Variant report

Variant	rs12377635
Chromosome Location	chr9:94876528-94876529
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:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr17:57922613..57925300-chr9:94876383..94878683,2	MCF-7	breast:
2	chr9:94875730..94878651-chr9:95055011..95057658,2	K562	blood:
3	chr9:94867851..94872295-chr9:94876110..94878962,5	MCF-7	breast:
4	chr9:94875796..94880000-chr9:95086097..95090720,4	MCF-7	breast:
5	chr9:94876370..94880607-chr9:95003262..95006634,4	MCF-7	breast:
6	chr9:94871412..94875028-chr9:94875797..94879228,6	K562	blood:
7	chr9:94874983..94876627-chr9:94942419..94945391,2	K562	blood:
8	chr9:94731167..94733396-chr9:94875218..94877469,2	K562	blood:
9	chr9:94871544..94874605-chr9:94874619..94877875,5	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000227321	Chromatin interaction
ENSG00000196305	Chromatin interaction
ENSG00000228069	Chromatin interaction
ENSG00000188312	Chromatin interaction
ENSG00000198000	Chromatin interaction
ENSG00000240791	Chromatin interaction
ENSG00000201524	Chromatin interaction
ENSG00000232179	Chromatin interaction
ENSG00000238288	Chromatin interaction
ENSG00000090054	Chromatin interaction

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10820922	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs10820928	0.86[AMR][1000 genomes]
rs10820933	0.97[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10820934	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10820939	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10820942	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10992196	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10992208	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10992218	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10992219	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10992224	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11790093	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11790991	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12380093	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12554018	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17749165	0.87[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1919101	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs55939422	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56272949	0.86[AMR][1000 genomes]
rs56280154	0.87[AMR][1000 genomes]
rs62565755	0.86[AMR][1000 genomes]
rs62567925	0.98[AMR][1000 genomes]
rs62567926	0.97[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62567930	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62567931	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72746299	0.87[AMR][1000 genomes]
rs72748323	0.83[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs7857759	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949008	chr9:94500776-95182133	Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Strong transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
2	nsv1050845	chr9:94687959-95312406	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
3	nsv1046733	chr9:94690622-95138564	Genic enhancers Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
4	nsv530947	chr9:94697309-95093377	Weak transcription Bivalent Enhancer Strong transcription Enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
5	nsv917089	chr9:94857047-95099848	Weak transcription Flanking Bivalent TSS/Enh Enhancers Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	45 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:94817800-94877000	Weak transcription	Fetal Heart	heart
2	chr9:94842800-94876600	Weak transcription	Colonic Mucosa	Colon
3	chr9:94851400-94876600	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr9:94860800-94877000	Weak transcription	Brain Cingulate Gyrus	brain
5	chr9:94860800-94877200	Weak transcription	Stomach Mucosa	stomach
6	chr9:94861000-94876800	Weak transcription	Fetal Kidney	kidney
7	chr9:94861600-94877000	Weak transcription	Small Intestine	intestine
8	chr9:94863000-94876800	Weak transcription	HSMMtube	muscle
9	chr9:94863200-94876800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr9:94864600-94876800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
11	chr9:94866200-94876600	Weak transcription	Rectal Smooth Muscle	rectum
12	chr9:94866800-94877000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr9:94868000-94876800	Weak transcription	Pancreas	Pancrea
14	chr9:94868200-94876800	Weak transcription	Brain Angular Gyrus	brain
15	chr9:94868400-94877000	Weak transcription	Aorta	Aorta
16	chr9:94871000-94876600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
17	chr9:94874000-94876600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
18	chr9:94874000-94876800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
19	chr9:94874400-94876800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
20	chr9:94874600-94876800	Weak transcription	Ovary	ovary
21	chr9:94874800-94876600	Weak transcription	HUES6 Cell Line	embryonic stem cell
22	chr9:94874800-94876600	Weak transcription	Osteobl	bone
23	chr9:94875000-94876600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
24	chr9:94875000-94876600	Weak transcription	HSMM	muscle
25	chr9:94875400-94876800	Enhancers	Primary T helper naive cells from peripheral blood	blood
26	chr9:94875600-94876600	Enhancers	Primary T cells from cord blood	blood
27	chr9:94875600-94876600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
28	chr9:94875600-94876600	Enhancers	Primary T helper cells fromperipheralblood	blood
29	chr9:94875600-94876600	Enhancers	Primary T killer memory cells from peripheral blood	blood
30	chr9:94875600-94876600	Enhancers	Muscle Satellite Cultured Cells	--
31	chr9:94875600-94876600	Enhancers	Brain Germinal Matrix	brain
32	chr9:94875600-94876600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
33	chr9:94875600-94876800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
34	chr9:94875600-94876800	Enhancers	Liver	Liver
35	chr9:94875800-94876600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
36	chr9:94875800-94876600	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr9:94875800-94876600	Enhancers	Brain Anterior Caudate	brain
38	chr9:94875800-94876600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
39	chr9:94875800-94876600	Enhancers	Fetal Brain Female	brain
40	chr9:94875800-94876600	Enhancers	Fetal Intestine Small	intestine
41	chr9:94875800-94876600	Enhancers	Skeletal Muscle Male	skeletal muscle
42	chr9:94875800-94876800	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
43	chr9:94875800-94876800	Enhancers	Skeletal Muscle Female	skeletal muscle
44	chr9:94875800-94877000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
45	chr9:94875800-94877200	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
46	chr9:94875800-94878400	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
47	chr9:94876000-94876600	Enhancers	Primary B cells from cord blood	blood
48	chr9:94876000-94876600	Enhancers	Primary hematopoietic stem cells short term culture	blood
49	chr9:94876000-94876600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
50	chr9:94876000-94876600	Enhancers	Cortex derived primary cultured neurospheres	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links