Variant report

Variant	rs61950725
Chromosome Location	chr13:49593184-49593185
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:49578756..49580621-chr13:49592368..49595270,2	K562	blood:
2	chr13:49561507..49563277-chr13:49591979..49593773,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000201662	Chromatin interaction

Extended variants
information (count: 11 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs17072788	1.00[AFR][1000 genomes]
rs61949504	1.00[AFR][1000 genomes]
rs61950682	1.00[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs9526516	1.00[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1049117	chr13:49089476-49928945	Enhancers Strong transcription Weak transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv455882	chr13:49531551-49679157	Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
3	nsv561593	chr13:49531551-49679157	Genic enhancers Active TSS Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	esv1793883	chr13:49543723-49789164	Enhancers Strong transcription Weak transcription Active TSS Genic enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
5	nsv900067	chr13:49552271-49594818	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv900068	chr13:49559790-49605774	Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
7	esv1803100	chr13:49576474-49655941	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:77 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:49551400-49638800	Weak transcription	Pancreas	Pancrea
2	chr13:49553600-49596200	Weak transcription	Ovary	ovary
3	chr13:49557000-49626800	Weak transcription	Right Ventricle	heart
4	chr13:49568000-49598200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
5	chr13:49568800-49626800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr13:49568800-49627000	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr13:49572000-49604800	Weak transcription	Aorta	Aorta
8	chr13:49573400-49634800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
9	chr13:49573600-49595600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
10	chr13:49576200-49595400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr13:49578600-49596200	Weak transcription	A549	lung
12	chr13:49578800-49593200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
13	chr13:49578800-49593600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
14	chr13:49578800-49597600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
15	chr13:49579000-49594400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
16	chr13:49579000-49596200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
17	chr13:49579800-49594600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
18	chr13:49579800-49595600	Weak transcription	Fetal Muscle Leg	muscle
19	chr13:49580000-49593600	Weak transcription	HepG2	liver
20	chr13:49580600-49597800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
21	chr13:49581200-49595600	Weak transcription	NH-A	brain
22	chr13:49581400-49595600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr13:49581800-49594400	Weak transcription	NHEK	skin
24	chr13:49581800-49606000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
25	chr13:49582000-49601200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
26	chr13:49582200-49659000	Weak transcription	Rectal Mucosa Donor 31	rectum
27	chr13:49582400-49596400	Weak transcription	HSMMtube	muscle
28	chr13:49582600-49595200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr13:49582600-49597600	Weak transcription	Fetal Thymus	thymus
30	chr13:49582800-49593200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
31	chr13:49582800-49595400	Weak transcription	NHDF-Ad	bronchial
32	chr13:49582800-49617600	Weak transcription	Liver	Liver
33	chr13:49583800-49595800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
34	chr13:49584000-49596600	Weak transcription	Primary T helper cells PMA-I stimulated	--
35	chr13:49584000-49616600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
36	chr13:49584200-49649200	Weak transcription	Duodenum Smooth Muscle	Duodenum
37	chr13:49584400-49594800	Weak transcription	Muscle Satellite Cultured Cells	--
38	chr13:49584600-49595200	Weak transcription	Hela-S3	cervix
39	chr13:49584600-49595600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
40	chr13:49584600-49595600	Weak transcription	HSMM	muscle
41	chr13:49584600-49599400	Weak transcription	Duodenum Mucosa	Duodenum
42	chr13:49584600-49602600	Weak transcription	Thymus	Thymus
43	chr13:49584600-49613800	Weak transcription	Left Ventricle	heart
44	chr13:49584800-49612400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
45	chr13:49586800-49594600	Weak transcription	H9 Cell Line	embryonic stem cell
46	chr13:49586800-49597800	Weak transcription	Primary T helper cells fromperipheralblood	blood
47	chr13:49587200-49596600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
48	chr13:49587400-49594600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
49	chr13:49587400-49602400	Weak transcription	Fetal Intestine Small	intestine
50	chr13:49587600-49595400	Weak transcription	Osteobl	bone

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links