Variant report

Variant	rs27130
Chromosome Location	chr5:36180787-36180788
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:36172328..36174249-chr5:36178558..36180977,3	K562	blood:
2	chr5:36180379..36183249-chr5:36239593..36241776,2	K562	blood:

Variant related genes	Relation type
ENSG00000152620	Chromatin interaction

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs11738429	0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12656216	0.81[CEU][hapmap];0.84[CHD][hapmap];0.94[JPT][hapmap];0.89[ASN][1000 genomes]
rs13190112	0.90[JPT][hapmap]
rs166068	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2362973	0.89[CEU][hapmap];0.94[JPT][hapmap];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2362974	0.85[JPT][hapmap]
rs27128	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs33678	0.85[JPT][hapmap]
rs37218	0.88[CEU][hapmap];0.85[CHB][hapmap];0.94[JPT][hapmap];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3804446	0.85[JPT][hapmap]
rs3815779	1.00[CEU][hapmap];0.84[CHD][hapmap];0.82[GIH][hapmap];0.85[JPT][hapmap];0.94[TSI][hapmap];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs40030	0.81[ASW][hapmap];0.90[CEU][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap];0.91[MKK][hapmap];0.97[TSI][hapmap];0.88[YRI][hapmap];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs42425	1.00[CEU][hapmap];0.86[CHB][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.97[TSI][hapmap];0.88[YRI][hapmap];0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4434406	0.85[JPT][hapmap]
rs4440390	0.85[JPT][hapmap]

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	nsv830262	chr5:36074311-36293872	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	63 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:36153800-36184400	Strong transcription	HUES64 Cell Line	embryonic stem cell
2	chr5:36154000-36184200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr5:36154200-36184400	Strong transcription	HUES6 Cell Line	embryonic stem cell
4	chr5:36154200-36184400	Strong transcription	Fetal Thymus	thymus
5	chr5:36154400-36184400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
6	chr5:36154400-36210800	Weak transcription	Small Intestine	intestine
7	chr5:36158200-36183200	Strong transcription	Hela-S3	cervix
8	chr5:36158400-36182000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr5:36158400-36184400	Strong transcription	Monocytes-CD14+_RO01746	blood
10	chr5:36158600-36184600	Strong transcription	Primary monocytes fromperipheralblood	blood
11	chr5:36158600-36185600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr5:36161800-36184400	Strong transcription	Dnd41	blood
13	chr5:36162400-36183000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr5:36162400-36184400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr5:36163800-36200600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
16	chr5:36164800-36220800	Weak transcription	Gastric	stomach
17	chr5:36166800-36181400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr5:36167200-36182800	Strong transcription	NH-A	brain
19	chr5:36169000-36182600	Strong transcription	Primary T helper cells fromperipheralblood	blood
20	chr5:36169200-36181800	Strong transcription	Primary T cells fromperipheralblood	blood
21	chr5:36169200-36193200	Weak transcription	Pancreas	Pancrea
22	chr5:36169400-36181800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
23	chr5:36169600-36182400	Strong transcription	Primary T helper cells PMA-I stimulated	--
24	chr5:36169600-36202400	Weak transcription	Fetal Heart	heart
25	chr5:36170200-36182400	Strong transcription	HUVEC	blood vessel
26	chr5:36171200-36181200	Weak transcription	Pancreatic Islets	Pancreatic Islet
27	chr5:36171800-36220600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
28	chr5:36172000-36185200	Weak transcription	Esophagus	oesophagus
29	chr5:36172000-36229200	Weak transcription	Colonic Mucosa	Colon
30	chr5:36172400-36189400	Weak transcription	Fetal Intestine Small	intestine
31	chr5:36172400-36189600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
32	chr5:36174200-36181400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
33	chr5:36174200-36195200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
34	chr5:36174400-36190800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
35	chr5:36175000-36181400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
36	chr5:36175000-36189600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
37	chr5:36175000-36191200	Weak transcription	Aorta	Aorta
38	chr5:36175000-36191600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
39	chr5:36175200-36181400	Weak transcription	Placenta Amnion	Placenta Amnion
40	chr5:36175200-36184400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
41	chr5:36175200-36189600	Weak transcription	Spleen	Spleen
42	chr5:36175200-36202400	Weak transcription	Right Ventricle	heart
43	chr5:36175200-36220800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
44	chr5:36175400-36189600	Weak transcription	Lung	lung
45	chr5:36175400-36190600	Weak transcription	Ovary	ovary
46	chr5:36175600-36195800	Weak transcription	Skeletal Muscle Male	skeletal muscle
47	chr5:36175600-36222400	Weak transcription	Rectal Smooth Muscle	rectum
48	chr5:36176000-36181400	Weak transcription	Brain Angular Gyrus	brain
49	chr5:36176600-36182600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
50	chr5:36176600-36184400	Strong transcription	HSMM	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links