Variant report

Variant	rs213525
Chromosome Location	chr7:26903122-26903123
allele	G/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: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	chr7:26897524..26906359-chr7:27169396..27177834,18	MCF-7	breast:
2	chr7:26902248..26905091-chr7:27166314..27168813,2	MCF-7	breast:
3	chr7:26902705..26905667-chr7:27132555..27137263,6	MCF-7	breast:
4	chr7:26902947..26905299-chr7:27180909..27183737,2	MCF-7	breast:
5	chr7:26893506..26896293-chr7:26902424..26905026,3	MCF-7	breast:
6	chr7:26902489..26904208-chr7:27147224..27149600,2	MCF-7	breast:
7	chr7:26902547..26905705-chr7:27166224..27172586,14	MCF-7	breast:
8	chr7:26897760..26899796-chr7:26902533..26905235,3	K562	blood:

No data

Variant related genes	Relation type
ENSG00000254369	Chromatin interaction
ENSG00000105997	Chromatin interaction
ENSG00000005020	Chromatin interaction
ENSG00000253552	Chromatin interaction
ENSG00000197576	Chromatin interaction
ENSG00000233429	Chromatin interaction
ENSG00000106004	Chromatin interaction
ENSG00000105991	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs213524	0.89[AFR][1000 genomes]
rs213528	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs213533	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs213536	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs477924	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs514043	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs558263	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs591895	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs659131	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs668052	0.83[AMR][1000 genomes];0.91[EUR][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	nsv1025538	chr7:26482342-27376045	Enhancers Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	213 gene(s)	inside rSNPs	diseases
2	nsv538805	chr7:26482342-27376045	Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Active TSS Strong transcription Flanking Active TSS Genic enhancers Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	213 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs213525	HOXA2	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:58 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:26886200-26903400	Weak transcription	Spleen	Spleen
2	chr7:26898800-26903200	Weak transcription	Colonic Mucosa	Colon
3	chr7:26898800-26903400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr7:26898800-26903400	Weak transcription	Psoas Muscle	Psoas
5	chr7:26898800-26903600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr7:26900000-26903200	Enhancers	Primary neutrophils fromperipheralblood	blood
7	chr7:26901200-26903200	Weak transcription	Primary B cells from peripheral blood	blood
8	chr7:26901600-26904600	Active TSS	HMEC	breast
9	chr7:26902000-26903400	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
10	chr7:26902200-26903800	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr7:26902400-26903200	Enhancers	Fetal Kidney	kidney
12	chr7:26902400-26904800	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr7:26902400-26904800	Active TSS	GM12878-XiMat	blood
14	chr7:26902600-26903200	Enhancers	Fetal Intestine Small	intestine
15	chr7:26902600-26903200	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
16	chr7:26902600-26903200	Active TSS	Rectal Smooth Muscle	rectum
17	chr7:26902600-26903200	Enhancers	Hela-S3	cervix
18	chr7:26902600-26903200	Enhancers	HepG2	liver
19	chr7:26902600-26903400	Flanking Active TSS	A549	lung
20	chr7:26902600-26903400	Flanking Active TSS	NHDF-Ad	bronchial
21	chr7:26902600-26903600	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
22	chr7:26902600-26903600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
23	chr7:26902600-26903600	Flanking Active TSS	Muscle Satellite Cultured Cells	--
24	chr7:26902600-26903800	Flanking Active TSS	Adipose Nuclei	Adipose
25	chr7:26902600-26904600	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
26	chr7:26902600-26905000	Active TSS	NHLF	lung
27	chr7:26902800-26903200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
28	chr7:26902800-26903200	Bivalent Enhancer	HUES48 Cell Line	embryonic stem cell
29	chr7:26902800-26903200	Bivalent Enhancer	iPS-15b Cell Line	embryonic stem cell
30	chr7:26902800-26903200	Enhancers	Osteobl	bone
31	chr7:26902800-26903400	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
32	chr7:26902800-26903600	Flanking Active TSS	Dnd41	blood
33	chr7:26902800-26903800	Flanking Active TSS	Primary hematopoietic stem cells	blood
34	chr7:26902800-26903800	Flanking Active TSS	HUVEC	blood vessel
35	chr7:26902800-26904400	Active TSS	Duodenum Mucosa	Duodenum
36	chr7:26902800-26904800	Active TSS	Primary monocytes fromperipheralblood	blood
37	chr7:26902800-26904800	Active TSS	NHEK	skin
38	chr7:26902800-26905000	Active TSS	Brain Hippocampus Middle	brain
39	chr7:26902800-26905000	Active TSS	Brain Inferior Temporal Lobe	brain
40	chr7:26902800-26905000	Active TSS	Duodenum Smooth Muscle	Duodenum
41	chr7:26903000-26903200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
42	chr7:26903000-26903200	Enhancers	Primary T cells from cord blood	blood
43	chr7:26903000-26903400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
44	chr7:26903000-26903400	Enhancers	Primary T helper cells fromperipheralblood	blood
45	chr7:26903000-26903600	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
46	chr7:26903000-26903600	Active TSS	Primary B cells from cord blood	blood
47	chr7:26903000-26903600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
48	chr7:26903000-26903800	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
49	chr7:26903000-26903800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
50	chr7:26903000-26903800	Active TSS	Stomach Smooth Muscle	stomach

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