Variant report

Variant	rs541269101
Chromosome Location	chr7:98971903-98971904
allele	C/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	TBP	chr7:98971826-98972395	HepG2	liver:	n/a	n/a
2	SIN3A	chr7:98971769-98972422	GM12878	blood:	n/a	chr7:98971956-98971967 chr7:98971865-98971878 chr7:98971776-98971789
3	EGR1	chr7:98971770-98972743	K562	blood:	n/a	chr7:98972455-98972465 chr7:98971821-98971831 chr7:98972304-98972314 chr7:98972411-98972424 chr7:98972268-98972281 chr7:98972670-98972680 chr7:98972676-98972689 chr7:98972303-98972313 chr7:98972265-98972279 chr7:98972676-98972689 chr7:98972615-98972628 chr7:98972455-98972468 chr7:98972617-98972627 chr7:98972305-98972318 chr7:98972679-98972688 chr7:98972454-98972469
4	HA-E2F1	chr7:98971556-98972273	MCF-7	breast:	n/a	chr7:98971821-98971830
5	ZNF143	chr7:98971785-98972239	H1-hESC	embryonic stem cell:	n/a	chr7:98972027-98972037 chr7:98972017-98972035
6	E2F6	chr7:98971679-98972431	K562	blood:	n/a	chr7:98971821-98971830 chr7:98972299-98972309 chr7:98972304-98972313 chr7:98972267-98972276
7	POLR2A	chr7:98971679-98973273	K562	blood:	n/a	n/a
8	E2F4	chr7:98971720-98972467	K562	blood:	n/a	chr7:98971821-98971830 chr7:98972299-98972309 chr7:98972304-98972313 chr7:98972267-98972276
9	YY1	chr7:98971735-98972520	GM12878	blood:	n/a	chr7:98972251-98972262 chr7:98971821-98971830 chr7:98972302-98972316 chr7:98972477-98972486 chr7:98972304-98972313 chr7:98972267-98972276
10	PML	chr7:98971508-98973607	GM12878	blood:	n/a	n/a
11	HDAC2	chr7:98971546-98972630	MCF-7	breast:	n/a	chr7:98971719-98971733 chr7:98971859-98971878
12	MAX	chr7:98971764-98972448	A549	lung:	n/a	chr7:98972310-98972320
13	YY1	chr7:98971687-98972756	GM12892	blood:	n/a	chr7:98972251-98972262 chr7:98971821-98971830 chr7:98972302-98972316 chr7:98972477-98972486 chr7:98972304-98972313 chr7:98972267-98972276 chr7:98972570-98972579
14	EBF1	chr7:98971744-98972276	GM12878	blood:	n/a	chr7:98972041-98972050 chr7:98972041-98972050
15	SIN3AK20	chr7:98971767-98972530	H1-hESC	embryonic stem cell:	n/a	n/a
16	CREB1	chr7:98971679-98972568	A549	lung:	n/a	n/a
17	POLR2A	chr7:98971605-98973262	K562	blood:	n/a	n/a
18	MAX	chr7:98971680-98972581	GM12878	blood:	n/a	chr7:98972310-98972320
19	HEY1	chr7:98971780-98972803	K562	blood:	n/a	chr7:98972303-98972318 chr7:98972048-98972063 chr7:98972032-98972047
20	FOXM1	chr7:98971859-98972640	GM12878	blood:	n/a	n/a
21	TAF1	chr7:98971709-98972506	H1-hESC	embryonic stem cell:	n/a	n/a
22	MAZ	chr7:98971659-98973416	K562	blood:	n/a	chr7:98972310-98972320 chr7:98973214-98973224 chr7:98972615-98972625
23	POLR2A	chr7:98971710-98973476	GM12891	blood:	n/a	n/a
24	ZNF263	chr7:98971684-98972069	HEK293-T-REx	kidney:	n/a	n/a
25	JUND	chr7:98971743-98972492	K562	blood:	n/a	chr7:98972305-98972314
26	POLR2A	chr7:98971523-98973442	K562	blood:	n/a	n/a
27	POLR2A	chr7:98971574-98976430	GM12878	blood:	n/a	n/a
28	POLR2A	chr7:98971737-98972478	PBDE	blood:	n/a	n/a
29	POLR2A	chr7:98971722-98973389	HUVEC	blood vessel:	n/a	n/a
30	CREB1	chr7:98971549-98973391	HepG2	liver:	n/a	n/a
31	E2F6	chr7:98971618-98972609	A549	lung:	n/a	chr7:98972538-98972548 chr7:98971821-98971830 chr7:98972299-98972309 chr7:98972304-98972313 chr7:98972267-98972276 chr7:98972479-98972489
32	POLR2A	chr7:98971733-98972488	HepG2	liver:	n/a	n/a
33	POLR2A	chr7:98971579-98974407	GM12892	blood:	n/a	n/a
34	TCF3	chr7:98971692-98972008	GM12878	blood:	n/a	n/a
35	POLR2A	chr7:98971501-98972621	PANC-1	pancreas:	n/a	n/a
36	POLR2A	chr7:98971697-98973507	GM12878	blood:	n/a	n/a
37	MYC	chr7:98971799-98971953	MCF-7	breast:	n/a	n/a
38	POLR2A	chr7:98971785-98973376	HepG2	liver:	n/a	n/a
39	CHD2	chr7:98971734-98972460	K562	blood:	n/a	n/a
40	CHD2	chr7:98971876-98972503	HepG2	liver:	n/a	n/a
41	RUNX3	chr7:98971808-98972537	GM12878	blood:	n/a	chr7:98971980-98971997
42	POLR2A	chr7:98971694-98973332	Gliobla	brain:	n/a	n/a
43	CHD2	chr7:98971840-98972593	H1-hESC	embryonic stem cell:	n/a	n/a
44	YY1	chr7:98971801-98971924	K562	blood:	n/a	chr7:98971821-98971830
45	POLR2A	chr7:98971803-98971967	GM12891	blood:	n/a	n/a
46	POLR2A	chr7:98971725-98973345	HepG2	liver:	n/a	n/a
47	POLR2A	chr7:98971624-98973518	GM12891	blood:	n/a	n/a
48	MTA3	chr7:98971488-98973553	GM12878	blood:	n/a	n/a
49	POLR2A	chr7:98971078-98973804	HepG2	liver:	n/a	n/a
50	CCNT2	chr7:98971669-98973383	K562	blood:	n/a	chr7:98972267-98972276 chr7:98972945-98972954 chr7:98971821-98971830 chr7:98972020-98972029 chr7:98972304-98972313

No.	Distal block	Cell Line	Cell type
1	chr1:167189667..167190400-chr7:98971709..98972550,2	Hela-S3	cervix:
2	chr7:98921655..98927239-chr7:98969297..98973851,7	MCF-7	breast:
3	chr7:98971332..98973489-chr7:99034701..99036393,2	MCF-7	breast:
4	chr17:56736227..56737813-chr7:98971869..98973511,2	MCF-7	breast:
5	chr7:98970391..98972681-chr7:99033800..99036309,2	K562	blood:
6	chr7:98971053..98973782-chr7:99000134..99003212,3	MCF-7	breast:
7	chr7:98923500..98925484-chr7:98970656..98974432,3	K562	blood:
8	chr7:98923522..98925484-chr7:98970656..98973873,3	K562	blood:
9	chr7:98971244..98973231-chr7:98989224..98993180,5	MCF-7	breast:
10	chr12:98986965..98987945-chr7:98971734..98972433,2	HCT-116	colon:
11	chr7:98954568..98956787-chr7:98970778..98974586,3	K562	blood:
12	chr7:98970407..98975516-chr7:99002028..99009396,17	MCF-7	breast:
13	chr7:98970740..98974571-chr7:99004724..99008680,16	MCF-7	breast:
14	chr7:98970545..98974719-chr7:98992685..98998543,7	MCF-7	breast:
15	chr7:98970980..98974747-chr7:98986775..98992580,7	MCF-7	breast:
16	chr7:98970993..98974296-chr7:98982055..98984760,3	K562	blood:
17	chr7:98970906..98973809-chr7:99047334..99049746,3	K562	blood:
18	chr7:98628892..98630976-chr7:98971592..98973183,2	K562	blood:
19	chr7:98968876..98974378-chr7:99004810..99008269,11	K562	blood:
20	chr7:98966757..98974253-chr7:98988800..98995304,7	K562	blood:
21	chr7:98970707..98973711-chr7:99034539..99037806,4	MCF-7	breast:
22	chr7:98959822..98968172-chr7:98968902..98974586,14	MCF-7	breast:
23	chr7:98923206..98924865-chr7:98971213..98972924,2	MCF-7	breast:

Variant related genes	Relation type
ARPC1B	TF binding region
ENSG00000202077	Chromatin interaction
ENSG00000106245	Chromatin interaction
ENSG00000106246	Chromatin interaction
ENSG00000241685	Chromatin interaction
ENSG00000143190	Chromatin interaction
ENSG00000272205	Chromatin interaction
ENSG00000106244	Chromatin interaction
ENSG00000242687	Chromatin interaction
ENSG00000160917	Chromatin interaction
ENSG00000075415	Chromatin interaction
ENSG00000130429	Chromatin interaction

Extended variants
information (count: 5 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3433144	chr7:98777878-99060209	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	62 gene(s)	inside rSNPs	diseases
2	nsv831068	chr7:98819572-99006481	Weak transcription Active TSS Genic enhancers Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	48 gene(s)	inside rSNPs	diseases
3	nsv831069	chr7:98948128-99127584	Active TSS Genic enhancers Weak transcription Enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
4	esv3409473	chr7:98971041-98973589	Weak transcription Active TSS Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	14 gene(s)	inside rSNPs	diseases
5	esv3422095	chr7:98971441-98974189	Flanking Active TSS Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:98970400-98972400	Transcr. at gene 5' and 3'	Foreskin Fibroblast Primary Cells skin01	Skin
2	chr7:98970600-98972000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr7:98970600-98972000	Enhancers	Placenta	Placenta
4	chr7:98970600-98972000	Weak transcription	Stomach Mucosa	stomach
5	chr7:98970800-98972000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr7:98970800-98973200	Weak transcription	Fetal Heart	heart
7	chr7:98970800-98977000	Weak transcription	Fetal Lung	lung
8	chr7:98971000-98990400	Weak transcription	Fetal Kidney	kidney
9	chr7:98971400-98972000	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
10	chr7:98971400-98972200	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
11	chr7:98971400-98972200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
12	chr7:98971400-98972200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr7:98971400-98972200	Flanking Active TSS	Adipose Nuclei	Adipose
14	chr7:98971400-98973200	Active TSS	H1 Cell Line	embryonic stem cell
15	chr7:98971400-98973400	Active TSS	ES-I3 Cell Line	embryonic stem cell
16	chr7:98971400-98973400	Active TSS	H9 Cell Line	embryonic stem cell
17	chr7:98971400-98973400	Active TSS	HUES64 Cell Line	embryonic stem cell
18	chr7:98971400-98973400	Active TSS	iPS-15b Cell Line	embryonic stem cell
19	chr7:98971400-98973400	Active TSS	iPS-18 Cell Line	embryonic stem cell
20	chr7:98971400-98973400	Active TSS	HSMM	muscle
21	chr7:98971400-98974200	Transcr. at gene 5' and 3'	Foreskin Fibroblast Primary Cells skin02	Skin
22	chr7:98971600-98972000	Flanking Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
23	chr7:98971600-98972000	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
24	chr7:98971600-98972000	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
25	chr7:98971600-98972000	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
26	chr7:98971600-98972000	Flanking Active TSS	K562	blood
27	chr7:98971600-98972200	Bivalent/Poised TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
28	chr7:98971600-98972200	Flanking Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
29	chr7:98971600-98972200	Flanking Active TSS	Primary hematopoietic stem cells	blood
30	chr7:98971600-98972200	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
31	chr7:98971600-98972200	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
32	chr7:98971600-98972200	Flanking Active TSS	Primary mononuclear cells fromperipheralblood	Blood
33	chr7:98971600-98972200	Flanking Active TSS	Liver	Liver
34	chr7:98971600-98972200	Active TSS	Brain Hippocampus Middle	brain
35	chr7:98971600-98972200	Flanking Active TSS	Colonic Mucosa	Colon
36	chr7:98971600-98972200	Flanking Bivalent TSS/Enh	Skeletal Muscle Male	skeletal muscle
37	chr7:98971600-98972200	Flanking Active TSS	Dnd41	blood
38	chr7:98971600-98972200	Flanking Active TSS	HMEC	breast
39	chr7:98971600-98972400	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
40	chr7:98971600-98973200	Active TSS	Brain Inferior Temporal Lobe	brain
41	chr7:98971600-98973200	Active TSS	Fetal Intestine Large	intestine
42	chr7:98971600-98973200	Active TSS	Lung	lung
43	chr7:98971600-98973200	Active TSS	Pancreas	Pancrea
44	chr7:98971600-98973200	Active TSS	Psoas Muscle	Psoas
45	chr7:98971600-98973200	Active TSS	Rectal Mucosa Donor 31	rectum
46	chr7:98971600-98973200	Active TSS	Skeletal Muscle Female	skeletal muscle
47	chr7:98971600-98973200	Active TSS	Stomach Smooth Muscle	stomach
48	chr7:98971600-98973400	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
49	chr7:98971600-98973400	Active TSS	HUES48 Cell Line	embryonic stem cell
50	chr7:98971600-98973400	Active TSS	iPS-20b Cell Line	embryonic stem cell

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