Variant report

Variant	rs11653445
Chromosome Location	chr17:45978787-45978788
allele	A/G
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:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr17:45978418..45980535-chr17:46078748..46080389,2	MCF-7	breast:
2	chr17:45978266..45980014-chr17:46022353..46024545,2	MCF-7	breast:
3	chr17:45978248..45980745-chr17:46013180..46016044,2	K562	blood:
4	chr17:45976761..45979626-chr17:46046892..46049252,2	K562	blood:
5	chr17:45978341..45980674-chr17:46019226..46022209,2	MCF-7	breast:
6	chr17:45978419..45981029-chr17:45992865..45995390,2	MCF-7	breast:
7	chr17:45977677..45979429-chr17:46010688..46013383,2	MCF-7	breast:
8	chr17:45959665..45962202-chr17:45976035..45979833,4	K562	blood:

No data

Variant related genes	Relation type
ENSG00000266821	Chromatin interaction
ENSG00000108465	Chromatin interaction
ENSG00000108439	Chromatin interaction
ENSG00000263798	Chromatin interaction

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs11079802	0.92[ASN][1000 genomes]
rs11650395	0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12939572	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16949418	0.82[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2325748	0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3764394	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3764398	0.85[ASN][1000 genomes]
rs59811700	0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs71377324	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7207225	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72833491	0.99[ASN][1000 genomes]
rs72840233	0.98[ASN][1000 genomes]
rs8079333	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9899097	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv498122	chr17:45763853-46064327	Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription Strong transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
2	nsv518892	chr17:45887951-46029432	Enhancers Bivalent Enhancer Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	48 gene(s)	inside rSNPs	diseases
3	nsv908575	chr17:45957591-46049533	Genic enhancers Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	48 gene(s)	inside rSNPs	diseases
4	nsv1062503	chr17:45977445-46021384	Strong transcription Genic enhancers Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	22 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	chr17:45974200-45982800	Weak transcription	Spleen	Spleen
2	chr17:45974400-45978800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr17:45974600-45979000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr17:45974600-45981600	Weak transcription	Pancreas	Pancrea
5	chr17:45974600-45981800	Weak transcription	Ovary	ovary
6	chr17:45974600-45992000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
7	chr17:45974800-45978800	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr17:45975000-45978800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr17:45975000-45982000	Weak transcription	Esophagus	oesophagus
10	chr17:45975000-45982200	Weak transcription	Colonic Mucosa	Colon
11	chr17:45975000-45982800	Weak transcription	Gastric	stomach
12	chr17:45975000-45993400	Weak transcription	Placenta Amnion	Placenta Amnion
13	chr17:45975200-45979000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr17:45975200-45980800	Genic enhancers	Fetal Muscle Leg	muscle
15	chr17:45975200-45982200	Weak transcription	Stomach Mucosa	stomach
16	chr17:45975200-45999400	Weak transcription	Fetal Kidney	kidney
17	chr17:45975200-46000400	Weak transcription	Small Intestine	intestine
18	chr17:45975400-45981600	Weak transcription	A549	lung
19	chr17:45975400-45981800	Weak transcription	Brain Inferior Temporal Lobe	brain
20	chr17:45975400-45982400	Weak transcription	NHEK	skin
21	chr17:45975400-45983000	Weak transcription	HUVEC	blood vessel
22	chr17:45975600-45980000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
23	chr17:45975600-45981600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
24	chr17:45975600-45992800	Enhancers	Breast Myoepithelial Primary Cells	Breast
25	chr17:45975800-45978800	Weak transcription	Brain Angular Gyrus	brain
26	chr17:45975800-45979400	Weak transcription	Brain Cingulate Gyrus	brain
27	chr17:45975800-45981800	Strong transcription	Fetal Stomach	stomach
28	chr17:45975800-46000600	Weak transcription	Hela-S3	cervix
29	chr17:45976000-45979200	Strong transcription	Fetal Lung	lung
30	chr17:45976000-45979600	Strong transcription	Placenta	Placenta
31	chr17:45976000-45980200	Strong transcription	Primary B cells from peripheral blood	blood
32	chr17:45976000-45981600	Weak transcription	Duodenum Mucosa	Duodenum
33	chr17:45976200-45979200	Weak transcription	Brain Hippocampus Middle	brain
34	chr17:45976200-45979800	Strong transcription	Rectal Mucosa Donor 31	rectum
35	chr17:45976200-45981600	Weak transcription	Duodenum Smooth Muscle	Duodenum
36	chr17:45976400-45978800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
37	chr17:45976400-45981600	Weak transcription	Rectal Smooth Muscle	rectum
38	chr17:45976400-45981600	Weak transcription	HMEC	breast
39	chr17:45976400-45983000	Weak transcription	Aorta	Aorta
40	chr17:45976400-45993200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
41	chr17:45976400-45995400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
42	chr17:45976600-45979600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
43	chr17:45976800-45979000	Genic enhancers	Fetal Muscle Trunk	muscle
44	chr17:45976800-45979200	Enhancers	Adipose Nuclei	Adipose
45	chr17:45976800-45979600	Enhancers	Right Atrium	heart
46	chr17:45976800-45979800	Enhancers	Left Ventricle	heart
47	chr17:45976800-45983000	Strong transcription	Primary monocytes fromperipheralblood	blood
48	chr17:45976800-45987000	Strong transcription	Fetal Intestine Small	intestine
49	chr17:45977000-45978800	Enhancers	HUES6 Cell Line	embryonic stem cell
50	chr17:45977000-45979000	Enhancers	iPS-15b Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links