Variant report

Variant	rs13151283
Chromosome Location	chr4:153027177-153027178
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs11727245	0.97[ASN][1000 genomes]
rs11734900	0.97[ASN][1000 genomes]
rs13107968	0.97[ASN][1000 genomes]
rs13140099	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs13147317	0.93[ASN][1000 genomes]
rs17276450	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17276520	0.90[ASN][1000 genomes]
rs17361216	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17361258	1.00[ASN][1000 genomes]
rs1991223	0.82[EUR][1000 genomes]
rs28531716	0.92[ASN][1000 genomes]
rs34067446	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34509512	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34771630	1.00[ASN][1000 genomes]
rs35336515	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35897176	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66476112	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6843300	0.93[ASN][1000 genomes]

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	nsv880341	chr4:152861685-153110256	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv931416	chr4:152877808-153440553	Genic enhancers Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	20 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs13151283	RP11-18H21.1	cis	Whole Blood	GTEx

Chromatin state (count:92 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:153021200-153029400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
2	chr4:153022000-153027200	Weak transcription	Primary monocytes fromperipheralblood	blood
3	chr4:153022400-153027200	Weak transcription	Duodenum Mucosa	Duodenum
4	chr4:153022400-153027200	Weak transcription	Rectal Mucosa Donor 29	rectum
5	chr4:153022400-153027400	Weak transcription	Rectal Smooth Muscle	rectum
6	chr4:153022400-153027600	Weak transcription	Brain Cingulate Gyrus	brain
7	chr4:153022400-153027600	Weak transcription	Rectal Mucosa Donor 31	rectum
8	chr4:153022400-153029400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
9	chr4:153022600-153027600	Enhancers	A549	lung
10	chr4:153022800-153027200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr4:153022800-153027400	Weak transcription	Skeletal Muscle Female	skeletal muscle
12	chr4:153022800-153028400	Weak transcription	Brain Hippocampus Middle	brain
13	chr4:153023000-153027600	Weak transcription	Brain Angular Gyrus	brain
14	chr4:153023200-153027200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
15	chr4:153023600-153027800	Weak transcription	Brain Substantia Nigra	brain
16	chr4:153023800-153027200	Weak transcription	Brain Inferior Temporal Lobe	brain
17	chr4:153023800-153027200	Weak transcription	HSMMtube	muscle
18	chr4:153023800-153027800	Weak transcription	Esophagus	oesophagus
19	chr4:153023800-153040000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
20	chr4:153024000-153027200	Weak transcription	Duodenum Smooth Muscle	Duodenum
21	chr4:153024000-153027600	Weak transcription	HUES6 Cell Line	embryonic stem cell
22	chr4:153024000-153027600	Weak transcription	Gastric	stomach
23	chr4:153024200-153027800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
24	chr4:153024200-153031400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
25	chr4:153024200-153032600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
26	chr4:153024400-153030800	Weak transcription	Fetal Brain Female	brain
27	chr4:153024800-153028200	Weak transcription	Fetal Heart	heart
28	chr4:153024800-153030000	Weak transcription	Primary hematopoietic stem cells	blood
29	chr4:153024800-153032200	Enhancers	Primary T cells fromperipheralblood	blood
30	chr4:153024800-153032200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
31	chr4:153024800-153032200	Enhancers	Fetal Muscle Leg	muscle
32	chr4:153024800-153037000	Enhancers	Primary T helper cells fromperipheralblood	blood
33	chr4:153025000-153027800	Weak transcription	Skeletal Muscle Male	skeletal muscle
34	chr4:153025200-153027200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
35	chr4:153025200-153027200	Weak transcription	Small Intestine	intestine
36	chr4:153025200-153027800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
37	chr4:153025400-153028000	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
38	chr4:153025400-153028600	Enhancers	Fetal Muscle Trunk	muscle
39	chr4:153025400-153032600	Enhancers	Primary T helper naive cells from peripheral blood	blood
40	chr4:153025400-153032600	Enhancers	Primary T killer memory cells from peripheral blood	blood
41	chr4:153025600-153027600	Weak transcription	Right Atrium	heart
42	chr4:153025600-153030600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
43	chr4:153025800-153027400	Weak transcription	Primary B cells from cord blood	blood
44	chr4:153025800-153027800	Enhancers	Primary T regulatory cells fromperipheralblood	blood
45	chr4:153025800-153028400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
46	chr4:153025800-153029000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
47	chr4:153026000-153027600	Enhancers	NHDF-Ad	bronchial
48	chr4:153026000-153028000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
49	chr4:153026000-153028200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
50	chr4:153026000-153028400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links