Variant report

Variant	rs62577240
Chromosome Location	chr9:102872765-102872766
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	chr9:102860838..102863359-chr9:102869979..102874274,3	MCF-7	breast:
2	chr9:102866909..102868768-chr9:102872068..102874707,2	K562	blood:

Variant related genes	Relation type
ENSG00000119509	Chromatin interaction
ENSG00000023318	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs62577227	1.00[AFR][1000 genomes]
rs62577233	1.00[AFR][1000 genomes]
rs62578285	0.93[EUR][1000 genomes]
rs62578356	1.00[AFR][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	nsv529618	chr9:102227922-103044018	Flanking Bivalent TSS/Enh Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	nsv531599	chr9:102227922-103156864	Active TSS Bivalent Enhancer Strong transcription Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Enhancers Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
3	nsv893623	chr9:102648036-103405197	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
4	nsv1048674	chr9:102752236-103038259	ZNF genes & repeats Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
5	nsv1052007	chr9:102766948-103033937	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:102862200-102876800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr9:102862200-102876800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr9:102862200-102879800	Weak transcription	Esophagus	oesophagus
4	chr9:102862200-102881000	Weak transcription	Gastric	stomach
5	chr9:102862200-102902400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr9:102862400-102881400	Weak transcription	Colonic Mucosa	Colon
7	chr9:102862800-102873400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr9:102862800-102875400	Weak transcription	Small Intestine	intestine
9	chr9:102862800-102877600	Weak transcription	Stomach Mucosa	stomach
10	chr9:102862800-102881800	Weak transcription	Right Ventricle	heart
11	chr9:102862800-102887400	Weak transcription	Pancreas	Pancrea
12	chr9:102863400-102874200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
13	chr9:102866200-102874800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
14	chr9:102866400-102872800	Strong transcription	HepG2	liver
15	chr9:102866400-102873800	Strong transcription	Primary B cells from cord blood	blood
16	chr9:102866400-102873800	Strong transcription	Primary T cells fromperipheralblood	blood
17	chr9:102866400-102874200	Strong transcription	Dnd41	blood
18	chr9:102866600-102872800	Strong transcription	Primary T helper memory cells from peripheral blood 1	blood
19	chr9:102866600-102879000	Weak transcription	Fetal Intestine Small	intestine
20	chr9:102867000-102872800	Weak transcription	Fetal Stomach	stomach
21	chr9:102867000-102873800	Weak transcription	Aorta	Aorta
22	chr9:102867000-102881000	Weak transcription	Spleen	Spleen
23	chr9:102867000-102899800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
24	chr9:102867200-102873200	Weak transcription	HMEC	breast
25	chr9:102867200-102874000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
26	chr9:102867800-102873400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
27	chr9:102868600-102895600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
28	chr9:102869000-102874600	Weak transcription	HUES48 Cell Line	embryonic stem cell
29	chr9:102869000-102880200	Weak transcription	Placenta Amnion	Placenta Amnion
30	chr9:102869000-102881800	Weak transcription	Psoas Muscle	Psoas
31	chr9:102869000-102886600	Weak transcription	K562	blood
32	chr9:102869000-102888600	Weak transcription	Hela-S3	cervix
33	chr9:102869200-102873600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
34	chr9:102869200-102873600	Weak transcription	Lung	lung
35	chr9:102869200-102873800	Weak transcription	Primary T cells from cord blood	blood
36	chr9:102869200-102889800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
37	chr9:102869200-102901800	Weak transcription	H9 Cell Line	embryonic stem cell
38	chr9:102869400-102873400	Weak transcription	Rectal Smooth Muscle	rectum
39	chr9:102869400-102873600	Weak transcription	GM12878-XiMat	blood
40	chr9:102869400-102874800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
41	chr9:102869400-102875000	Weak transcription	H1 Cell Line	embryonic stem cell
42	chr9:102869400-102899000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
43	chr9:102869600-102873200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
44	chr9:102869600-102873200	Weak transcription	NHEK	skin
45	chr9:102869600-102873400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
46	chr9:102869600-102873400	Weak transcription	Brain Inferior Temporal Lobe	brain
47	chr9:102869600-102873600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
48	chr9:102869600-102873600	Weak transcription	Fetal Muscle Leg	muscle
49	chr9:102869800-102872800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
50	chr9:102869800-102895600	Weak transcription	Rectal Mucosa Donor 31	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links