Variant report

Variant	rs9806468
Chromosome Location	chr15:34500913-34500914
allele	C/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:15)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:15 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr15:34499795..34503886-chr15:34627014..34631557,6	K562	blood:
2	chr15:34495437..34497822-chr15:34498910..34501986,3	K562	blood:
3	chr15:34500839..34504564-chr15:34529168..34532268,3	K562	blood:
4	chr15:34500871..34503422-chr15:34659158..34662481,4	K562	blood:
5	chr15:34499979..34501661-chr15:34634378..34636631,2	K562	blood:
6	chr15:34499795..34502298-chr15:34629083..34632074,3	K562	blood:
7	chr15:34498121..34503791-chr15:34514506..34519551,14	K562	blood:
8	chr15:34391225..34395745-chr15:34498845..34504196,8	K562	blood:
9	chr15:34329770..34332450-chr15:34500868..34502911,3	K562	blood:
10	chr15:34474173..34475997-chr15:34500138..34502124,2	MCF-7	breast:
11	chr15:34497680..34504001-chr15:34514973..34521212,14	K562	blood:
12	chr15:34417003..34419819-chr15:34499362..34502166,2	K562	blood:
13	chr15:34500616..34503501-chr15:34610779..34612770,2	K562	blood:
14	chr15:34491377..34494902-chr15:34500682..34503965,3	K562	blood:
15	chr15:34391885..34395742-chr15:34500701..34502399,4	K562	blood:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-C15orf29-1	chr15:34500718-34502270	NONHSAT041571

No data

Variant related genes	Relation type
ENSG00000169857	Chromatin interaction
ENSG00000176454	Chromatin interaction
ENSG00000182117	Chromatin interaction
ENSG00000128463	Chromatin interaction
ENSG00000134152	Chromatin interaction
ENSG00000140199	Chromatin interaction
ENSG00000182405	Chromatin interaction
ENSG00000134153	Chromatin interaction
ENSG00000184507	Chromatin interaction

Extended variants
information (count: 39 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10152261	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11852315	0.82[ASN][1000 genomes]
rs11853345	0.82[ASN][1000 genomes]
rs11853347	0.82[ASN][1000 genomes]
rs11854298	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11856753	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11857604	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11857608	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11858527	0.82[ASN][1000 genomes]
rs17236749	0.82[ASN][1000 genomes]
rs17554484	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17817770	0.82[ASN][1000 genomes]
rs2118159	0.82[ASN][1000 genomes]
rs2118160	0.82[ASN][1000 genomes]
rs28406544	0.82[ASN][1000 genomes]
rs3764236	0.82[ASN][1000 genomes]
rs3829483	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs41405647	0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4486849	0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4581678	0.82[ASN][1000 genomes]
rs55801303	0.82[ASN][1000 genomes]
rs6495624	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7161944	0.82[ASN][1000 genomes]
rs7168139	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7176526	0.83[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7179249	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7183568	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs73382081	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs73382086	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs73384011	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs8037674	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9672345	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9672434	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9672496	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9672544	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9672784	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][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	nsv1035579	chr15:34363159-34501115	Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	nsv1052804	chr15:34498529-34841447	Active TSS Strong transcription Weak transcription Enhancers Genic enhancers Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
3	nsv542341	chr15:34498529-34841447	Weak transcription Bivalent/Poised TSS Active TSS Flanking Active TSS Strong transcription Enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9806468	C15orf29	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:34454600-34501200	Weak transcription	Colonic Mucosa	Colon
2	chr15:34454800-34501000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
3	chr15:34471000-34501000	Weak transcription	Aorta	Aorta
4	chr15:34477600-34501000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
5	chr15:34477600-34501200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr15:34479200-34501000	Weak transcription	Gastric	stomach
7	chr15:34479400-34501000	Weak transcription	Left Ventricle	heart
8	chr15:34479400-34501600	Weak transcription	Lung	lung
9	chr15:34479600-34501800	Weak transcription	Spleen	Spleen
10	chr15:34483200-34501000	Weak transcription	Primary B cells from peripheral blood	blood
11	chr15:34486400-34501600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr15:34491600-34501000	Weak transcription	H9 Cell Line	embryonic stem cell
13	chr15:34492200-34501000	Weak transcription	Stomach Mucosa	stomach
14	chr15:34492200-34501600	Weak transcription	Sigmoid Colon	Sigmoid Colon
15	chr15:34496200-34501000	Weak transcription	Brain Anterior Caudate	brain
16	chr15:34497000-34501000	Weak transcription	Brain Angular Gyrus	brain
17	chr15:34498000-34501000	Weak transcription	Rectal Mucosa Donor 29	rectum
18	chr15:34498600-34501000	Weak transcription	Monocytes-CD14+_RO01746	blood
19	chr15:34499800-34501000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
20	chr15:34499800-34501000	Enhancers	Fetal Brain Male	brain
21	chr15:34499800-34501200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
22	chr15:34499800-34502600	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
23	chr15:34500000-34501000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
24	chr15:34500000-34501000	Enhancers	Liver	Liver
25	chr15:34500000-34501000	Enhancers	Fetal Intestine Large	intestine
26	chr15:34500200-34501000	Weak transcription	Primary T cells fromperipheralblood	blood
27	chr15:34500200-34501000	Enhancers	Primary T regulatory cells fromperipheralblood	blood
28	chr15:34500200-34501200	Enhancers	Primary T cells from cord blood	blood
29	chr15:34500200-34501600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
30	chr15:34500200-34501600	Weak transcription	Pancreas	Pancrea
31	chr15:34500200-34502600	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
32	chr15:34500400-34501000	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell
33	chr15:34500400-34501000	Active TSS	Primary hematopoietic stem cells short term culture	blood
34	chr15:34500400-34501000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
35	chr15:34500400-34501000	Enhancers	Adipose Nuclei	Adipose
36	chr15:34500400-34501000	Enhancers	Brain Hippocampus Middle	brain
37	chr15:34500400-34501000	Enhancers	Brain Inferior Temporal Lobe	brain
38	chr15:34500400-34501000	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
39	chr15:34500400-34501000	Enhancers	Colon Smooth Muscle	Colon
40	chr15:34500400-34501000	Enhancers	Fetal Heart	heart
41	chr15:34500400-34501000	Enhancers	Fetal Lung	lung
42	chr15:34500400-34501000	Enhancers	Fetal Thymus	thymus
43	chr15:34500400-34501000	Enhancers	Placenta Amnion	Placenta Amnion
44	chr15:34500400-34501000	Enhancers	Skeletal Muscle Female	skeletal muscle
45	chr15:34500400-34501000	Enhancers	Stomach Smooth Muscle	stomach
46	chr15:34500400-34501200	Enhancers	Primary monocytes fromperipheralblood	blood
47	chr15:34500400-34501200	Flanking Active TSS	Muscle Satellite Cultured Cells	--
48	chr15:34500400-34501200	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
49	chr15:34500400-34501200	Enhancers	Thymus	Thymus
50	chr15:34500400-34501200	Flanking Active TSS	HUVEC	blood vessel

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