Variant report

Variant	rs549152742
Chromosome Location	chr19:39392598-39392599
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:3)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

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

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	KAP1	chr19:39392310-39392627	K562	blood:	n/a	n/a
2	SETDB1	chr19:39392291-39392715	U2OS	brain:	n/a	n/a
3	CBX3	chr19:39392305-39392681	K562	blood:	n/a	n/a

No data

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

No.	Distal block	Cell Line	Cell type
1	chr19:39338733..39343337-chr19:39388774..39392675,12	K562	blood:
2	chr19:39390700..39392797-chr19:39401919..39404314,3	K562	blood:
3	chr19:39320984..39323718-chr19:39390338..39392657,3	K562	blood:
4	chr19:39388836..39392687-chr19:39409083..39412619,5	K562	blood:
5	chr19:39389410..39392783-chr19:39420988..39423307,4	MCF-7	breast:
6	chr19:39338023..39344706-chr19:39388476..39392998,12	MCF-7	breast:
7	chr19:39391259..39393276-chr19:39393440..39395044,2	MCF-7	breast:
8	chr19:39338478..39344219-chr19:39387112..39393304,19	K562	blood:

No data

Variant related genes	Relation type
SIRT2	TF binding region
ENSG00000128626	Chromatin interaction
ENSG00000104823	Chromatin interaction
ENSG00000104835	Chromatin interaction
ENSG00000262484	Chromatin interaction
ENSG00000104824	Chromatin interaction

Extended variants
information (count: 4 )
Associated
traits (count: 0)

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	nsv1057899	chr19:39088319-39475493	Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Weak transcription Transcr. at gene 5' and 3' Enhancers Bivalent Enhancer Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	82 gene(s)	inside rSNPs	diseases
2	esv1837023	chr19:39190588-39425722	Active TSS Enhancers Weak transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	65 gene(s)	inside rSNPs	diseases
3	esv1798153	chr19:39338663-39399277	Weak transcription Flanking Active TSS Genic enhancers Enhancers Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases
4	nsv911674	chr19:39391547-39398631	Strong transcription Active TSS Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:39391000-39394800	Weak transcription	Spleen	Spleen
2	chr19:39391000-39395000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr19:39391000-39395800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr19:39391200-39392600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
5	chr19:39391200-39392600	Enhancers	Primary T killer memory cells from peripheral blood	blood
6	chr19:39391200-39394800	Weak transcription	Gastric	stomach
7	chr19:39391200-39395000	Weak transcription	Fetal Muscle Trunk	muscle
8	chr19:39391200-39395200	Weak transcription	Pancreas	Pancrea
9	chr19:39391200-39395400	Weak transcription	Aorta	Aorta
10	chr19:39391200-39395400	Weak transcription	Esophagus	oesophagus
11	chr19:39391200-39395600	Weak transcription	Sigmoid Colon	Sigmoid Colon
12	chr19:39391200-39420800	Weak transcription	Small Intestine	intestine
13	chr19:39391400-39392600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
14	chr19:39391400-39392600	Enhancers	Placenta	Placenta
15	chr19:39391400-39392600	Enhancers	Stomach Mucosa	stomach
16	chr19:39391400-39395200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
17	chr19:39391400-39395600	Weak transcription	Brain Germinal Matrix	brain
18	chr19:39391400-39397400	Weak transcription	Fetal Brain Female	brain
19	chr19:39391400-39397600	Weak transcription	Psoas Muscle	Psoas
20	chr19:39391400-39402200	Weak transcription	Fetal Brain Male	brain
21	chr19:39391600-39394800	Weak transcription	Brain Cingulate Gyrus	brain
22	chr19:39391600-39395000	Weak transcription	Stomach Smooth Muscle	stomach
23	chr19:39391600-39395000	Weak transcription	NHDF-Ad	bronchial
24	chr19:39391600-39395200	Weak transcription	H1 Cell Line	embryonic stem cell
25	chr19:39391600-39395200	Weak transcription	H9 Cell Line	embryonic stem cell
26	chr19:39391600-39395200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
27	chr19:39391600-39395200	Weak transcription	Colonic Mucosa	Colon
28	chr19:39391600-39395200	Weak transcription	Ovary	ovary
29	chr19:39391600-39395200	Weak transcription	Right Ventricle	heart
30	chr19:39391600-39397800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
31	chr19:39391600-39414800	Weak transcription	HMEC	breast
32	chr19:39391600-39420600	Weak transcription	Right Atrium	heart
33	chr19:39391800-39392600	Enhancers	iPS-15b Cell Line	embryonic stem cell
34	chr19:39391800-39392600	Enhancers	Primary T cells from cord blood	blood
35	chr19:39391800-39392600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
36	chr19:39391800-39392600	Enhancers	Brain Anterior Caudate	brain
37	chr19:39391800-39392600	Enhancers	HepG2	liver
38	chr19:39391800-39392600	Enhancers	Monocytes-CD14+_RO01746	blood
39	chr19:39391800-39392800	Enhancers	Primary T helper cells fromperipheralblood	blood
40	chr19:39391800-39392800	Enhancers	GM12878-XiMat	blood
41	chr19:39391800-39393600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
42	chr19:39391800-39394200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
43	chr19:39391800-39394800	Weak transcription	HUES6 Cell Line	embryonic stem cell
44	chr19:39391800-39395000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
45	chr19:39391800-39395000	Weak transcription	HUES48 Cell Line	embryonic stem cell
46	chr19:39391800-39395000	Weak transcription	Muscle Satellite Cultured Cells	--
47	chr19:39391800-39395000	Weak transcription	Cortex derived primary cultured neurospheres	brain
48	chr19:39391800-39395000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
49	chr19:39391800-39395000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
50	chr19:39391800-39395000	Weak transcription	Brain Inferior Temporal Lobe	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links