Variant report

Variant	rs41299161
Chromosome Location	chr10:89578036-89578037
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:424)
CpG islands
(count:61)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:424 , 50 per page) page: 1 2 3 4 5 6 7 ... 9

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	SMARCC1	chr10:89577015-89578873	Hela-S3	cervix:	n/a	n/a
2	POU2F2	chr10:89577567-89578929	GM12878	blood:	n/a	n/a
3	POLR2A	chr10:89577507-89578460	U87	brain:	n/a	n/a
4	CEBPB	chr10:89577889-89578928	A549	lung:	n/a	n/a
5	FOXM1	chr10:89577133-89578521	GM12878	blood:	n/a	n/a
6	POLR2A	chr10:89577513-89578454	U87	brain:	n/a	n/a
7	BRCA1	chr10:89577508-89578339	HepG2	liver:	n/a	n/a
8	PAX5	chr10:89577606-89578608	GM12878	blood:	n/a	n/a
9	GABPA	chr10:89577703-89578184	GM12878	blood:	n/a	chr10:89578034-89578045
10	ELF1	chr10:89577406-89578631	GM12878	blood:	n/a	chr10:89577998-89578007
11	MAZ	chr10:89577498-89578865	Hela-S3	cervix:	n/a	n/a
12	SIN3AK20	chr10:89577812-89578169	PFSK-1	brain:	n/a	n/a
13	MAX	chr10:89577367-89578616	K562	blood:	n/a	n/a
14	E2F4	chr10:89577893-89578480	MCF10A-Er-Src	breast:	n/a	chr10:89578009-89578018 chr10:89578056-89578065
15	POLR2A	chr10:89577439-89578308	A549	lung:	n/a	n/a
16	SMARCC2	chr10:89576986-89578860	Hela-S3	cervix:	n/a	n/a
17	POLR2A	chr10:89577587-89578354	K562	blood:	n/a	n/a
18	TCF12	chr10:89577347-89578457	ECC-1	luminal epithelium:	n/a	n/a
19	EBF1	chr10:89577336-89578920	GM12878	blood:	n/a	chr10:89578680-89578691 chr10:89577647-89577660
20	GABPA	chr10:89577701-89578360	HL-60	blood:	n/a	chr10:89578034-89578045
21	EP300	chr10:89577764-89578083	GM12878	blood:	n/a	chr10:89578017-89578030 chr10:89578056-89578065
22	ETS1	chr10:89577425-89578244	A549	lung:	n/a	chr10:89578008-89578021 chr10:89577998-89578014 chr10:89577997-89578010
23	TAF1	chr10:89577751-89578234	GM12891	blood:	n/a	n/a
24	ETS1	chr10:89577775-89578241	A549	lung:	n/a	chr10:89578008-89578021 chr10:89577998-89578014 chr10:89577997-89578010
25	POLR2A	chr10:89577550-89578470	GM10847	blood:	n/a	n/a
26	TCF12	chr10:89577487-89578259	GM12878	blood:	n/a	n/a
27	ZEB1	chr10:89577739-89578840	GM12878	blood:	n/a	n/a
28	BACH1	chr10:89577656-89578527	H1-hESC	embryonic stem cell:	n/a	n/a
29	CEBPB	chr10:89575851-89578965	Hela-S3	cervix:	n/a	n/a
30	POLR2A	chr10:89577141-89579006	GM12892	blood:	n/a	n/a
31	TAF1	chr10:89577712-89578147	PFSK-1	brain:	n/a	n/a
32	POLR2A	chr10:89577023-89578946	HL-60	blood:	n/a	n/a
33	REST	chr10:89577770-89578327	SK-N-SH	brain:	n/a	n/a
34	GABPA	chr10:89577772-89578119	Hela-S3	cervix:	n/a	chr10:89578034-89578045
35	ARID3A	chr10:89578025-89578152	K562	blood:	n/a	n/a
36	MYC	chr10:89577469-89578202	MCF-7	breast:	n/a	n/a
37	POLR2A	chr10:89577041-89578881	GM19193	blood:	n/a	n/a
38	POLR2A	chr10:89577356-89578493	ECC-1	luminal epithelium:	n/a	n/a
39	ZNF143	chr10:89577636-89578251	H1-hESC	embryonic stem cell:	n/a	n/a
40	MYC	chr10:89577306-89578483	K562	blood:	n/a	n/a
41	POLR2A	chr10:89576033-89578894	Hela-S3	cervix:	n/a	n/a
42	TBP	chr10:89576532-89578841	GM12878	blood:	n/a	n/a
43	RCOR1	chr10:89577250-89578917	Hela-S3	cervix:	n/a	n/a
44	ELF1	chr10:89577519-89578279	MCF-7	breast:	n/a	chr10:89577998-89578007
45	REST	chr10:89576931-89579287	H1-neurons	neurons:	n/a	n/a
46	POLR2A	chr10:89577536-89578376	ProgFib	skin:	n/a	n/a
47	MXI1	chr10:89577462-89578328	H1-hESC	embryonic stem cell:	n/a	n/a
48	MXI1	chr10:89577357-89578869	Hela-S3	cervix:	n/a	n/a
49	YY1	chr10:89577383-89578111	A549	lung:	n/a	chr10:89578006-89578020 chr10:89577461-89577477
50	MAX	chr10:89577625-89578258	MCF-7	breast:	n/a	n/a

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

No.	Chromosome Location	Cell Line	Cell type	Cell Stage
1	chr10:89578019-89578069	NB4	blood:	n/a
2	chr10:89578019-89578069	MCF-7	breast:	n/a
3	chr10:89578019-89578069	HCF	heart:	n/a
4	chr10:89578019-89578069	AoSMC	blood vessel:	n/a
5	chr10:89578019-89578069	SKMC	muscle:	n/a
6	chr10:89578019-89578069	Jurkat	blood:	n/a
7	chr10:89578019-89578069	GM12891	blood:	n/a
8	chr10:89578019-89578069	PrEC	prostate:	n/a
9	chr10:89578019-89578069	NHDF-neo	bronchial:	n/a
10	chr10:89578019-89578069	AG09319	gingival:	n/a
11	chr10:89578019-89578069	PANC-1	pancreas:	n/a
12	chr10:89578019-89578069	HEEpiC	esophagus:	n/a
13	chr10:89578019-89578069	HNPCEpiC	eye:	n/a
14	chr10:89578019-89578069	MCF10A-Er-Src	breast:	n/a
15	chr10:89578019-89578069	Caco-2	colon:	n/a
16	chr10:89578019-89578069	HepG2	liver:	n/a
17	chr10:89578019-89578069	GM06990	blood:	n/a
18	chr10:89578019-89578069	HUVEC	blood vessel:	n/a
19	chr10:89578019-89578069	AG04450	lung:	fetal
20	chr10:89578019-89578069	NHBE	bronchial:	n/a
21	chr10:89578019-89578069	H1-hESC	embryonic stem cell:	embryo
22	chr10:89578019-89578069	U87	brain:	n/a
23	chr10:89578019-89578069	HRE	kidney:	n/a
24	chr10:89578019-89578069	HIPEpiC	eye:	n/a
25	chr10:89578019-89578069	HEK293	kidney:	embryo
26	chr10:89578019-89578069	HCPEpiC	choroid plexus:	n/a
27	chr10:89578019-89578069	GM12878	blood:	n/a
28	chr10:89578019-89578069	Hepatocyte	liver:	n/a
29	chr10:89578019-89578069	AG04449	skin:	fetal
30	chr10:89578019-89578069	GM12892	blood:	n/a
31	chr10:89578019-89578069	NT2-D1	testis:	n/a
32	chr10:89578019-89578069	AG09309	skin:	n/a
33	chr10:89578019-89578069	CMK	blood:	n/a
34	chr10:89578019-89578069	T-47D	breast:	n/a
35	chr10:89578019-89578069	HRCEpiC	kidney:	n/a
36	chr10:89578019-89578069	HRPEpiC	eye:	n/a
37	chr10:89578019-89578069	ECC-1	luminal epithelium:	n/a
38	chr10:89578019-89578069	HPAEpiC	pulmonary alveolar:	n/a
39	chr10:89578019-89578069	GM19239	blood:	n/a
40	chr10:89578019-89578069	BJ	skin:	n/a
41	chr10:89578019-89578069	IMR90	lung:	fetal
42	chr10:89578019-89578069	RPTEC	kidney:	n/a
43	chr10:89578019-89578069	HAEpiC	amniotic membrane:	n/a
44	chr10:89578019-89578069	SK-N-MC	brain:	n/a
45	chr10:89578019-89578069	ovcar-3	ovarian:	n/a
46	chr10:89578019-89578069	Hela-S3	cervix:	n/a
47	chr10:89578019-89578069	SK-N-SH	brain:	n/a
48	chr10:89578019-89578069	SAEC	small airway:	n/a
49	chr10:89578019-89578069	HCT-116	colon:	n/a
50	chr10:89578019-89578069	HL-60	blood:	n/a

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr1:44116091..44116658-chr10:89577728..89578268,2	HCT-116	colon:
2	chr10:89575333..89578815-chr10:89619388..89623763,5	K562	blood:
3	chr1:78444381..78445068-chr10:89577628..89578293,2	HCT-116	colon:
4	chr10:89577120..89579087-chr10:89622150..89625835,3	MCF-7	breast:
5	chr10:89575231..89578479-chr10:89619975..89624868,8	K562	blood:
6	chr10:89577659..89578611-chr5:78907933..78908541,2	Hela-S3	cervix:
7	chr10:89577385..89578083-chr11:61559882..61560539,2	Hela-S3	cervix:
8	chr10:89576079..89578102-chr10:89621664..89623913,2	MCF-7	breast:

No data

Variant related genes	Relation type
ATAD1	TF binding region
CFL1P1	TF binding region
CFL1P1	CpG island
ATAD1	CpG island
ENSG00000207601	Chromatin interaction
ENSG00000134825	Chromatin interaction
ENSG00000227268	Chromatin interaction
ENSG00000168496	Chromatin interaction
ENSG00000134824	Chromatin interaction
ENSG00000066135	Chromatin interaction
ENSG00000162616	Chromatin interaction
ENSG00000162613	Chromatin interaction
ENSG00000164329	Chromatin interaction
ENSG00000171862	Chromatin interaction

Extended variants
information (count: 6 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs35466694	1.00[AMR][1000 genomes]
rs35764348	1.00[ASN][1000 genomes]
rs72447144	1.00[ASN][1000 genomes]
rs74146212	0.83[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	nsv518233	chr10:89512839-89584002	Weak transcription Genic enhancers Enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
2	nsv1041462	chr10:89518729-89584284	Strong transcription Flanking Active TSS Weak transcription Genic enhancers Enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 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	chr10:89574800-89578600	Active TSS	Hela-S3	cervix
2	chr10:89574800-89578800	Active TSS	Right Atrium	heart
3	chr10:89575000-89579000	Active TSS	Psoas Muscle	Psoas
4	chr10:89575000-89579000	Active TSS	Right Ventricle	heart
5	chr10:89575200-89579000	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr10:89575400-89578600	Active TSS	K562	blood
7	chr10:89575600-89579200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
8	chr10:89575800-89578400	Active TSS	HMEC	breast
9	chr10:89576000-89578400	Active TSS	Primary hematopoietic stem cells short term culture	blood
10	chr10:89576200-89578400	Active TSS	NHLF	lung
11	chr10:89576200-89578600	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr10:89576200-89578800	Active TSS	ES-WA7 Cell Line	embryonic stem cell
13	chr10:89576200-89578800	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr10:89576200-89579000	Active TSS	ES-I3 Cell Line	embryonic stem cell
15	chr10:89576200-89579000	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
16	chr10:89576400-89578400	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr10:89576400-89578600	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
18	chr10:89576400-89578800	Active TSS	H1 Cell Line	embryonic stem cell
19	chr10:89576400-89578800	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
20	chr10:89576400-89578800	Active TSS	Breast Myoepithelial Primary Cells	Breast
21	chr10:89576400-89579000	Active TSS	Rectal Smooth Muscle	rectum
22	chr10:89576400-89579200	Active TSS	GM12878-XiMat	blood
23	chr10:89576600-89578200	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
24	chr10:89576600-89578200	Active TSS	Skeletal Muscle Male	skeletal muscle
25	chr10:89576600-89578400	Active TSS	HSMMtube	muscle
26	chr10:89576600-89578600	Active TSS	HUES48 Cell Line	embryonic stem cell
27	chr10:89576600-89578600	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
28	chr10:89576600-89578600	Active TSS	Brain Inferior Temporal Lobe	brain
29	chr10:89576600-89578600	Active TSS	Rectal Mucosa Donor 29	rectum
30	chr10:89576600-89578600	Active TSS	HSMM	muscle
31	chr10:89576600-89578800	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
32	chr10:89576600-89578800	Active TSS	NHDF-Ad	bronchial
33	chr10:89576600-89579000	Active TSS	H9 Cell Line	embryonic stem cell
34	chr10:89576600-89579000	Active TSS	HUES6 Cell Line	embryonic stem cell
35	chr10:89576600-89579000	Active TSS	Fetal Intestine Large	intestine
36	chr10:89576600-89579000	Active TSS	Stomach Mucosa	stomach
37	chr10:89576600-89579200	Active TSS	Stomach Smooth Muscle	stomach
38	chr10:89576600-89579400	Active TSS	A549	lung
39	chr10:89576800-89578400	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
40	chr10:89576800-89578400	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
41	chr10:89576800-89578400	Active TSS	Fetal Stomach	stomach
42	chr10:89576800-89578400	Active TSS	NHEK	skin
43	chr10:89576800-89578600	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
44	chr10:89576800-89578600	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
45	chr10:89576800-89578600	Active TSS	Fetal Intestine Small	intestine
46	chr10:89576800-89578600	Active TSS	Fetal Muscle Leg	muscle
47	chr10:89576800-89578600	Active TSS	Placenta	Placenta
48	chr10:89576800-89578600	Active TSS	Fetal Thymus	thymus
49	chr10:89576800-89578800	Active TSS	iPS-15b Cell Line	embryonic stem cell
50	chr10:89576800-89578800	Active TSS	iPS-18 Cell Line	embryonic stem cell

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