Variant report

Variant	rs55671162
Chromosome Location	chr5:118259903-118259904
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10519564	0.98[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11954152	0.81[ASN][1000 genomes]
rs12109156	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17132677	0.85[ASN][1000 genomes]
rs17144806	0.80[AFR][1000 genomes]
rs17144824	0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17144836	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2377127	1.00[ASN][1000 genomes]
rs34045550	0.82[AFR][1000 genomes];0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4634381	0.84[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs56191796	0.89[ASN][1000 genomes]
rs56406364	0.91[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs57581390	0.87[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs59241413	0.85[ASN][1000 genomes]
rs6860946	0.89[ASN][1000 genomes]
rs6863802	0.84[AFR][1000 genomes]
rs6874109	0.86[AFR][1000 genomes]
rs6874399	0.89[ASN][1000 genomes]
rs6880144	0.87[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs6892437	0.85[ASN][1000 genomes]
rs73239053	0.81[ASN][1000 genomes]
rs73239055	0.85[ASN][1000 genomes]
rs73239065	0.83[EUR][1000 genomes]
rs73792419	0.85[ASN][1000 genomes]
rs767935	0.89[ASN][1000 genomes]
rs7734815	0.84[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs7737716	0.83[AFR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv882767	chr5:117931730-118385691	Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Enhancers Genic enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:118225400-118300400	Weak transcription	Primary B cells from cord blood	blood
2	chr5:118227400-118270600	Weak transcription	Ovary	ovary
3	chr5:118233800-118289200	Weak transcription	Psoas Muscle	Psoas
4	chr5:118243600-118265000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr5:118244000-118279600	Weak transcription	Liver	Liver
6	chr5:118244000-118287400	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr5:118245000-118260400	Weak transcription	Brain Anterior Caudate	brain
8	chr5:118245000-118272200	Weak transcription	Aorta	Aorta
9	chr5:118245600-118262200	Weak transcription	Primary T cells from cord blood	blood
10	chr5:118246600-118266800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr5:118250000-118261600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
12	chr5:118250400-118289400	Weak transcription	Primary B cells from peripheral blood	blood
13	chr5:118252000-118279000	Weak transcription	Left Ventricle	heart
14	chr5:118253200-118280200	Weak transcription	Primary T helper cells fromperipheralblood	blood
15	chr5:118253400-118279200	Weak transcription	Rectal Mucosa Donor 31	rectum
16	chr5:118254000-118279800	Weak transcription	Pancreas	Pancrea
17	chr5:118255000-118265400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
18	chr5:118255200-118261800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr5:118255200-118265600	Weak transcription	HUES64 Cell Line	embryonic stem cell
20	chr5:118256000-118277800	Weak transcription	Fetal Intestine Small	intestine
21	chr5:118256200-118262000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
22	chr5:118256400-118266200	Weak transcription	Duodenum Smooth Muscle	Duodenum
23	chr5:118256800-118260000	Enhancers	Fetal Stomach	stomach
24	chr5:118256800-118260400	Enhancers	HUES6 Cell Line	embryonic stem cell
25	chr5:118257400-118285600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
26	chr5:118257600-118279800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
27	chr5:118258000-118262200	Weak transcription	Fetal Kidney	kidney
28	chr5:118258000-118265200	Weak transcription	Duodenum Mucosa	Duodenum
29	chr5:118258000-118280400	Weak transcription	Rectal Smooth Muscle	rectum
30	chr5:118258200-118269000	Weak transcription	Gastric	stomach
31	chr5:118258400-118260000	Enhancers	K562	blood
32	chr5:118259000-118260200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
33	chr5:118259200-118265600	Weak transcription	H1 Cell Line	embryonic stem cell
34	chr5:118259200-118265600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
35	chr5:118259200-118270800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
36	chr5:118259600-118286800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
37	chr5:118259600-118305000	Weak transcription	Stomach Smooth Muscle	stomach
38	chr5:118259800-118264800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
39	chr5:118259800-118265600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
40	chr5:118259800-118266200	Weak transcription	Fetal Muscle Leg	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links