Variant report

Variant	rs9373427
Chromosome Location	chr6:145115700-145115701
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 22 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs12173916	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17074221	0.94[AFR][1000 genomes]
rs4243474	0.85[EUR][1000 genomes]
rs4266507	0.87[AFR][1000 genomes]
rs4272231	0.85[EUR][1000 genomes]
rs4385333	0.85[EUR][1000 genomes]
rs4896747	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62427232	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6901062	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6927442	0.87[EUR][1000 genomes]
rs6939586	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7742259	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7744118	0.86[AFR][1000 genomes]
rs7758369	0.85[EUR][1000 genomes]
rs9376854	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9376859	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9390239	0.81[AMR][1000 genomes]
rs9403593	0.81[EUR][1000 genomes]
rs9791320	0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1016747	chr6:144917411-145599874	Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv830833	chr6:145001310-145201143	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
3	nsv886740	chr6:145105354-145199259	Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region miRNA target site	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9373427	PLAGL1,HYMAI	cis	occipital cortex	BrainEAC

Chromatin state (count:110 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:145046000-145122200	Weak transcription	Colonic Mucosa	Colon
2	chr6:145066200-145126200	Weak transcription	Stomach Mucosa	stomach
3	chr6:145067800-145115800	Strong transcription	Monocytes-CD14+_RO01746	blood
4	chr6:145084000-145155800	Weak transcription	Right Ventricle	heart
5	chr6:145085400-145119000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr6:145085800-145134800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr6:145089600-145138400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
8	chr6:145090000-145136800	Weak transcription	Fetal Heart	heart
9	chr6:145091000-145145000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr6:145091200-145117200	Weak transcription	Psoas Muscle	Psoas
11	chr6:145093400-145119800	Weak transcription	Fetal Intestine Small	intestine
12	chr6:145094400-145136800	Weak transcription	Pancreatic Islets	Pancreatic Islet
13	chr6:145095000-145119000	Weak transcription	NH-A	brain
14	chr6:145095200-145118800	Weak transcription	GM12878-XiMat	blood
15	chr6:145096000-145118600	Weak transcription	Muscle Satellite Cultured Cells	--
16	chr6:145096800-145118600	Weak transcription	HUVEC	blood vessel
17	chr6:145098000-145118400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr6:145099600-145165800	Weak transcription	Small Intestine	intestine
19	chr6:145100000-145137600	Strong transcription	Primary monocytes fromperipheralblood	blood
20	chr6:145100400-145118800	Weak transcription	HUES48 Cell Line	embryonic stem cell
21	chr6:145100400-145125600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
22	chr6:145100400-145133200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
23	chr6:145100400-145145000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
24	chr6:145102200-145123600	Strong transcription	Primary T cells fromperipheralblood	blood
25	chr6:145106400-145119200	Weak transcription	Colon Smooth Muscle	Colon
26	chr6:145107800-145121000	Strong transcription	Primary T helper cells fromperipheralblood	blood
27	chr6:145108400-145120600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
28	chr6:145110200-145116000	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
29	chr6:145110200-145124200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr6:145110400-145137000	Strong transcription	Primary B cells from cord blood	blood
31	chr6:145110600-145116400	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
32	chr6:145110800-145120600	Strong transcription	Primary T helper cells PMA-I stimulated	--
33	chr6:145112400-145115800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
34	chr6:145112600-145117200	Weak transcription	Primary hematopoietic stem cells	blood
35	chr6:145113600-145119600	Weak transcription	NHEK	skin
36	chr6:145113600-145126400	Weak transcription	Brain Substantia Nigra	brain
37	chr6:145113800-145120000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
38	chr6:145114200-145116200	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
39	chr6:145114200-145116400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
40	chr6:145114200-145116400	Strong transcription	Dnd41	blood
41	chr6:145114200-145135600	Strong transcription	Primary B cells from peripheral blood	blood
42	chr6:145114400-145115800	Strong transcription	NHDF-Ad	bronchial
43	chr6:145114400-145116000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr6:145114400-145116000	Strong transcription	Fetal Muscle Trunk	muscle
45	chr6:145114400-145116000	Strong transcription	HepG2	liver
46	chr6:145114400-145116200	Strong transcription	H1 Cell Line	embryonic stem cell
47	chr6:145114400-145116400	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
48	chr6:145114400-145116400	Strong transcription	Liver	Liver
49	chr6:145114400-145116400	Strong transcription	Fetal Kidney	kidney
50	chr6:145114400-145116400	Strong transcription	Fetal Muscle Leg	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links