Variant report

Variant	rs57963899
Chromosome Location	chr11:93468513-93468514
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:74)
CpG islands
(count:61)
Chromatin interactive
region (count:2)
LncRNA
region (count:4)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:74 , 50 per page) page: 1 2

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr11:93467421-93468933	GM12892	blood:	n/a	n/a
2	POLR2A	chr11:93460755-93469030	Hela-S3	cervix:	n/a	n/a
3	POLR2A	chr11:93458130-93475423	Hela-S3	cervix:	n/a	n/a
4	POLR2A	chr11:93466574-93468844	K562	blood:	n/a	n/a
5	POLR2A	chr11:93465161-93475401	Hela-S3	cervix:	n/a	n/a
6	POLR2A	chr11:93467911-93468938	K562	blood:	n/a	n/a
7	POLR2A	chr11:93460289-93472162	K562	blood:	n/a	n/a
8	POLR2A	chr11:93464966-93469000	MCF10A-Er-Src	breast:	n/a	n/a
9	POLR2A	chr11:93465505-93475492	MCF10A-Er-Src	breast:	n/a	n/a
10	POLR2A	chr11:93460849-93475367	GM18505	blood:	n/a	n/a
11	POLR2A	chr11:93467537-93469090	GM12878	blood:	n/a	n/a
12	POLR2A	chr11:93467487-93468789	Hela-S3	cervix:	n/a	n/a
13	POLR2A	chr11:93460250-93475527	HepG2	liver:	n/a	n/a
14	POLR2A	chr11:93467787-93468856	HCT-116	colon:	n/a	n/a
15	POLR2A	chr11:93459876-93475383	H1-hESC	embryonic stem cell:	n/a	n/a
16	POLR2A	chr11:93466346-93475414	GM12891	blood:	n/a	n/a
17	POLR2A	chr11:93460023-93475421	GM12878	blood:	n/a	n/a
18	HEY1	chr11:93467611-93468533	HepG2	liver:	n/a	n/a
19	POLR2A	chr11:93466956-93468533	HepG2	liver:	n/a	n/a
20	POLR2A	chr11:93467613-93468614	HepG2	liver:	n/a	n/a
21	POLR2A	chr11:93467581-93469037	GM12891	blood:	n/a	n/a
22	POLR2A	chr11:93466318-93469501	K562	blood:	n/a	n/a
23	HEY1	chr11:93467637-93468637	HepG2	liver:	n/a	n/a
24	POLR2A	chr11:93460630-93475546	PFSK-1	brain:	n/a	n/a
25	POLR2A	chr11:93467573-93469496	HepG2	liver:	n/a	n/a
26	POLR2A	chr11:93459823-93475456	HepG2	liver:	n/a	n/a
27	POLR2A	chr11:93467477-93468791	GM12891	blood:	n/a	n/a
28	PML	chr11:93467685-93468675	K562	blood:	n/a	n/a
29	USF2	chr11:93467874-93468539	Hela-S3	cervix:	n/a	n/a
30	PML	chr11:93467654-93469106	K562	blood:	n/a	n/a
31	POLR2A	chr11:93467471-93469080	SK-N-MC	brain:	n/a	n/a
32	POLR2A	chr11:93467451-93469057	HepG2	liver:	n/a	n/a
33	POLR2A	chr11:93467664-93468953	K562	blood:	n/a	n/a
34	POLR2A	chr11:93459661-93475348	K562	blood:	n/a	n/a
35	HEY1	chr11:93467882-93468715	K562	blood:	n/a	n/a
36	TAF7	chr11:93467804-93468969	H1-hESC	embryonic stem cell:	n/a	n/a
37	POLR2A	chr11:93460693-93469181	PFSK-1	brain:	n/a	n/a
38	POLR2A	chr11:93467834-93468814	H1-hESC	embryonic stem cell:	n/a	n/a
39	POLR2A	chr11:93466303-93469055	PANC-1	pancreas:	n/a	n/a
40	POLR2A	chr11:93467641-93469099	GM12878	blood:	n/a	n/a
41	POLR2A	chr11:93467415-93469097	Hela-S3	cervix:	n/a	n/a
42	POLR2A	chr11:93467422-93468972	HCT-116	colon:	n/a	n/a
43	POLR2A	chr11:93467889-93468922	HL-60	blood:	n/a	n/a
44	POLR2A	chr11:93467560-93468906	GM12891	blood:	n/a	n/a
45	POLR2A	chr11:93468403-93468925	K562	blood:	n/a	n/a
46	POLR2A	chr11:93467520-93468938	GM12891	blood:	n/a	n/a
47	POLR2A	chr11:93468331-93468536	U87	brain:	n/a	n/a
48	POLR2A	chr11:93466423-93469109	HepG2	liver:	n/a	n/a
49	POLR2A	chr11:93467469-93468957	H1-hESC	embryonic stem cell:	n/a	n/a
50	POLR2A	chr11:93460770-93475249	K562	blood:	n/a	n/a

(count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Cell Line	Cell type	Cell Stage
1	chr11:93468466-93468516	GM12878	blood:	n/a
2	chr11:93468466-93468516	Caco-2	colon:	n/a
3	chr11:93468466-93468516	H1-hESC	embryonic stem cell:	embryo
4	chr11:93468466-93468516	HRCEpiC	kidney:	n/a
5	chr11:93468466-93468516	HCT-116	colon:	n/a
6	chr11:93468466-93468516	HNPCEpiC	eye:	n/a
7	chr11:93468466-93468516	U87	brain:	n/a
8	chr11:93468466-93468516	PFSK-1	brain:	n/a
9	chr11:93468466-93468516	T-47D	breast:	n/a
10	chr11:93468466-93468516	AG09319	gingival:	n/a
11	chr11:93468466-93468516	NHBE	bronchial:	n/a
12	chr11:93468466-93468516	HEEpiC	esophagus:	n/a
13	chr11:93468466-93468516	PANC-1	pancreas:	n/a
14	chr11:93468466-93468516	SAEC	small airway:	n/a
15	chr11:93468466-93468516	ovcar-3	ovarian:	n/a
16	chr11:93468466-93468516	SK-N-SH	brain:	n/a
17	chr11:93468466-93468516	GM12892	blood:	n/a
18	chr11:93468466-93468516	HEK293	kidney:	embryo
19	chr11:93468466-93468516	IMR90	lung:	fetal
20	chr11:93468466-93468516	HRE	kidney:	n/a
21	chr11:93468466-93468516	Hela-S3	cervix:	n/a
22	chr11:93468466-93468516	AG04450	lung:	fetal
23	chr11:93468466-93468516	LNCaP	prostate:	n/a
24	chr11:93468466-93468516	HCM	heart:	n/a
25	chr11:93468466-93468516	HepG2	liver:	n/a
26	chr11:93468466-93468516	Jurkat	blood:	n/a
27	chr11:93468466-93468516	SKMC	muscle:	n/a
28	chr11:93468466-93468516	BJ	skin:	n/a
29	chr11:93468466-93468516	HPAEpiC	pulmonary alveolar:	n/a
30	chr11:93468466-93468516	NHDF-neo	bronchial:	n/a
31	chr11:93468466-93468516	HCPEpiC	choroid plexus:	n/a
32	chr11:93468466-93468516	HUVEC	blood vessel:	n/a
33	chr11:93468466-93468516	GM12891	blood:	n/a
34	chr11:93468466-93468516	NB4	blood:	n/a
35	chr11:93468466-93468516	HAEpiC	amniotic membrane:	n/a
36	chr11:93468466-93468516	HCF	heart:	n/a
37	chr11:93468466-93468516	RPTEC	kidney:	n/a
38	chr11:93468466-93468516	MCF10A-Er-Src	breast:	n/a
39	chr11:93468466-93468516	MCF-7	breast:	n/a
40	chr11:93468466-93468516	ProgFib	skin:	n/a
41	chr11:93468466-93468516	NH-A	brain:	n/a
42	chr11:93468466-93468516	HRPEpiC	eye:	n/a
43	chr11:93468466-93468516	PrEC	prostate:	n/a
44	chr11:93468466-93468516	SK-N-SH_RA	brain:	n/a
45	chr11:93468466-93468516	CMK	blood:	n/a
46	chr11:93468466-93468516	GM06990	blood:	n/a
47	chr11:93468466-93468516	AG04449	skin:	fetal
48	chr11:93468466-93468516	BE2_C	brain:	n/a
49	chr11:93468466-93468516	Hepatocyte	liver:	n/a
50	chr11:93468466-93468516	AG10803	skin:	n/a

(count:2 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:93462890..93477443-chr11:93512595..93526939,73	K562	blood:
2	chr11:93468490..93476714-chr11:93515963..93520210,25	MCF-7	breast:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-VSTM5-1	chr11:93468129-93469323	NONHSAT023671
2	lnc-VSTM5-1	chr11:93468129-93469341	NONHSAT023662
3	lnc-VSTM5-1	chr11:93465410-93469014	NONHSAT023663
4	lnc-KIAA1731-1	chr11:93467787-93469469	NONHSAT023682

No data

Variant related genes	Relation type
SNORD6	TF binding region
SNORD5	TF binding region
SNORA25	TF binding region
SNORA40	TF binding region
SNORA1	TF binding region
SNORA18	TF binding region
SNORA32	TF binding region
MIR1304	TF binding region
SNORA8	TF binding region
TAF1D	TF binding region
TAF1D	CpG island
SNORA25	CpG island
SNORA8	CpG island
SNORD6	CpG island
SNORA18	CpG island
MIR1304	CpG island
SNORD5	CpG island
SNORA40	CpG island
SNORA32	CpG island
SNORA1	CpG island
ENSG00000166012	Chromatin interaction
ENSG00000042429	Chromatin interaction

Extended variants
information (count: 14 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs56688979	1.00[AMR][1000 genomes]
rs57563658	1.00[AMR][1000 genomes]
rs58031262	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58563477	1.00[AMR][1000 genomes]
rs59651246	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59661241	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60309680	1.00[AMR][1000 genomes]
rs61077719	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61152073	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7933524	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv898181	chr11:93072843-93662459	Flanking Active TSS Weak transcription Enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	119 gene(s)	inside rSNPs	diseases
2	nsv898182	chr11:93381845-93637462	Strong transcription Genic enhancers Active TSS Enhancers Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	108 gene(s)	inside rSNPs	diseases
3	nsv832232	chr11:93401314-93549438	Weak transcription Enhancers Transcr. at gene 5' and 3' Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	104 gene(s)	inside rSNPs	diseases
4	nsv983054	chr11:93467678-93468968	Weak transcription Transcr. at gene 5' and 3' Genic enhancers Strong transcription Enhancers	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:93444800-93471000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr11:93449200-93471800	Weak transcription	Right Atrium	heart
3	chr11:93449600-93471800	Weak transcription	Esophagus	oesophagus
4	chr11:93450600-93471800	Weak transcription	Gastric	stomach
5	chr11:93450600-93473000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr11:93451600-93469800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr11:93451600-93470800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr11:93453800-93471200	Strong transcription	Monocytes-CD14+_RO01746	blood
9	chr11:93453800-93471800	Strong transcription	Fetal Muscle Leg	muscle
10	chr11:93453800-93471800	Strong transcription	Fetal Thymus	thymus
11	chr11:93453800-93472400	Strong transcription	Fetal Muscle Trunk	muscle
12	chr11:93454000-93470400	Strong transcription	HUES48 Cell Line	embryonic stem cell
13	chr11:93454400-93469000	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
14	chr11:93454400-93469400	Strong transcription	HUES64 Cell Line	embryonic stem cell
15	chr11:93454400-93469600	Strong transcription	iPS-18 Cell Line	embryonic stem cell
16	chr11:93454400-93469800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr11:93454400-93470000	Strong transcription	Primary B cells from peripheral blood	blood
18	chr11:93454400-93470800	Strong transcription	HUES6 Cell Line	embryonic stem cell
19	chr11:93454400-93471000	Strong transcription	Fetal Lung	lung
20	chr11:93454600-93471000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr11:93454600-93471000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
22	chr11:93454800-93471000	Strong transcription	Adipose Nuclei	Adipose
23	chr11:93455000-93471200	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
24	chr11:93455000-93471800	Strong transcription	Placenta	Placenta
25	chr11:93457400-93470200	Strong transcription	Brain Cingulate Gyrus	brain
26	chr11:93458400-93471800	Strong transcription	Stomach Smooth Muscle	stomach
27	chr11:93458600-93469400	Strong transcription	HMEC	breast
28	chr11:93458800-93471000	Strong transcription	H1 Cell Line	embryonic stem cell
29	chr11:93458800-93471000	Strong transcription	Duodenum Smooth Muscle	Duodenum
30	chr11:93458800-93471800	Strong transcription	Skeletal Muscle Female	skeletal muscle
31	chr11:93459400-93469600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
32	chr11:93459400-93470400	Strong transcription	Primary B cells from cord blood	blood
33	chr11:93459400-93473000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
34	chr11:93459600-93470200	Strong transcription	Cortex derived primary cultured neurospheres	brain
35	chr11:93459600-93471800	Strong transcription	Colon Smooth Muscle	Colon
36	chr11:93459800-93470800	Strong transcription	Brain Hippocampus Middle	brain
37	chr11:93460200-93471000	Strong transcription	Brain Inferior Temporal Lobe	brain
38	chr11:93460200-93471800	Strong transcription	Brain Anterior Caudate	brain
39	chr11:93460400-93471000	Strong transcription	Fetal Kidney	kidney
40	chr11:93461000-93471800	Strong transcription	Skeletal Muscle Male	skeletal muscle
41	chr11:93461200-93469000	Strong transcription	Left Ventricle	heart
42	chr11:93461200-93471000	Strong transcription	HSMMtube	muscle
43	chr11:93461400-93471800	Strong transcription	Rectal Smooth Muscle	rectum
44	chr11:93461600-93471000	Strong transcription	Primary hematopoietic stem cells	blood
45	chr11:93461800-93470000	Strong transcription	Brain Angular Gyrus	brain
46	chr11:93461800-93470600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
47	chr11:93462000-93468600	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
48	chr11:93462000-93471400	Strong transcription	Placenta Amnion	Placenta Amnion
49	chr11:93462400-93469200	Strong transcription	iPS DF 6.9 Cell Line	embryonic stem cell
50	chr11:93462400-93471000	Strong transcription	ES-I3 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links