Variant report

Variant	rs3807879
Chromosome Location	chr7:15728011-15728012
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr7:15726965-15728068	H1-neurons	neurons:	n/a	n/a
2	POLR2A	chr7:15726855-15728279	H1-neurons	neurons:	n/a	n/a

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-AC006035.2-2	chr7:15728003-15728077	NR_110094
2	lnc-AC006035.2-2	chr7:15728003-15728077	XLOC_005991

Variant related genes	Relation type
MEOX2	TF binding region

Extended variants
information (count: 16 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1050290	0.84[CEU][hapmap];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11764932	0.84[CEU][hapmap];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11773055	0.84[CEU][hapmap]
rs11975534	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs35384769	0.80[EUR][1000 genomes]
rs4721453	0.83[CEU][hapmap];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs56217404	0.82[EUR][1000 genomes]
rs740566	0.88[CEU][hapmap];0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs740567	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs917441	0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv932168	chr7:15573437-15895294	Flanking Active TSS Enhancers Bivalent Enhancer Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv523199	chr7:15582208-16042596	Enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
3	nsv830911	chr7:15666307-15817662	Active TSS Weak transcription Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv428501	chr7:15666307-15817662	Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers Bivalent/Poised TSS Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	nsv887736	chr7:15716973-15752122	Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Enhancers Bivalent/Poised TSS Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv887737	chr7:15716973-15753487	Weak transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:51 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:15719000-15728600	Active TSS	NHDF-Ad	bronchial
2	chr7:15720000-15729800	Active TSS	Right Atrium	heart
3	chr7:15722400-15728400	Bivalent/Poised TSS	Fetal Lung	lung
4	chr7:15723800-15728200	Bivalent/Poised TSS	Left Ventricle	heart
5	chr7:15723800-15728200	Active TSS	Ovary	ovary
6	chr7:15723800-15728600	Bivalent/Poised TSS	Duodenum Smooth Muscle	Duodenum
7	chr7:15724600-15728200	Bivalent/Poised TSS	Rectal Smooth Muscle	rectum
8	chr7:15724800-15728200	Flanking Bivalent TSS/Enh	Cortex derived primary cultured neurospheres	brain
9	chr7:15725000-15728200	Bivalent/Poised TSS	H9 Cell Line	embryonic stem cell
10	chr7:15725200-15728200	Flanking Bivalent TSS/Enh	Fetal Stomach	stomach
11	chr7:15725800-15728400	Bivalent/Poised TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr7:15726000-15728600	Flanking Active TSS	HUVEC	blood vessel
13	chr7:15726200-15728600	Bivalent/Poised TSS	Skeletal Muscle Male	skeletal muscle
14	chr7:15726400-15728400	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
15	chr7:15726400-15728800	Flanking Bivalent TSS/Enh	iPS-15b Cell Line	embryonic stem cell
16	chr7:15726600-15729600	Active TSS	Right Ventricle	heart
17	chr7:15726800-15728400	Bivalent/Poised TSS	Colon Smooth Muscle	Colon
18	chr7:15726800-15728800	Bivalent/Poised TSS	Skeletal Muscle Female	skeletal muscle
19	chr7:15726800-15728800	Bivalent/Poised TSS	Stomach Smooth Muscle	stomach
20	chr7:15726800-15729000	Bivalent/Poised TSS	Adipose Nuclei	Adipose
21	chr7:15727000-15728800	Flanking Bivalent TSS/Enh	HUES64 Cell Line	embryonic stem cell
22	chr7:15727200-15728200	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr7:15727200-15728200	Bivalent Enhancer	Foreskin Melanocyte Primary Cells skin03	Skin
24	chr7:15727200-15728400	Bivalent Enhancer	Primary hematopoietic stem cells	blood
25	chr7:15727200-15728400	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chr7:15727400-15728200	Bivalent Enhancer	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr7:15727400-15728200	Flanking Bivalent TSS/Enh	Ganglion Eminence derived primary cultured neurospheres	brain
28	chr7:15727400-15728200	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
29	chr7:15727400-15728200	Bivalent/Poised TSS	Brain Substantia Nigra	brain
30	chr7:15727400-15728400	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
31	chr7:15727600-15728400	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
32	chr7:15727600-15728400	Flanking Bivalent TSS/Enh	iPS-18 Cell Line	embryonic stem cell
33	chr7:15727600-15728600	Bivalent Enhancer	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
34	chr7:15727600-15728600	Active TSS	Brain Anterior Caudate	brain
35	chr7:15727800-15728200	Bivalent Enhancer	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
36	chr7:15727800-15728200	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
37	chr7:15727800-15728200	Bivalent Enhancer	Fetal Intestine Small	intestine
38	chr7:15727800-15728200	Bivalent/Poised TSS	Fetal Muscle Trunk	muscle
39	chr7:15727800-15728400	Bivalent/Poised TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
40	chr7:15727800-15728800	Flanking Bivalent TSS/Enh	HUES48 Cell Line	embryonic stem cell
41	chr7:15727800-15729000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
42	chr7:15728000-15728200	Flanking Bivalent TSS/Enh	H1 Cell Line	embryonic stem cell
43	chr7:15728000-15728200	Bivalent Enhancer	H9 Derived Neuron Cultured Cells	ES cell derived
44	chr7:15728000-15728200	Bivalent/Poised TSS	iPS DF 6.9 Cell Line	embryonic stem cell
45	chr7:15728000-15728200	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
46	chr7:15728000-15728200	Active TSS	Brain Hippocampus Middle	brain
47	chr7:15728000-15728200	Flanking Bivalent TSS/Enh	Fetal Brain Female	brain
48	chr7:15728000-15728200	Bivalent Enhancer	Fetal Intestine Large	intestine
49	chr7:15728000-15728200	Bivalent Enhancer	Fetal Kidney	kidney
50	chr7:15728000-15728200	Flanking Bivalent TSS/Enh	Fetal Muscle Leg	muscle

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