Variant report

Variant	rs36676
Chromosome Location	chr5:36740339-36740340
allele	G/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:11)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:11 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr5:36737437..36743261-chr5:36869203..36877805,11	K562	blood:
2	chr5:36738583..36742028-chr5:37005460..37008682,3	K562	blood:
3	chr5:36735951..36742213-chr5:36874615..36878501,8	K562	blood:
4	chr5:36731899..36747051-chr5:36866466..36880074,35	MCF-7	breast:
5	chr5:36739471..36740387-chr5:36876041..36876823,2	K562	blood:
6	chr5:36739462..36740370-chr5:36944609..36945180,2	K562	blood:
7	chr5:36737510..36747021-chr5:36869125..36879786,23	MCF-7	breast:
8	chr5:36740003..36742433-chr5:37003090..37005628,2	MCF-7	breast:
9	chr5:36739389..36740461-chr5:36870260..36871235,10	MCF-7	breast:
10	chr5:36739872..36740401-chr5:36870242..36870784,2	K562	blood:
11	chr5:36728800..36729584-chr5:36739825..36740408,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000164190	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10941316	0.88[JPT][hapmap]
rs13162626	0.85[CEU][hapmap];0.84[TSI][hapmap]
rs13187028	0.85[CEU][hapmap];0.84[TSI][hapmap]
rs165962	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[YRI][hapmap];0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs187391	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs245671	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs245672	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[YRI][hapmap];0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs245674	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs36650	1.00[CEU][hapmap];0.91[GIH][hapmap];0.93[MEX][hapmap];0.88[TSI][hapmap];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs36668	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs36669	0.81[CHB][hapmap];0.88[JPT][hapmap]
rs36671	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs36672	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs36675	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs42320	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs42914	0.80[YRI][hapmap]
rs923957	0.85[CEU][hapmap];0.84[TSI][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	nsv492319	chr5:36570707-37061019	Weak transcription Active TSS Flanking Active TSS Strong transcription Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
2	nsv830263	chr5:36576504-36755093	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs36676	LMBRD2	cis	cerebellum	SCAN

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:36729200-36744200	Weak transcription	Spleen	Spleen
2	chr5:36738000-36743800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr5:36738800-36743000	Weak transcription	Fetal Brain Female	brain
4	chr5:36739200-36742200	Enhancers	Stomach Mucosa	stomach
5	chr5:36739200-36742400	Enhancers	Fetal Muscle Leg	muscle
6	chr5:36739400-36740400	Enhancers	iPS-15b Cell Line	embryonic stem cell
7	chr5:36739400-36740800	Flanking Active TSS	K562	blood
8	chr5:36739400-36741800	Enhancers	Fetal Intestine Small	intestine
9	chr5:36739600-36740400	Enhancers	iPS-18 Cell Line	embryonic stem cell
10	chr5:36739600-36740600	Weak transcription	Small Intestine	intestine
11	chr5:36739600-36741600	Enhancers	Duodenum Mucosa	Duodenum
12	chr5:36739800-36742200	Enhancers	Fetal Lung	lung
13	chr5:36739800-36744400	Weak transcription	Primary hematopoietic stem cells	blood
14	chr5:36740000-36740400	Flanking Active TSS	Fetal Intestine Large	intestine
15	chr5:36740000-36740400	Enhancers	Rectal Mucosa Donor 31	rectum
16	chr5:36740000-36740400	Flanking Active TSS	HSMMtube	muscle
17	chr5:36740000-36740800	Enhancers	NH-A	brain
18	chr5:36740000-36741800	Enhancers	Gastric	stomach
19	chr5:36740000-36741800	Enhancers	Pancreas	Pancrea
20	chr5:36740000-36742000	Enhancers	Fetal Kidney	kidney
21	chr5:36740000-36743800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr5:36740200-36740400	Flanking Active TSS	Muscle Satellite Cultured Cells	--
23	chr5:36740200-36740400	Enhancers	Rectal Mucosa Donor 29	rectum
24	chr5:36740200-36740400	Enhancers	HepG2	liver
25	chr5:36740200-36740600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chr5:36740200-36740600	Enhancers	Osteobl	bone
27	chr5:36740200-36741000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
28	chr5:36740200-36741000	Enhancers	HSMM	muscle
29	chr5:36740200-36741200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
30	chr5:36740200-36741400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr5:36740200-36741400	Enhancers	Fetal Muscle Trunk	muscle
32	chr5:36740200-36742400	Enhancers	Fetal Stomach	stomach
33	chr5:36740200-36743800	Weak transcription	NHEK	skin
34	chr5:36740200-36744000	Weak transcription	Brain Anterior Caudate	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links