Variant report

Variant	rs58586429
Chromosome Location	chr7:99059343-99059344
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:4)
CpG islands
(count:0)
Chromatin interactive
region (count:6)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:4 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CTCF	chr7:99059220-99059370	NB4	blood:	n/a	n/a
2	POLR2A	chr7:99059137-99059813	HepG2	liver:	n/a	n/a
3	POLR2A	chr7:99058082-99059484	K562	blood:	n/a	n/a
4	POLR2A	chr7:99059167-99059418	H1-hESC	embryonic stem cell:	n/a	n/a

No data

(count:6 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr7:99058626..99061250-chr7:99076948..99079594,2	K562	blood:
2	chr7:99055792..99058380-chr7:99059202..99061148,2	MCF-7	breast:
3	chr7:99057427..99060113-chr7:99097887..99100636,2	K562	blood:
4	chr7:99055033..99067556-chr7:99095016..99105645,21	K562	blood:
5	chr7:99058374..99059981-chr7:99097679..99100628,2	MCF-7	breast:
6	chr7:99007269..99009205-chr7:99058762..99060773,2	MCF-7	breast:

No data

Variant related genes	Relation type
ATP5J2	TF binding region
ENSG00000196652	Chromatin interaction
ENSG00000106245	Chromatin interaction
ENSG00000241468	Chromatin interaction
ENSG00000160908	Chromatin interaction

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs55668841	1.00[AFR][1000 genomes]
rs55942015	1.00[AFR][1000 genomes]
rs56104955	1.00[AFR][1000 genomes]
rs56145748	1.00[AFR][1000 genomes]
rs56992635	1.00[AFR][1000 genomes]
rs57467259	1.00[AFR][1000 genomes]
rs59346440	1.00[AFR][1000 genomes]
rs60206309	1.00[AFR][1000 genomes]
rs61283116	1.00[AFR][1000 genomes]
rs73710445	0.86[AFR][1000 genomes]
rs73710452	1.00[AFR][1000 genomes]
rs73710453	1.00[AFR][1000 genomes]
rs73711210	1.00[AFR][1000 genomes]
rs73711213	1.00[AFR][1000 genomes]
rs73711216	1.00[AFR][1000 genomes]
rs73711218	1.00[AFR][1000 genomes]
rs73711277	1.00[AFR][1000 genomes]
rs73711278	1.00[AFR][1000 genomes]
rs73711284	1.00[AFR][1000 genomes]
rs73711289	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73713510	1.00[AFR][1000 genomes]
rs73713518	0.86[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3433144	chr7:98777878-99060209	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	62 gene(s)	inside rSNPs	diseases
2	nsv831069	chr7:98948128-99127584	Active TSS Genic enhancers Weak transcription Enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	66 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	chr7:99038000-99061600	Strong transcription	Fetal Stomach	stomach
2	chr7:99038200-99061800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
3	chr7:99038200-99061800	Strong transcription	Fetal Intestine Small	intestine
4	chr7:99038200-99062000	Strong transcription	HUES48 Cell Line	embryonic stem cell
5	chr7:99038200-99062000	Strong transcription	HUES64 Cell Line	embryonic stem cell
6	chr7:99038200-99062400	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr7:99038400-99062400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr7:99038600-99062400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr7:99039200-99061600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
10	chr7:99039400-99059600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
11	chr7:99039600-99062000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
12	chr7:99040000-99060600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr7:99040200-99059400	Strong transcription	iPS-18 Cell Line	embryonic stem cell
14	chr7:99040200-99059400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr7:99040400-99059600	Strong transcription	Primary T cells from cord blood	blood
16	chr7:99040400-99060800	Strong transcription	Duodenum Mucosa	Duodenum
17	chr7:99040400-99062000	Strong transcription	Monocytes-CD14+_RO01746	blood
18	chr7:99040800-99062000	Strong transcription	Primary monocytes fromperipheralblood	blood
19	chr7:99044200-99060400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
20	chr7:99046600-99062800	Weak transcription	Pancreatic Islets	Pancreatic Islet
21	chr7:99053600-99059600	Strong transcription	Hela-S3	cervix
22	chr7:99055000-99059800	Genic enhancers	Placenta	Placenta
23	chr7:99056400-99060600	Strong transcription	Fetal Muscle Leg	muscle
24	chr7:99056400-99060600	Weak transcription	HUVEC	blood vessel
25	chr7:99056400-99061600	Strong transcription	Fetal Muscle Trunk	muscle
26	chr7:99056600-99060400	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
27	chr7:99056800-99059400	Genic enhancers	Gastric	stomach
28	chr7:99057000-99062400	Weak transcription	Fetal Kidney	kidney
29	chr7:99057000-99062800	Weak transcription	HSMMtube	muscle
30	chr7:99057200-99060400	Weak transcription	Muscle Satellite Cultured Cells	--
31	chr7:99057200-99062400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
32	chr7:99057200-99062600	Weak transcription	Stomach Mucosa	stomach
33	chr7:99057400-99059400	Genic enhancers	Skeletal Muscle Female	skeletal muscle
34	chr7:99057400-99060200	Weak transcription	Primary hematopoietic stem cells	blood
35	chr7:99057400-99061800	Genic enhancers	HepG2	liver
36	chr7:99057400-99063000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
37	chr7:99057600-99060400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr7:99057600-99060400	Weak transcription	Primary B cells from cord blood	blood
39	chr7:99057600-99062600	Weak transcription	Small Intestine	intestine
40	chr7:99057800-99060400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
41	chr7:99057800-99060400	Weak transcription	Osteobl	bone
42	chr7:99057800-99061600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
43	chr7:99058000-99059600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
44	chr7:99058000-99060400	Enhancers	Skeletal Muscle Male	skeletal muscle
45	chr7:99058000-99060600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
46	chr7:99058000-99061400	Weak transcription	NHDF-Ad	bronchial
47	chr7:99058000-99061600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
48	chr7:99058000-99062200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
49	chr7:99058000-99062600	Weak transcription	Rectal Smooth Muscle	rectum
50	chr7:99058200-99059400	Genic enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links