Variant report

Variant	rs4380682
Chromosome Location	chr5:177022652-177022653
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:16)
CpG islands
(count:0)
Chromatin interactive
region (count:6)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:16 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	ZMIZ1	chr5:177022576-177022776	K562	blood:	n/a	n/a
2	POLR2A	chr5:177022481-177024108	GM12878	blood:	n/a	n/a
3	POLR2A	chr5:177021972-177024168	HepG2	liver:	n/a	n/a
4	POLR2A	chr5:177022342-177024210	GM12891	blood:	n/a	n/a
5	POLR2A	chr5:177021869-177024192	GM12878	blood:	n/a	n/a
6	POLR2A	chr5:177022469-177024193	K562	blood:	n/a	n/a
7	POLR2A	chr5:177020473-177024169	GM12891	blood:	n/a	n/a
8	POLR2A	chr5:177022632-177024414	K562	blood:	n/a	n/a
9	POLR2A	chr5:177020438-177025170	K562	blood:	n/a	n/a
10	SP1	chr5:177022427-177022801	H1-hESC	embryonic stem cell:	n/a	n/a
11	POLR2A	chr5:177021812-177024422	GM12892	blood:	n/a	n/a
12	POLR2A	chr5:177021724-177024535	GM12878	blood:	n/a	n/a
13	POLR2A	chr5:177022443-177023097	GM12892	blood:	n/a	n/a
14	POLR2A	chr5:177022193-177022971	GM12878	blood:	n/a	n/a
15	POLR2A	chr5:177021795-177024456	K562	blood:	n/a	n/a
16	POLR2A	chr5:177022032-177022958	GM12892	blood:	n/a	n/a

No data

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

No.	Distal block	Cell Line	Cell type
1	chr5:176980899..176984291-chr5:177021976..177024031,3	K562	blood:
2	chr5:176959784..176964247-chr5:177018558..177022874,5	MCF-7	breast:
3	chr5:176992384..176993998-chr5:177022547..177024754,2	K562	blood:
4	chr5:176994913..176997833-chr5:177022408..177024826,2	K562	blood:
5	chr5:176928239..176929895-chr5:177020806..177023092,2	MCF-7	breast:
6	chr5:176978409..176982516-chr5:177021399..177024969,5	MCF-7	breast:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-FAM193B-2	chr5:177022262-177022680	NONHSAT105441

No data

Variant related genes	Relation type
B4GALT7	TF binding region
ENSG00000146067	Chromatin interaction
ENSG00000272459	Chromatin interaction

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs28366804	0.89[AFR][1000 genomes]
rs28369161	0.86[AFR][1000 genomes]
rs28579905	0.86[AFR][1000 genomes]
rs28638182	0.82[AFR][1000 genomes]
rs28657538	0.86[AFR][1000 genomes]
rs28661084	0.86[AFR][1000 genomes]
rs56379693	0.89[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv916108	chr5:176688459-177078723	Weak transcription Genic enhancers Strong transcription Enhancers Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	138 gene(s)	inside rSNPs	diseases
2	nsv1024444	chr5:176751921-177427715	Weak transcription Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	142 gene(s)	inside rSNPs	diseases
3	esv2752795	chr5:176898619-177488281	Active TSS Strong transcription Flanking Active TSS Enhancers Weak transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	78 gene(s)	inside rSNPs	diseases
4	nsv1022630	chr5:176975746-177028082	Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Strong transcription Enhancers Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
5	nsv537966	chr5:176975746-177028082	Genic enhancers Strong transcription Flanking Active TSS Enhancers Active TSS Transcr. at gene 5' and 3' Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
6	nsv883181	chr5:176978496-177034786	Bivalent/Poised TSS Active TSS Weak transcription Enhancers Genic enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
7	nsv883182	chr5:176980995-177322056	Active TSS Transcr. at gene 5' and 3' Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases
8	nsv883183	chr5:177019379-177030351	Flanking Active TSS Strong transcription Active TSS Weak transcription Transcr. at gene 5' and 3' Enhancers Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	21 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	chr5:177020000-177023200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr5:177020400-177023600	Genic enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr5:177020400-177024000	Strong transcription	HUES48 Cell Line	embryonic stem cell
4	chr5:177020400-177024000	Strong transcription	HUES6 Cell Line	embryonic stem cell
5	chr5:177020400-177024000	Strong transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr5:177020400-177024000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr5:177020400-177024000	Strong transcription	Placenta Amnion	Placenta Amnion
8	chr5:177020400-177024200	Strong transcription	H1 Cell Line	embryonic stem cell
9	chr5:177020400-177024200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr5:177020400-177024200	Strong transcription	Fetal Intestine Large	intestine
11	chr5:177020400-177024200	Strong transcription	Thymus	Thymus
12	chr5:177020600-177023600	Strong transcription	iPS-15b Cell Line	embryonic stem cell
13	chr5:177020600-177023800	Strong transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr5:177020600-177023800	Strong transcription	H9 Cell Line	embryonic stem cell
15	chr5:177020600-177023800	Strong transcription	Brain Angular Gyrus	brain
16	chr5:177020600-177024000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr5:177020600-177024000	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
18	chr5:177020600-177024000	Strong transcription	iPS-18 Cell Line	embryonic stem cell
19	chr5:177020600-177024000	Strong transcription	Primary neutrophils fromperipheralblood	blood
20	chr5:177020600-177024000	Strong transcription	Primary T cells from cord blood	blood
21	chr5:177020600-177024000	Strong transcription	Primary hematopoietic stem cells	blood
22	chr5:177020600-177024000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr5:177020600-177024000	Strong transcription	Cortex derived primary cultured neurospheres	brain
24	chr5:177020600-177024000	Strong transcription	Fetal Lung	lung
25	chr5:177020600-177024000	Strong transcription	Ovary	ovary
26	chr5:177020600-177024200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr5:177020600-177024200	Strong transcription	HUES64 Cell Line	embryonic stem cell
28	chr5:177020600-177024200	Strong transcription	Fetal Intestine Small	intestine
29	chr5:177020800-177022800	Strong transcription	iPS DF 19.11 Cell Line	embryonic stem cell
30	chr5:177020800-177023600	Strong transcription	Primary T helper naive cells from peripheral blood	blood
31	chr5:177020800-177023800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
32	chr5:177020800-177023800	Strong transcription	Primary monocytes fromperipheralblood	blood
33	chr5:177020800-177023800	Strong transcription	Primary T helper cells fromperipheralblood	blood
34	chr5:177020800-177023800	Strong transcription	Brain Anterior Caudate	brain
35	chr5:177020800-177023800	Strong transcription	HSMMtube	muscle
36	chr5:177020800-177024000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
37	chr5:177020800-177024000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
38	chr5:177020800-177024000	Strong transcription	Muscle Satellite Cultured Cells	--
39	chr5:177020800-177024000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
40	chr5:177020800-177024000	Strong transcription	Lung	lung
41	chr5:177020800-177024000	Strong transcription	Rectal Mucosa Donor 31	rectum
42	chr5:177020800-177024000	Strong transcription	Right Ventricle	heart
43	chr5:177020800-177024000	Strong transcription	Sigmoid Colon	Sigmoid Colon
44	chr5:177020800-177024000	Strong transcription	Stomach Smooth Muscle	stomach
45	chr5:177020800-177024000	Strong transcription	A549	lung
46	chr5:177020800-177024000	Strong transcription	HMEC	breast
47	chr5:177020800-177024000	Strong transcription	HUVEC	blood vessel
48	chr5:177020800-177024000	Strong transcription	NHEK	skin
49	chr5:177020800-177024200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
50	chr5:177020800-177024200	Strong transcription	Monocytes-CD14+_RO01746	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links