200-231338400	Strong transcription	Rectal Mucosa Donor 31	rectum
12	chr2:231332000-231345200	Weak transcription	Brain Substantia Nigra	brain
13	chr2:231332200-231338200	Weak transcription	Fetal Muscle Trunk	muscle
14	chr2:231332400-231344400	Weak transcription	Gastric	stomach
15	chr2:231332800-231339200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr2:231333400-231339800	Genic enhancers	Primary B cells from cord blood	blood
17	chr2:231334200-231356000	Weak transcription	Fetal Intestine Small	intestine
18	chr2:231334600-231340000	Genic enhancers	Primary B cells from peripheral blood	blood
19	chr2:231334800-231358400	Weak transcription	Fetal Stomach	stomach
20	chr2:231335000-231344400	Weak transcription	Aorta	Aorta
21	chr2:231335000-231359000	Weak transcription	NHLF	lung
22	chr2:231335600-231339000	Genic enhancers	Primary T helper cells PMA-I stimulated	--
23	chr2:231335600-231340200	Weak transcription	Fetal Intestine Large	intestine
24	chr2:231335600-231344600	Weak transcription	Pancreas	Pancrea
25	chr2:231336000-231343800	Weak transcription	Skeletal Muscle Male	skeletal muscle
26	chr2:231336000-231344400	Weak transcription	Esophagus	oesophagus
27	chr2:231336000-231356000	Weak transcription	NHDF-Ad	bronchial
28	chr2:231336200-231342200	Weak transcription	Rectal Mucosa Donor 29	rectum
29	chr2:231336200-231344400	Weak transcription	HSMMtube	muscle
30	chr2:231336400-231338000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
31	chr2:231336400-231338400	Genic enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
32	chr2:231336400-231339200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
33	chr2:231336400-231339400	Weak transcription	Psoas Muscle	Psoas
34	chr2:231336400-231343800	Weak transcription	Rectal Smooth Muscle	rectum
35	chr2:231336400-231345200	Weak transcription	Small Intestine	intestine
36	chr2:231336400-231363400	Weak transcription	Fetal Lung	lung
37	chr2:231336600-231338200	Genic enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
38	chr2:231336600-231338400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
39	chr2:231336600-231339000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
40	chr2:231336600-231340000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
41	chr2:231336600-231342200	Weak transcription	Ovary	ovary
42	chr2:231336600-231344200	Weak transcription	Duodenum Mucosa	Duodenum
43	chr2:231336600-231345000	Weak transcription	Spleen	Spleen
44	chr2:231336600-231356200	Weak transcription	Placenta	Placenta
45	chr2:231336600-231363400	Weak transcription	Right Ventricle	heart
46	chr2:231336800-231338000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
47	chr2:231336800-231338000	Weak transcription	Primary T cells fromperipheralblood	blood
48	chr2:231336800-231338000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
49	chr2:231336800-231338000	Weak transcription	Fetal Thymus	thymus
50	chr2:231336800-231338000	Weak transcription	Thymus	Thymus

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links