Variant report

Variant	rs540697936
Chromosome Location	chr9:96718680-96718681
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:61)
Chromatin interactive
region (count:3)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

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

No.	Chromosome Location	Cell Line	Cell type	Cell Stage
1	chr9:96718643-96718693	NT2-D1	testis:	n/a
2	chr9:96718643-96718693	GM19239	blood:	n/a
3	chr9:96718643-96718693	HAEpiC	amniotic membrane:	n/a
4	chr9:96718643-96718693	PrEC	prostate:	n/a
5	chr9:96718643-96718693	H1-hESC	embryonic stem cell:	embryo
6	chr9:96718643-96718693	T-47D	breast:	n/a
7	chr9:96718643-96718693	HEEpiC	esophagus:	n/a
8	chr9:96718643-96718693	HPAEpiC	pulmonary alveolar:	n/a
9	chr9:96718643-96718693	GM12891	blood:	n/a
10	chr9:96718643-96718693	IMR90	lung:	fetal
11	chr9:96718643-96718693	NB4	blood:	n/a
12	chr9:96718643-96718693	Jurkat	blood:	n/a
13	chr9:96718643-96718693	NHBE	bronchial:	n/a
14	chr9:96718643-96718693	MCF10A-Er-Src	breast:	n/a
15	chr9:96718643-96718693	AoSMC	blood vessel:	n/a
16	chr9:96718643-96718693	HCPEpiC	choroid plexus:	n/a
17	chr9:96718643-96718693	RPTEC	kidney:	n/a
18	chr9:96718643-96718693	ovcar-3	ovarian:	n/a
19	chr9:96718643-96718693	HMEC	breast:	n/a
20	chr9:96718643-96718693	AG04450	lung:	fetal
21	chr9:96718643-96718693	K562	blood:	n/a
22	chr9:96718643-96718693	HCT-116	colon:	n/a
23	chr9:96718643-96718693	AG10803	skin:	n/a
24	chr9:96718643-96718693	SK-N-MC	brain:	n/a
25	chr9:96718643-96718693	NHDF-neo	bronchial:	n/a
26	chr9:96718643-96718693	Hela-S3	cervix:	n/a
27	chr9:96718643-96718693	HRE	kidney:	n/a
28	chr9:96718643-96718693	PFSK-1	brain:	n/a
29	chr9:96718643-96718693	HCF	heart:	n/a
30	chr9:96718643-96718693	HRCEpiC	kidney:	n/a
31	chr9:96718643-96718693	HepG2	liver:	n/a
32	chr9:96718643-96718693	HRPEpiC	eye:	n/a
33	chr9:96718643-96718693	HCM	heart:	n/a
34	chr9:96718643-96718693	AG04449	skin:	fetal
35	chr9:96718643-96718693	A549	lung:	n/a
36	chr9:96718643-96718693	Caco-2	colon:	n/a
37	chr9:96718643-96718693	SK-N-SH_RA	brain:	n/a
38	chr9:96718643-96718693	LNCaP	prostate:	n/a
39	chr9:96718643-96718693	SKMC	muscle:	n/a
40	chr9:96718643-96718693	SK-N-SH	brain:	n/a
41	chr9:96718643-96718693	HUVEC	blood vessel:	n/a
42	chr9:96718643-96718693	HNPCEpiC	eye:	n/a
43	chr9:96718643-96718693	BJ	skin:	n/a
44	chr9:96718643-96718693	HEK293	kidney:	embryo
45	chr9:96718643-96718693	CMK	blood:	n/a
46	chr9:96718643-96718693	ProgFib	skin:	n/a
47	chr9:96718643-96718693	HIPEpiC	eye:	n/a
48	chr9:96718643-96718693	BE2_C	brain:	n/a
49	chr9:96718643-96718693	GM12892	blood:	n/a
50	chr9:96718643-96718693	Hepatocyte	liver:	n/a

(count:3 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr9:96709646..96715968-chr9:96715980..96721050,10	MCF-7	breast:
2	chr9:96718522..96721455-chr9:96725392..96727968,2	MCF-7	breast:
3	chr9:96713619..96716485-chr9:96717370..96719166,2	K562	blood:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-PTPDC1-1	chr9:96718116-96719150	XLOC_007466

No data

Variant related genes	Relation type
BARX1	CpG island
ENSG00000131668	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	nsv893589	chr9:96624645-96884544	Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Weak transcription Strong transcription Flanking Bivalent TSS/Enh 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	18 gene(s)	inside rSNPs	diseases
2	nsv824993	chr9:96699362-96725105	Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Enhancers Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv893590	chr9:96701287-96729129	Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Active TSS Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	esv3442102	chr9:96716156-96718704	Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Bivalent Enhancer Weak transcription Flanking Active TSS Enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	esv3412213	chr9:96716656-96718704	Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Flanking Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:96715000-96718800	Bivalent Enhancer	Spleen	Spleen
2	chr9:96716400-96718800	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
3	chr9:96717000-96718800	Bivalent/Poised TSS	Primary T cells from cord blood	blood
4	chr9:96717000-96719200	Active TSS	Stomach Smooth Muscle	stomach
5	chr9:96718000-96718800	Bivalent Enhancer	Primary B cells from peripheral blood	blood
6	chr9:96718000-96718800	Bivalent Enhancer	Brain Cingulate Gyrus	brain
7	chr9:96718200-96719400	Active TSS	Gastric	stomach
8	chr9:96718400-96718800	Bivalent Enhancer	H1 Cell Line	embryonic stem cell
9	chr9:96718400-96718800	Bivalent Enhancer	Primary T helper naive cells fromperipheralblood	blood
10	chr9:96718400-96718800	Bivalent/Poised TSS	Skeletal Muscle Male	skeletal muscle
11	chr9:96718400-96719000	Bivalent Enhancer	Primary B cells from cord blood	blood
12	chr9:96718400-96719000	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
13	chr9:96718400-96719000	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin02	Skin
14	chr9:96718400-96719200	Bivalent/Poised TSS	Stomach Mucosa	stomach
15	chr9:96718400-96719400	Bivalent Enhancer	ES-UCSF4 Cell Line	embryonic stem cell
16	chr9:96718400-96720800	Weak transcription	Right Atrium	heart
17	chr9:96718400-96721000	Bivalent Enhancer	iPS DF 19.11 Cell Line	embryonic stem cell
18	chr9:96718400-96721200	Weak transcription	Pancreas	Pancrea
19	chr9:96718400-96722000	Weak transcription	Hela-S3	cervix
20	chr9:96718600-96718800	Bivalent Enhancer	iPS-18 Cell Line	embryonic stem cell
21	chr9:96718600-96720400	Flanking Bivalent TSS/Enh	Fetal Stomach	stomach

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