Variant report

Variant	rs368612140
Chromosome Location	chr6:13573486-13573487
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:13)
CpG islands
(count:0)
Chromatin interactive
region (count:23)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:13 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr6:13573481-13575699	MCF-7	breast:	n/a	n/a
2	POLR2A	chr6:13573329-13573548	K562	blood:	n/a	n/a
3	POLR2A	chr6:13571397-13575713	GM12891	blood:	n/a	n/a
4	HCFC1	chr6:13573290-13575937	Hela-S3	cervix:	n/a	n/a
5	JUN	chr6:13573478-13575888	K562	blood:	n/a	chr6:13574809-13574818 chr6:13574132-13574143 chr6:13575500-13575514 chr6:13574525-13574534
6	GATA1	chr6:13573091-13573656	PBDE	blood:	n/a	n/a
7	POLR2A	chr6:13571237-13575938	MCF10A-Er-Src	breast:	n/a	n/a
8	POLR2A	chr6:13573436-13574352	H1-hESC	embryonic stem cell:	n/a	n/a
9	POLR2A	chr6:13571477-13576346	MCF10A-Er-Src	breast:	n/a	n/a
10	HEY1	chr6:13573168-13574089	HepG2	liver:	n/a	n/a
11	POLR2A	chr6:13571250-13574366	SK-N-MC	brain:	n/a	n/a
12	CCNT2	chr6:13573287-13573548	K562	blood:	n/a	n/a
13	POLR2A	chr6:13572630-13576245	HepG2	liver:	n/a	n/a

No data

(count:23 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:13484664..13490672-chr6:13572714..13577234,9	K562	blood:
2	chr6:13572897..13576165-chr6:13619318..13622919,5	K562	blood:
3	chr6:13573088..13576408-chr6:13709684..13713261,5	MCF-7	breast:
4	chr6:13572710..13576955-chr6:13610549..13618685,22	MCF-7	breast:
5	chr6:13484642..13487748-chr6:13572714..13576594,3	K562	blood:
6	chr6:13573058..13574612-chr6:13812488..13814819,2	MCF-7	breast:
7	chr6:13573221..13576787-chr6:13710917..13713733,6	K562	blood:
8	chr21:46821773..46824180-chr6:13571587..13574488,2	MCF-7	breast:
9	chr6:13484393..13490113-chr6:13572102..13578017,14	MCF-7	breast:
10	chr6:13397579..13400126-chr6:13573111..13574727,2	MCF-7	breast:
11	chr6:13571943..13574615-chr6:13703735..13706256,3	K562	blood:
12	chr6:13573004..13578027-chr6:13613856..13617870,10	MCF-7	breast:
13	chr6:13571943..13574615-chr6:13703735..13705553,2	K562	blood:
14	chr6:13572493..13576795-chr6:13677578..13681816,6	K562	blood:
15	chr6:13572923..13577086-chr6:13614342..13617597,6	K562	blood:
16	chr6:13573217..13575552-chr6:13711779..13713289,2	K562	blood:
17	chr6:13572531..13574981-chr6:13813241..13815537,2	K562	blood:
18	chr6:13572776..13574707-chr6:13619444..13621662,2	MCF-7	breast:
19	chr6:13572897..13576165-chr6:13620913..13622919,3	K562	blood:
20	chr6:13571919..13573571-chr6:13626194..13627937,2	K562	blood:
21	chr6:13485388..13489511-chr6:13572660..13577514,13	MCF-7	breast:
22	chr6:13572865..13577994-chr6:13612366..13619020,17	K562	blood:
23	chr6:13280798..13285135-chr6:13573249..13575552,3	K562	blood:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-RANBP9-2	chr6:13572305-13574446	NONHSAT107810

No data

Variant related genes	Relation type
SIRT5	TF binding region
ENSG00000268059	Chromatin interaction
ENSG00000010017	Chromatin interaction
ENSG00000237786	Chromatin interaction
ENSG00000187461	Chromatin interaction
ENSG00000050393	Chromatin interaction
ENSG00000145990	Chromatin interaction
ENSG00000215022	Chromatin interaction
ENSG00000225921	Chromatin interaction
ENSG00000252966	Chromatin interaction
ENSG00000261071	Chromatin interaction

Extended variants
information (count: 2 )
Associated
traits (count: 0)

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	nsv532021	chr6:13232627-13805381	Active TSS Genic enhancers Strong transcription Enhancers Flanking Active TSS Weak transcription 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	74 gene(s)	inside rSNPs	diseases
2	esv3367329	chr6:13573423-13576971	Flanking Active TSS Active TSS Enhancers Weak transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	44 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:56 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:13560400-13573800	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr6:13562800-13573600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
3	chr6:13569000-13573600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr6:13570200-13573600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr6:13570200-13573800	Weak transcription	Fetal Intestine Large	intestine
6	chr6:13570400-13573800	Weak transcription	Spleen	Spleen
7	chr6:13570600-13573600	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr6:13570600-13573800	Weak transcription	Pancreatic Islets	Pancreatic Islet
9	chr6:13570800-13573600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr6:13571000-13573600	Weak transcription	Fetal Stomach	stomach
11	chr6:13571200-13573600	Weak transcription	HSMM	muscle
12	chr6:13571800-13573600	Weak transcription	Primary neutrophils fromperipheralblood	blood
13	chr6:13571800-13573600	Weak transcription	Lung	lung
14	chr6:13571800-13573800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
15	chr6:13572000-13573600	Weak transcription	Colonic Mucosa	Colon
16	chr6:13572000-13573800	Weak transcription	Primary B cells from cord blood	blood
17	chr6:13572000-13573800	Weak transcription	Fetal Muscle Trunk	muscle
18	chr6:13572200-13573600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
19	chr6:13572400-13573600	Enhancers	Liver	Liver
20	chr6:13572600-13573600	Enhancers	HUES64 Cell Line	embryonic stem cell
21	chr6:13572600-13573800	Enhancers	Brain Cingulate Gyrus	brain
22	chr6:13572800-13573600	Enhancers	Brain Anterior Caudate	brain
23	chr6:13572800-13574000	Weak transcription	Aorta	Aorta
24	chr6:13573000-13573600	Enhancers	K562	blood
25	chr6:13573200-13573600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr6:13573200-13573600	Enhancers	Right Ventricle	heart
27	chr6:13573200-13573600	Enhancers	Stomach Smooth Muscle	stomach
28	chr6:13573200-13573600	Enhancers	HepG2	liver
29	chr6:13573200-13573800	Enhancers	Fetal Brain Female	brain
30	chr6:13573200-13574000	Enhancers	Brain Substantia Nigra	brain
31	chr6:13573400-13573600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
32	chr6:13573400-13573600	Enhancers	HUES6 Cell Line	embryonic stem cell
33	chr6:13573400-13573600	Enhancers	iPS-18 Cell Line	embryonic stem cell
34	chr6:13573400-13573600	Enhancers	iPS-20b Cell Line	embryonic stem cell
35	chr6:13573400-13573600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
36	chr6:13573400-13573600	Enhancers	Primary hematopoietic stem cells short term culture	blood
37	chr6:13573400-13573600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
38	chr6:13573400-13573600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
39	chr6:13573400-13573600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
40	chr6:13573400-13573600	Enhancers	Brain Inferior Temporal Lobe	brain
41	chr6:13573400-13573600	Enhancers	Duodenum Mucosa	Duodenum
42	chr6:13573400-13573600	Enhancers	Duodenum Smooth Muscle	Duodenum
43	chr6:13573400-13573600	Enhancers	Fetal Heart	heart
44	chr6:13573400-13573600	Enhancers	Rectal Mucosa Donor 29	rectum
45	chr6:13573400-13573600	Enhancers	Skeletal Muscle Female	skeletal muscle
46	chr6:13573400-13573600	Enhancers	HMEC	breast
47	chr6:13573400-13573600	Enhancers	NHEK	skin
48	chr6:13573400-13573800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
49	chr6:13573400-13573800	Enhancers	iPS-15b Cell Line	embryonic stem cell
50	chr6:13573400-13573800	Enhancers	Primary hematopoietic stem cells	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links